2009 2010 Annual Report-Compressed

2009/2010
Annual Report
Department of
Bio and Brain
Engineering
CONTENTS
Foreword 4
1. Introduction 5
1.1. Background 6
1.2. History 6
1.3. Mission Statement 7
1.4. People 8
2. Department Activities 11
2.1. Department Regular Seminars 12
2.2. The 2nd KAIST Brain Symposium 14
2.3. A Chairman CHUNG Moon Soul’s first 15
visit to the CHUNG MOON SOOL
Building
2.4. Conferences and Meetings 16
2.5. Other Activities 19
3. Educational Activities 20
3.1. Undergraduate Program 21
3.2. Graduate Program 28
3.3. Degree Awardees 35
4. Research Activities 45
4.1. Research Progress 46
4.2. Undergraduate Research Projects 89
4.3. Research Institutes and Centers 92
5. Professional Activities 97
5.1. Keynote/Plenary/Invited Talks 98
5.2. Journal Editorship 104
5.3. Professional Society Membership 105
5.4. Conference Committee Membership 108
5.5. Awards and Honors 110
5.6. Extra Activities 112
6. Student Activities 115

6.1. Bioinians-News Letter 116
Appendix 117
A. Publication Lists 118
B. International and Domestic Patens 130
Foreword
I am pleased to declare that the year 2009 was especially a good year for our
Department. I am particularly delighted that Dr. Chung Moon Soul finally visited
CMS building and our Department. I also like to point out that after reviewing our
eight year old interdisciplinary educational program we successfully redesigned a
new curriculum. Our Department continues to grow: we welcomed two new
faculty members, Prof. Jung Kyoon Choi and Prof. Kwan-Su Yi. We now have 15
core faculty, 10 affiliated faculty, 13 adjunct faculty, 76 undergraduate students
and 157 graduate students, including 11 foreign students.
The big event that we have been waiting for since our Department was newly established in 2002 finally has
come. Dr. Chung Moon Soul, chairman of the KAIST board of trustees, who donated 30 billion won to KAIST,
visited CMS building that was built with his donation and named after him. We finally had a chance to show him
that his money was well spent indeed. Many deparment research groups including Prof. Chulhee Choi and his
group members demonstrated several breakthrough research achievements that they made. He expressed
great satisfaction after he witnessed enormous progress that we have made in our Department that he helped
build through his donation. I believe the happiest moment to him was when he met our students, the most
important product of our venture.
We continue to make progress in research and education not only in quantity but also in quality. Total 90
articles were published in peer-reviewed international journals in 2009 (6.0 publications per faculty members).
Excellence of our research achievements were recognized throughout the world, and our faculty members
were awarded numerous international awards and editorships. I would like to congratulate all professors and
students for their excellent achievements.
Finally, I would like to express my sincere appreciation to all department members for their valuable
contributions to the annual report of Bio and Brain Engineering.
Thank you very much.
Dongsup Kim
Professor and Department Head
Department of Bio and Brain Engineering, KAIST
2009/2010 Annual Report
Department of
Bio and Brain
Engineering
Introduction
1. Introduction 5
1.1. Background 6
1.2. History 6
1.3. Mission Statement 7
1.4. People 8
Bio and Brain Engineering
It is our mission at the Department of Bio and Brain Engineering to

rear specialized talent equipped to create new knowledge and added
value in the fields of Bioengineering and Brain Engineering, which will
lead the way for future societies by standing at the nexus of life
sciences, the medical sciences, and engineering. The Department of Bio
and Brain Engineering opened its doors in 2002 embracing the mission
of donor Moon-Soul Chung who said, “Foster talent and develop
technology that will feed and support future.” Analogous departments at
prestigious universities around the world began at similar times
indicating the cutting-edge nature of the department.
The Department of Bio and Brain Engineering discovers new

knowledge regarding all forms of life including the brain and by developing and industrializing technology that is applied in
engineering, the department seeks to foster talent that adds value to society. Broad knowledge is required to conduct
research in this field considering Bioengineering and Brain Engineering are broad fields.
Knowledge of biotechnology (BT) is essential because fundamentally, research is conducted regarding all life forms.
Furthermore, an understanding of the fundamentals of information technology (IT) and nanotechnology (NT) are necessary
in order to develop technology for practical use that can be applied to the human body.
Examples of the technology we want to develop:

Targets of application are life forms including the human body and brain included in the biotechnology field
Information technology that processes the information to materialize goods
Nanotechnology that miniaturizes goods.
1.1. Background
“The 21st century is the era of bio revolution.”

Everybody has the desire to live long, happy and healthy lives and this desire serves as the most important industrial
engine for making historical advancements towards becoming an information society from an industrial society. If we are
able to develop products that satisfy this desire, we can improve the quality and standard of life for all people while
developing value-added technology. The products needed for this endeavor are related to medical diagnosis and
treatment, brain and nerve information processing, and life care.
Compound knowledge and an interdisciplinary approach must be adopted to develop these kinds of bio and brain
engineering products. Because the possibility of new ideas arises through the fusion of knowledge from different fields, we
hope to develop value-added technology that will raise the quality of life. However, bio and brain engineering is a field for
the bold and creative considering multifarious fields must be studied in order to succeed.
1.2. History
The Department of Bio and Brain Engineering opened its doors as the Department of BioSystems in the spring of 2002
through private donations made by the former president of the Mirae Industry, Moon Soul Chung ($31.7 million) and
6 2009 | 2010 Annual Report

2009 | 2010 Annual Report
government funding ($21.2 million). The department was formed thanks to the vision of Mr. Chung who foresaw the fusion
discipline of bio and information technology gaining prominence in the future. BioSystems is an all-inclusive term,
embodying bio-information systems, bioelectronic systems, and bio-nano systems; it exemplifies the organic liaison we
seek between biology/medical science and engineering. “Biosystems” is a comprehensive idea, as its applicative fields
include molecules, cells, organs, individual entities, and ecosystems.
Statue of Moon-Soul Chung inside of The Chung Moon Soul Building
We have focused our research in the fields of bioengineering and brain engineering among the wide ranging field of
biosystems. We accepted our first master and doctoral students during the fall semester of 2002, and we started our
regular curriculum for undergraduates in the spring semester of 2003. We graduated our first student from the Master°Øs
Program in 2004 and our first doctoral student graduated in 2006.
Opening of the BioSystems Department

April 2, 2002
1.3. Mission Statement
[Mission] The mission of our department is to foster creative human resource that will generate new knowledge and
technology in the field of Bioengineering and Brain Engineering.
While endeavoring in this ambitious mission, we seek to develop technology that will raise the quality of life and open up
a new future for the people of Korea and the world.
[Strategy] Using the strengths of Korean electronics and information technology and focusing on BT fusion research
Bio and Brain Engineering 7

based on IT, we seek to make technical innovations in the bioengineering and brain engineering fields; while making
valuable contributions to Korea's industrial development, we intend to do our share in promoting world progress in
technology.
July 19, 2001 Agreement between Chairman Moon Soul Chung

and President Chang-Sun Hong
1.4. People
1.4.1. Professors
1.4.1.1. Regular Faculties (Name sorted by alphabet)
No. Name Laboratory

1 Kwang-Hyun Cho Laboratory for Systems Biology and Bio-Inspired Engineering
2 Young-Ho Cho NanoSentuating Systems Laboratory
3 Chulhee Choi Cell Signaling and BioImaging Laboratory
4 Jung Kyoon Choi Computational Genomics and Epigenomics Laboratory
5 Christopher D. Fiorillo Computational Neurophysiology Laboratory
6 Jaeseung Jeong Brain Dynamics Laboratory
7 Ki-Hun Jeong Biophotonics Laboratory
8 Yong Jeong Cognitive & Behavioral Neuroscience Laboratory
9 Dongsup Kim Protein Bioinformatics Laboratory
10 Doheon Lee Bio-Information System Laboratory
11 Kwang-Hyung Lee Neuro-Machine Interface Laboratory
12 Yoonkey Nam Neural Engineering Laboratory
13 Je-Kyun Park NanoBiotech Laboratory
14 Jong Chul Ye Bio Imaging Signal Processing Laboratory
15 Gwan-Su Yi Bioinformatics and Synthetic Biology Laboratory
1.4.1.2 Affiliated Faculties
No. Name Laboratory

1 Insung S. Choi Department of Chemistry
2 Jeounghoon Kim School of Humanities and Social Sciences
3 Sang Yup Lee Department of Chemical & Biomolecular Engineering

4 Seung-Hyo Lee Graduate School of Medical Science and Engineering
5 Soo-Young Lee Department of Electrical Engineering
6 DalHee Min Department of Chemistry
7 Hyun Wook Park Department of Electrical Engineering
8 Eui-Chelo Shin Graduate School of Medical Science and Engineering
9 Jennifer Hyunjong Shin School of Mechanical, Aerospace & Systems Engineering
10 Hoi-Jun Yoo Department of Electrical Engineering
1.4.1.3 Distinguished Visiting Professors
No. Name Laboratory

1 Zang-Hee Cho Gachon Neuroscience Research Institute
2 Dennis W Choi Emory University
3 Hee-Sup Shin KIST
1.4.1.4 Adjunct Faculties
No. Name Laboratory

1 Jin Woo Chang Yonsei University
2 Bong Hyun Chung Korea Research Institute of Bioscience & Biotechnology
3 Sang Jeon Jung Korea Research Institute of Bioscience & Biotechnology
4 Yong Won Jung Korea Research Institute of Bioscience & Biotechnology
5 Young-Bo Kim Gachon University of Medicine and Science
6 Kyeong-Su Lee Healthpia Co.
7 Seunggu Lee Responsible for Bio-Chemical Energy Research
8 Yong-Ho Lee Korea Research Institute of Standards and Science
9 Han-Oh Park Bioneer Co.
10 Yong Bum Shin Korea Research Institute of Bioscience & Biotechnology
11 Kyung Hyun Whang Korea Institute of Machinery & Materials
12 Soyeon Yi Korea Aerospace Research Institute
13 Seung-Schik Yoo Harvard Medical School
1.4.2. Staffs
No. Name Laboratory
1 Hyea Kyoung Choi Staff
2 Yu Jung Kang Staff
3 Song Hyun Kim Staff
4 Geon Seon Oh Staff
5 Young Sook Shin Team Leader

1.4.3. International Collaboration Faculty

No. Name Laboratory
1 Chong H. Ahn Univ. of Cincinnati, USA
2 Chul Woo Ahn UT Southwestem Medical Center. USA
3 Peter Bentley Univ. of College London, UK
4 Vincenzo Cutello Univ. of Catania, ltaly
5 Jongyoon Han MIT, USA
6 Sin-Ho Jung Duke University, USA
7 Chang-Jin "CJ" Kim UCLA, USA
8 Dae-Shik Kim Boston Univ. USA
9 Sun Kim Indiana Univ. USA
10 Daniel Lee Univ. of Pennsylvania, USA
11 Luke Lee Univ. of California at Berkeley, USA
12 Te-Won Lee Univ. of California at San Diego, USA
13 Bradley S. Peterson Columbia University, USA
14 Sebastian Seung MIT, USA
1.4.4. International Advisory Board

No. Name Laboratory
1 Chong H. Ahn Univ. of Cincinnati
2 Youngmin Kim Univ. of Washington
3 Kyung-Jip Min LG Chem
4 Hee-Sup Shin KIST
5 Bruce C. Wheeler Univ. of IIIinois at Urbana-Champaign

Department of
Bio and Brain
Engineering
Department Activities
2. Department Activities 11
2.1. Department Regular Seminars 12

2.2. The 2nd KAIST Brain Symposium 14
2.3. A Chairman CHUNG Moon Soul’s first visit 15
to the CHUNG MOON SOOL Building
2.4. Conferences and Meetings 16
2.5. Other Activities 19
2.1. Department Regular Seminars
2.1.1. 2009 Spring Semester

2.1.2. 2009 Fall Semester

2.2. The 2nd KAIST Brain Symposium (July 3, 2009 / Dream Hall, KAIST)

2.3. A Chairman CHUNG Moon Soul’s first visit to the CHUNG MOON SOOL Building
(October 19, 2009)

2.4. Conferences and Meetings
2.4.1. 7th Korea-U.S.A. Joint Symposium (September 27~29, 2009 / Dream Hall, KAIST)

2.4.2. The 4th APCTP-KAIST School Complex Network Analysis for Cortical Networks
(December 11-12, 2009 / Mirae Hall, KAIST)

2.4.3. The 1st Optical BioImaging Center-Viewworks Joint Workshop

(January 14, 2010 / #201 Chung Moon Sool Buildomg, KAIST)

2.5. Other Activities
2.5.1. Department Commencement Ceremony (Feb. 26, 2010)

Department of
Bio and Brain
Engineering
Educational Activities
3. Educational Activities 20
3.1. Undergraduate Program 21

3.2. Graduate Program 28
3.3. Degree Awardees 35
3.1. Undergraduate Program
3.1.1 Graduation Credits

At least 130 credits in total
General Courses Basic Courses Major Courses Elective

Research Total
Mandatory Elective Subtotal Mandatory Elective Subtotal Mandatory Elective Subtotal Course
6(9AU) 21 27(9AU) 26 6 32 14 28 42 24 5 130
3.1.2 General Course Requirements: At least 27 credits and 9AU

Mandatory General Course
- Students entering KAIST in 2009 and onward : 6 credits and 9AU
English Communication(1), Critical Thinking in English(2), Writing(3), Physical Education(4AU), Community
Service(2AU), Humanity/Leadership(2AU), Ethics and Safety II (1AU)
- Students entering KAIST between 2007 and 2008 : 7 credits and 9AU
English Communication I(1), English Communication II(1), English Reading&Writing(2), Writing(3), Physical
Education(4AU), Community Service(2AU), Humanity/Leadership(2AU), Ethics and Safety II (1AU)
English Communication I English Communication
English Communication II English Conversation
English Reading&Writing Critical Thinking in English
Elective General Course in Humanities & Social Science: at least 21 credits
- Students entering KAIST in 2009 and onward: at least 21 credits including at least 1 course in each of 2 divisions
among 3 divisions(Humanity, Society, Culture & Art)
- Students having entered KAIST before 2009: at least 21 credits including at least 1 course in each of 2 divisions
among 5 divisions(Science Technology; Literature and Art; History and Philosophy; Social Science; Foreign Language
and Linguistics) or at least 1 course in each of 2 divisions among 3 divisions(Humanity, Society, Literature&Art)
- Students entering KAIST in 2007 and onward should earn at least 18 credits through English lectures among the
21 credits required as Elective General Courses in Humanities & Social Science.
- Students having a double major take 12 credits without considering categories.
3.1.3 Basic Course Requirements: at least 32 credits

Mandatory Basic Courses: 26 credits
1 course among Fundamental Physics I (3), General Physics I (3), and Advanced Physics I (3)
1 course among Fundamental Physics II (3), General Physics II (3), and Advance Physics II (3)
1 course of General Physics Lab I (1)
1 course of Basic Biology (3) or General Biology (3)
1 course of Calculus I (3) or Honor Calculus I (3)
1 course of Calculus II (3) or Honor Calculus II (3)
1 course among Basic Chemistry (3), General Chemistry I (3), and Advanced Chemistry (3)
1 course of General Chemistry Lab I (1) or Advanced Chemistry Lab (1)
1 course of Basic Programming (3) or Advanced Programming (3)
Freshman Design Course: Introduction to Design and Communication(3)
Students having entered KAIST in 2007 or before : 23 credits ( ~ )

Elective Basic Courses: at least 6 credits (MAS109, MAS201)

Students with a double major take 3 credits or above including at least one course between MAS109 and MAS201
3.1.4. Major Course Requirements: at least 42 credits

Mandatory Major Course: at least 14 credits
Bioengineering Fundamentals, Molecular and Cellular Biology, Bioengineering Laboratory , Bioengineering
Laboratory
Elective Major Course: at least 28 credits
3.1.5. Elective Course Requirements

Probability and Statistics' (MAS250) should be taken after 2006.
3.1.6. Research Course Requirements: at most 7 credits

Graduation research: 3 credits (required)
Individual study: 2 or fewer credits
Seminar: 2 credits (required)
Students having a double major are exempt
3.1.7. English Proficiency Requirements for Graduation

Students are required to meet one of the following requirements on English proficiency before entering KAIST or
during their years of enrollment: 560 points in PBT TOEFL; 220 points in CBT TOEFL; 83 points in IBT TOEFL; 6.5 points
in IELTS; 720 points or 760/775 points in TOEIC (see below); or 599 points or 670/690 points in TEPS (see below).
Criteria for TOEIC and TEPS scores
- Students submitting scores from new TOEIC (held in May 2006 and onward) or TEPS held on March 1, 2007 and
onward: 720 points in TOEIC; or 599 points in TEPS
- Students submitting scores from old TOEIC (held before April 2006) or TEPS held before February 28, 2007: 775
points in TOEIC; or 690 points in TEPS
Students entering KAIST in 2008 and onward: 775 points in TOEIC; or 690 points in TEPS
Students entering KAIST in 2007 or before: 760 points in TOEIC; or 670 points in TEPS
3.1.8. Minor and Double Major

minor: 18 credits including mandatory major courses
double major: 40 credits including mandatory major courses
General and basic courses in undergraduate program are different from years of admission; therefore, students
entering KAIST before 2009 should refer to the Course Completion Requirements by Year of Admission.
3.1.9. Curriculum
Lecture: Lab.:
Classification Subject No. Subject Name Credit Semester Remark
(Assignment)
Mandatory BiS200 Bioengineering Fundamentals 3:0:3(6) Spring

Major BiS222 Molecular & Cellular Biology 3:0:3(6) Fall
Course BiS301 Bioengineering Laboratory 1:9:4(4) Spring

BiS350 Bioengineering Laboratory 1:9:4(4) Fall
BiS202 Cell Biology 3:0:3(4) Fall

BiS208 Biochemistry II 3:0:3(3) Fall
BiS221 General Biochemistry 3:0:3(6) Spring
BiS223 Physical Principles in Biological Systems 3:0:3(6) Spring
BiS225 Anatomy & Physiology 3:0:3(6) Spring
BiS232 Bio-Data Structures 3:0:3(6) Fall *CS206
BiS252 Bioinstrumentation Fundamentals 3:0:3(6) Fall
BiS321 Systems Biotechnology 3:0:3(6) Spring
BiS328 Brain Science Fundamentals 3:0:3(6) Fall
BiS332 Bio-database system 3:0:3(6) Fall
BiS351 Bio-Signal Processing 3:0:3(6) Spring
BiS352 System Modeling in Bioengineering 3:0:3(6) Fall
BiS354 Analog Microelectronics circuits 3:0:3(6) Fall
BiS355 Digital systems laboratory and bio-applications 3:0:3(6) Fall
BiS371 Biofluidics 3:0:3(6) Fall
BiS372 Dynamic Motion and Response 3:0:3(6) Fall
Elective BiS377 Biomechanics 3:0:3(6) Spring
Major BiS400 Special Topics in Bio and Brain Engineering 3:0:3(6) Spring, Fall
Course BiS401 Special Topics in Bio and Brain Engineering (1) 1:0:1(2) Spring, Fall
BiS402 Special Topics in Bio and Brain Engineering (2) 2:0:2(4) Spring, Fall
BiS410 Bioengineering Senior Project 1:6:3(3) Spring
BiS422 Science Communication & Leadership 3:0:3(6) Fall
BiS423 Molecular Biology 3:0:3(4) Spring *BS433
BiS424 Instrumental Analysis for Biomaterials 3:0:3(6) Fall *CH463
BiS425 Biotechnology Laboratory 1:6:3(3) Spring, Fall
BiS427 Computational Neuroscience 3:0:3(6) Spring
BiS432 Biomedical Statistics 3:0:3(6) Fall
BiS437 Bio-Data Engineering 3:0:3(6) Spring
BiS438 Bioinformatics 3:0:3(6) Fall
BiS451 Cognitive Neuroscience 3:0:3(6) Fall
BiS452 Biomedical Imaging 3:0:3(6) Fall
BiS470 BioNano Engineering 3:0:3(6) Spring
BiS471 Bio-inspired Systems 3:0:3(6) Spring
BiS472 Micro Heat & Mass transfer 3:0:3(4) Fall
BiS473 BioNano Laboratory 0:9:3(6) Fall
BiS490 Graduation Research 0:6:3

Research BiS495 Individual Study 0:6:1
BiS496 Seminar 1:0:1
*: Alternative courses
BiS400-level courses are admitted to the Master's degree program.

3.1.10. Description of Courses

BiS200 Bioengineering Fundamentals
This course discusses basic knowledges for interdisciplinary research area among biology, medical, information,
electronic and mechanical engineering. This course, also, provides common tool for scientific understanding of
biological operation mechanism, analysis of organism structure, and principle of life. Basic theory and tool for
recognition and detection, analysis and treatment, control and handling, storage and usage of biomaterials and
bioinformation are discussed.
BiS202 Cell Biology

A series of lectures on cell biological subjects; Cell composition, cell structure, Cell cycle regulation, cytoskeleton,
Membrane, Transport, Protein Sorting are given in this course.
BiS208 Biochemistry II
This course is a continuation of Biochemistry I and begins with photosynthesis and the synthesis of biological
macromolecules and their components. It focuses on DNA replication, recombination, and repair, RNA synthesis and
splicing, and protein synthesis and activation, and also looks at how cells sense and adapt to environmental changes.
BiS221 General Biochemistry

This course covers basics of biochemistry for describing biological phenomena and its application to biological
research.
BiS222 Molecular & Cellular Biology

This course covers fundamental topics in DNA chemistry, including: the structure and function of DNA, the
biosynthesis of DNA, the regulation of gene expression, and the mutation and DNA repair.
BiS223 Physical Principles in Biological Systems

This course covers physical principles including thermodynamics, mechanics, energetics, kinetics, transport
phenomena, and molecular forces that are needed to study and model the structure and function of biological
structures.
BiS225 Anatomy & Physiology

Human Physiology is a course designed to give students an introduction to the physiology (and anatomy) of the human
body that would be basic knowledge for bio and brain engineering. The student will learn how the body works, how to
maintain its normal functions and the consequences of injury or disease. Clinical aspects and contemporary
bioengineering application will also be introduced.
BiS232 Bio-Data Structures

This lecture introduces data structures and algorithms for computer programming. It covers design of data structures
and algorithms for bio-data analysis.
BiS252 Bioinstrumentation Fundamentals

As the basic course of the BioElectronics, the system analysis and modeling methods will be studied. Especially the
probabilistic models in both static and dynamic forms, the convolutive model for the linear time-invariant dynamic
systems, and the differential equation model for more general nonlinear time-variant biosystems will be introduced.
BiS301 Bioengineering Laboratory

This laboratory course provides the students with opportunities to understand and experience essential experiments in
the bioengineering area. Especially, it focuses nano-molecular bioengineering.

BiS321 Systems Biotechnology
This course discusses the basic concepts of systems biology and practical applications of bioengineering to biomedical,
food, environmental, energy and electronics industry. This course also covers the following topics in the field of new
biotechnology: the nature of living things and the principles of manipulating them; enabling technologies; different
approaches of biotechnology; specific applications such as medical, industrial, and environmental; and social issues
such as intellectual property, regulations, biotech business, and biowarfare.
BiS328 Brain Science Fundamentals

This course will cover the basic aspects of neuroscience with emphasizing of mechanistic structure and function of
neurons and networks of neurons. In addition, application of neuroscience of knowledge in engineering field will be
introduced.
BiS332 Bio-Database System

Fundamental structures, and operation principles of database systems are introduced in the viewpoint of handling bio-
data such as nucleotide / protein sequences, bio-molecule structures, and high dimensional numeric data. It covers
the entity-relationship model, relational model, SQL, XML, and database design methodologies.
BiS350 Bioengineering Laboratory

Instrumentation and computer interfaces are studied for bioinformatics and bioelectronics researches. We will first
study data acquisition and output as well as Analogue-to-Digital and Digital-to-Analogue data conversion. Then, term
projects will be conducted for measurements of biological signals such as EEG.
BiS351 Biological Signal Processing

Signal processing algorithms for biological signals and their applications are studied. We first study linear system
theory for the input-output relationship in time and frequency domains with Fourier transform. Then, z-transform of
digital signal is studied, and DFT and FFT algorithms are introduced for frequency analysis. Frequency filtering with
FIR / IIR filters and data analysis with PCA and k-means clustering are also studied.
BiS352 System Modeling in Bioengineering

Formal mathematical models such as Petri-nets, automata and hidden-Markov models are explained along with their
properties and analysis methods, respectively. Bio-sequences, protein motifs, protein structures, metabolic pathways,
signal pathways, and regulatory networks are represented and analyzed with such mathematical models.
BiS354 Analog Microelectronics Circuits

Basic operational principle and equivalent circuit models are introduced. Then, several circuits are studied for
rectifiers, amplifiers, and differential amplifiers are investigated. Also, wide-band amplifiers, feedback, output stage,
and OP amplifiers will be studied. Finally, several circuits are introduced for data conversion, frequency filtering, and
oscillators.
BiS355 Digital System Laboratory and Bio-Applications

Digital logic is studied for understanding operation of computing systems. Also, digital system design and computer
interface are studied. Especially, binary system, Boolian logic, combinatorial and sequential logic, and multiplier unit
are investigated. Also, basic operation of microprocessors are studied, and several experiments will be conducted with
microprocessors.
BiS371 Biofluidics
This course introduces basic concepts of biological transport phenomena and helps the design of micro/nanofluidic
devices for medical and biotechnological applications. This course also covers topics in biofluid mechanics, mass

transport, and biochemical interactions, with engineering concepts motivated by specific biological problems.
BiS372 Dynamic Motion and Response

This course offers fundamentals of the kinematics and dynamics involved in the motion of biological and engineering
systems. Focus has been placed on the understanding of the motion and dynamic behavior of the systems subject to
external dynamic forces and moments. Topics include kinematics, particle and rigid body dynamics, motion and
dynamic response, design and analysis of the biological and engineering systems.
BiS377 Biomechanics
This course offers fundamentals of the statics and mechanics involved in deformable biological and engineering
structures. Focus has been placed on the understanding of the internal status and behavior of deformable bodies
subject to external forces and moments at static equilibrium. Topics include static equilibrium, force and deformation,
stress and strain, yield and failure, design and analysis of the biological and engineering structures.
BiS400 Special Topics in Bio and Brain Engineering

Recent research trends and new research topics are investigated in the field of BioSystems. Special emphasis is given
to technologies related to fusion of bioinformatics, bioelectronics, and technology. The topic may be different for each
course offering, and the topic may be used as the co-title.
BiS401 Special Topics in Bio and Brain Engineering(1)

BiS402 Special Topics in Bio and Brain Engineering(2)

BiS410 Bioengineering Senior Project

Students learn how to integrate the bio-information, bio-electronics and bio-nano technologies while designing and
implementing bio-fusion systems. All research teams are required to present the results, and write a paper.
BiS422 Science Communication & Leadership

‘Science Communication and Leadership’ provide students with scientific (or technical) writing for the public and
presentation to the scientists and the public. It also provide them with an opportunity to improve their own leadership.
BiS423 Molecular Biology

This course covers fundamental topics and experimental techniques of cellular and molecular biology. Special topics
include transcription, translation, and DNA replication, etc.
BiS424 Instrumental Analysis for Biomaterials

Basic principles and applications of analytical chemistry and instruments in biological sciences will be covered and
discussed in this course.
BiS425 Biotechnology Laboratory

The objective of this experimental course is to provide students with the basic skills and knowledge for biochemistry
and molecular biology.
BiS427 Computational Neuroscience

Information coding and unsupervised learning in biological neural systems are studied. We will first study simple
neuron models for neural pulse generation and information representation. Then, self-organizing learning algorithms
of massive neural systems will be introduced, and their clustering and Classification performance will be studied.
BiS432 Biomedical Statistics

Basic methods of bioinformatics are introduced, which includes bio-database search techniques, bioinformatics
software applications, sequence alignment, mRNA expression analysis, and protein expression analysis. In addition,
basic statistical techniques for bioinformatics are introduced.
BiS437 Bio-Data Engineering

This course introduces essential concepts and techniques in computer software and hardware for developing
biosystems. Core software techniques including operating systems, database systems, and artificial intelligence are
explained.
BiS438 Bioinformatics
Algorithms and application programs in bioinformatics for studying BioSystems are discussed. Topics include bio-
database search, sequence alignment, gene prediction, protein structure prediction, microarray data analysis, and
biological network.
BiS451 Cognitive Neuroscience

Human cognitive functions are understood and their mathematical models are developed. We first study measurement
techniques for brain signals such as EEG and fMRI. Then, cognitive models are developed for learning, memory,
language, emotion, and behavior.
BiS452 Biomedical Imaging

This course introduces major medical imaging methods including X-ray computed tomography, magnetic resonance
imaging, x-ray crystallography, positron emission tomography, ultrasound, microscope, and optical imaging systems.
Each of these modalities will be explained from basic imaging physics to advanced imaging mathematics.
BiS470 BioNano Engineering

This course offers science and technology fundamentals involved in BioNanoEngineering. Topics include the
principles, materials and applications of electromechanical, thermofluidic, biochemical and optoradiative functions in
bio-oriented and bio-inspired nanoengineering systems.
BiS471 Bio-Inspired Systems

This course provides scientific foundation and engineering platform for the bio-inspired systems, where bio-inspired
sensors, actuators and controllers are linked together to achieve new or advanced functions. Topics include the
physical and functional analogy of biological and engineering systems; the principles and methods of sensory,
locomotive and neural functions; the quantitative analysis and engineering design of bio-inspired systems. Required
are the technical reporting and the oral presentation of term projects on bio-inspired systems for applications to the
areas of information and communication, electronics and appliance, automotive and aerospace, biomedical diagnosis,
environmental monitoring and/or industrial instrumentation.
BiS472 Micro Heat & Mass Transfer

This course discusses analysis tool and phenomenon of heat and mass transfer in microregion, and provides micro
heat transfer through conduction, convection and radiation. Also, basic principles and applications of material diffusion
and reaction are discussed.

BiS473 Bio-Nano Laboratory

This course provides hand-on experiences on the microfabrication and characterization of bio-oriented and bio-
inspired microelectromechanical systems (bio-MEMS). Lecture and laboratory topics include the basic fabrication
technologies and process monitoring methods for bio-MEMS devices for BINT (Bio-Information-Nano Technology)
applications. Required are the experimental work and laboratory reports on the fabrication process and
characterization results. Submission and oral presentation of final term papers are also required.
BiS490 Graduation Research
BiS495 Individual Study
BiS496 Seminar
3.2. Graduate Program
3.2.1 Master's Program: at least 33 credits

(at least 21 credits for coursework + at least 12 research credits)
Major Courses Research

General Courses (including Seminar(2), Bio-Fusion Total
Mandatory Elective Seminar(2) credits)
3 0 18 12 33
3.2.2 Doctoral Program: at least 60 credits

(at least 30 credits for coursework + at least 30 research credits)
Major Courses Research

General Courses (including Seminar(2), Bio-Fusion Total
Mandatory Elective Seminar(2) credits)
3 0 27 30 60
3.2.3 Curriculum
Lecture: Lab.:
Classification Subject No. Subject Name Credit Semester Remark
(Assignment)
Mand- CC010 Special Lecture on Leadership 1:0:0 Fall

atory CC020 Ethics and Safety I 1AU Spring, Fall
CC500 Scientific Writing 3:0:3 Spring, Fall
Mand- CC510 Introduction to Computer Application 2:3:3 Spring, Fall
atory CC511 Probability and Statistics 2:3:3 Spring, Fall
General Choose CC512 Introduction to Materials and Engineering 3:0:3 Spring, Fall
Course 1 CC513 Engineering Economy and Cost Analysis 3:0:3 Fall
CC522 Introduction to Instruments 2:3:3 Fall
CC530 Entrepreneurship and Business Strategies 3:0:3 Fall
CC531 Patent Analysis and Invention Disclosure 3:0:3(6) Spring, Fall
BiS500 Bioinformation and Bioelectronics 3:0:3(3) Spring

BiS510 Technology Commercialization and Venture Business 3:0:3(6) Spring
BiS521 Biology for Engineers 3:0:3(6) Spring
BiS522 Genomics and Proteomics 3:0:3(4) Fall
BiS523 Information and Electronics for Scientists 3:0:3(6) Spring
BiS524 Biopharmaceuticals 3:0:3(6) Fall
BiS525 Brain Dynamics 3:0:3(6) Spring
BiS526 Methods in Neuroscience 3:0:3(6) Spring
BiS527 Neurophysiology and Information 3:0:3(6) Spring
BiS531 Genome Bioinformatics 3:0:3(6) Spring
BiS532 Bioinformatics Laboratory 2:3:3(6) Fall
BiS533 Computing Technology 3:0:3(6) Spring, Fall
BiS534 Systems Biology 3:0:3(6) Spring
BiS536 Proteome Bioinformatics 3:0:3(6) Fall
BiS551 Medical Image Processing 3:0:3(3) Spring
BiS552 Digital Biomedical Signal Processing 3:0:3(6) Fall
BiS553 Biophotonics 3:0:3(6) Spring
BiS554 Neural Networks 3:0:3(6) Fall *EE538
BiS571 BioElectroMechanics 3:0:3(6) Spring
BiS572 Microtransducers and Laboratory 2:3:3(6) Fall
BiS622 Metabolic Engineering 3:0:3(3) Fall
BiS627 Clinical Neuroscience 3:0:3(3) Spring
Elective
BiS631 Data Mining 3:0:3(6) Spring
Major
BiS632 Biostatistics 3:0:3(6) Spring, Fall
Course
BiS633 Bio-Intelligence 3:0:3(6) Spring
BiS634 Database Construction 3:0:3(6) Fall
BiS651 Hearing and Auditory Model 3:0:3(6) Spring
BiS652 Human Visual Model 3:0:3(6) Fall
BiS653 Biomedical Imaging System 3:0:3(6) Spring *EE737
BiS671 Nanomaterial Process and Behavior 3:0:3(4) Spring
BiS672 Nano Electro Mechanical Systems 3:0:3(4) Fall
BiS673 Bioelectronic Devices 3:0:3(6) Spring
BiS721 Computational Cell Biology 3:0:3(6) Spring
BiS722 Cell Signaling Network 3:0:3(6) Fall
BiS723 Advanced Cognitive Neuroscience 3:0:3(6) Fall
BiS731 Bio-Pattern Recognition 3:0:3(6) Spring
BiS732 Bio-Network 3:0:3(6) Spring, Fall
BiS735 Computer Graphics and Bio-Application 2:3:3(6) Spring *CS580
BiS752 Neural Engineering 3:0:3(6) Spring
BiS771 Nanobiotechnology 3:0:3(4) Spring
BiS772 Nano-Micro-Machining Process Laboratory 2:3:3(4) Fall
BiS800 Special Lectures in Bio and Brain Engineering 3:0:3(6) Spring, Fall
BiS801 Special Lectures in Bio and Brain Engineering (1) 1:0:1(2) Spring, Fall
BiS802 Special Lectures in Bio and Brain Engineering (2) 2:0:2(4) Spring, Fall
BiS810 Leadership & Communication 3:0:3(6) Fall
BiS960 Thesis/Dissertation Research (Master)
Research
BiS965 Individual Study (Master)

BiS966 Seminar (Master) 1:0:1

BiS980 Thesis/Dissertation Research (Doctoral)
Research
BiS986 Seminar (Doctoral) 1:0:1
BiS987 Biofusion Seminar 1:0:1 Spring, Fall
* : Alternative courses
BiS500-level courses are admitted to the undergraduate program.
3.2.4. Description of Courses

BiS500 Bioinformation and Bioelectronics
This course discusses recent research trend of interdisciplinary research area among biology, medical, information,
electronic and mechanical engineering. By providing the newest research method and application of
bioelectroinformatic systems, this course serves design, analysis and development ability for bioelectroinformatic
systems.
BiS510 Technology Commercialization and Venture Business
Technology Commercialization and Venture Business provide students with theoretical and practical basis for
commercialization of cutting edge technologies and establishment of venture business.
BiS521 Biology for Engineers
This course deals with biology fundamentals and associated subjects required for engineers to understand and acquire
multidisciplinary technology in the fused areas of biological sciences and engineering. To accommodate those who do
not have the biological background, the course covers the biological principles and engineering applications of general
biology including: biochemistry, genetics, and physiology. Subsequently, special emphasis is placed on applying
engineering concepts to biological problems.
BiS522 Genomics and Proteomics
This course describes the determination of the nucleotide sequence as well as many further analyses used to discover
functional and structural gene information on all the genes of an organism. This course deals with the basic genetic
analysis on a genome-wide scale.
BiS523 Information and Electronics for Scientists
This course is designed to provide basic knowledge on the information and electronics for the biosystems education
and researches. The first half will be devoted to C language, while selected topics from undergraduate Electrical
Engineering courses will be taught at the second half.
BiS524 Biopharmaceuticals
This course offers scientific and engineering principles related to biopharmaceuticals, new paradigm for disease
treatment and dignosis.
BiS525 Brain Dynamics
This course describes various brain functions with a dynamical point of view and briefly reviews the theoretical aspects
of brain functions using nonlinear dynamics and information theory.
BiS526 Methods in Neuroscience
‘Methods in Neuroscience’ is designed for graduate students to provide with neuroimaging technologies to monitor
neural activities. We introduce novel imaging technology like two-photon microscope and NIRS and how they offer

insight in how the brain works.
BiS527 Neurophysiology and Information
The purpose of this course is to relate the mechanistic function of the brain to theoretical principles of information and
the computational goal of the brain. The course will assume basic knowledge of neuroscience. It will briefly cover
cellular and systems neurophysiology before exploring theories of information processing in the nervous system.
BiS531 Genome Bioinformatics
Fundamental bioinformatics techniques including sequence analysis, genomic sequencing, protein motif analysis,
cDNA chip data analysis, SNP analysis, 2D PAGE and MALDI analysis, and pathway analysis, are explained for
bioinformatics software developers and practitioners.
BiS532 Bioinformatics Laboratory
The operation principles and application methods of essential bioinformatics software are exercised, which include
sequence search, multiple sequence alignment, motif search, mRNA expression analysis, protein expression analysis,
metabolic pathway analysis, signal transduction analysis, regulatory network, and so on. In addition, search methods
for various bio-databases are exercised.
BiS533 Computing Technology
Strength and limitation of modern computing technology is discussed fundamentally in depth. It manifests the inherent
characteristics of bio-information and electronics systems based on modern computing technology. This insight leads
to creative discussion about novel computing paradigms based on biological principles.
BiS534 Systems Biology
This course is an introduction to systems biology with a particular focus on interdisciplinary approaches to unravel
complex requlatory mechanisms in various life phenomena.
BiS536 Proteome Bioinformatics
Information processing techniques for genomics and proteomics are discussed. After introducing the principles of
various genomics experiments, informatics techniques for gene discovery, comparative genomics and gene expression
analysis are discussed. In addition, proteome informatics for protein expression analysis, protein-protein interaction
analysis and virtual cell simulation is discussed.
BiS551 Medical Image Processing
Processing and visualization of biomedical images are studied for medical diagnosis. Basic theories for biomedical
image acquisition, processing, visualization, image fusion and registration, 3-D visualization, and virtual reality for
medical operations are discussed.
BiS552 Digital Biomedical Signal Processing
Advanced digital signal processing techniques are discussed for biological signals. Especially, digital signal processing
methods are studied for detection, wavelet, time-frequency joint representation, and FIR/IIR filters. Also, Wiener,
Kalman, eigen, and LMS adaptive filters are studied with their applications to biological signals.
BiS553 Biophotonics
This course teaches fundamental principles and contemporary applications of biophotonics. It will cover ray and wave
optics, fiber optics, photonics semiconductors and biophotonic materials for understanding modern biophotonic
sensing and imaging techniques.
BiS554 Neural Networks
Theory, applications, and implementations are studied. We first introduce two basic learning rules, i.e., Hebbian

learning rule and error back-propagation rule, and discuss network architectures and learning algorithms for several
neural network models. Major applications and neuromorphic hardware implementations are also studied.
BiS571 BioElectroMechanics
This course provides electromechanics for understanding and analysis of biomechatronic systems. An analogy
between mechanical systems and electrical systems, modeling of electromechanical systems, and working principles
of biomedical, diagnostic, surgery and therapeutic equipments are discussed.
BiS572 Microtransducers and Laboratory
This course discusses working principles, materials, configurations and performance specifications of
microtransducers based on MEMS technology. On these basis, experiments using mechanical, electrical, optical,
thermofluidic and biochemical microtransducers, are provided.
BiS622 Metabolic Engineering
This course introduces the basic theory and practical applications of metabolic engineering offering systematic
analysis of complex metabolic pathways and ways of employing recombinant DNA techniques to alter cell behavior,
metabolic patterns, and product formation.
BiS627 Clinical Neuroscience
This course will introduce neurological diseases and psychiatric disorders which give perturbation to nervous system.
This will give students more understanding of nervous system and application of bioengineering technique for
treatment or rehabilitation.
BiS631 Data Mining
Data mining techniques to discover useful patterns and regularities from the vast amount of bio-data are explained.
After understanding the principles of representative data mining tasks such as classification, clustering, and
association discovery, actual experiments using existing data mining software systems are performed.
BiS632 Biostatistics
Statistical principles and techniques such as probability distribution, hypothesis testing, regression, principal
component analysis, which can be applied to various bioinformatics tasks, are introduced. Such statistical techniques
are explained along with their applications to bio-sequence homology search, structure homology search, mRNA
expression analysis, protein expression analysis, and so on.
BiS633 Bio-Intelligence
The principles and applications of intelligent systems, simulating and representing bio-mechanism, are discussed.
After introducing genetic algorithms, evolutionary computing, fuzzy computing, and artificial neural networks, creative
ideas for novel computing paradigms are discussed.
BiS634 Database Construction
System architectures and database design methodologies for constructing bio-databases are discussed. Client-server
and web-based architectures are introduced, and the three-step database design procedure consisting of conceptual,
logical, and physical design are explained. In addition, integration techniques of multiple heterogeneous bio-databases
are examined.
BiS651 Hearing and Auditory Model
We study basic concepts of acoustic wave propagation and scattering, and human auditory systems based on cognitive,
acoustic, and signal processing perspectives. By analysing huge amounts of cognitive science experimental data, we
propose mathematical models for non-linearity, time-adaptation, masking, etc. Also, the connection of this data to

information theory is investigated, and finally, applications to speech recognition are studied.
BiS652 Human Visual Model
Human visual system is studied with cognitive scientific and signal processing perspectives. By analysing huge
cognitive science experimental data, we will come up to mathematical models. Also, its connection to information
theory is investigated, and finally applications to real-world image recognition and target tracking are studied.
BiS653 Biomedical Imaging System
Theory and applications of several biomedical imaging systems are studied. Especially, X-ray imaging, ultra-acoustic
imaging, X-ray CT, MRI, PET, and PACS are discussed.
BiS671 Nanomaterial Process and Behavior
This course treats the topics of properties, behaviors and controls of nanoparticles, and introduces machining
processes of nanomaterials. Stability, reproducibility and reliability of nanoparticles and nanomaterials are discussed.
BiS672 Nano Electro Mechanical Systems
This course discusses physical phenomena and engineering problems arising from nanometric area. Topics included
are analysis of the nano physical principles and design of the working principles, nano materials and its fabrication
processes, and nano testing and chacracterization techniques. This course also provides basic knowledge of the Nano
Electro Mechanical Systems (NEMS). Term projects and presentation are required.
BiS673 Bioelectronic Devices
This course covers advanced topics in the design and industrial application of bioelectronic devices such as biosensor
and biochip. The fundamental principles in these areas have emphasized to understand the biological recognition
mechanism of enzyme, antibody, microorganism, animal cell, and DNA.
BiS721 Computational Cell Biology
‘Computational Cell Biology’ provide students with dynamical modeling in cell biology. It also provide them with new
paradigm for understanding biological systems as complex systems.
BiS722 Cell Signaling Network
‘Cell Signaling Network’ provide students with fundamental understanding of intracellular signaling and intercellular
communication. It also provide them with new concept of drug development targeting cell signaling.
BiS723 Advanced Cognitive Neuroscience
This course will provide students with a general introduction to underlying biological principles and mechanisms which
give rise to complex human cognitive function and behavior. This will also include functional brain image methods,
neuropsychological measurement to assess cognitive function and introduction of psychiatric and neurological
disease. Students will have chance to present and discuss on classical or updated articles and their own projects.
BiS731 Bio-Pattern Recognition
Pattern recognition techniques for bio-images such as DNA chip images and electrophoresis images are discussed.
After explaining deterministic, statistical, and syntactic pattern recognition principles, the feature extraction / selection
and noise handling problems for bio-images are discussed.
BiS732 Bio-Network
Formal representation and analysis of bio-processes including metabolic pathways, signal transduction pathways, and
regulation networks are examined. After broadening the understanding of formal representation tools such as graphs,
Boolean networks, and Bayesian networks, individual research projects for bio-network modeling are carried out.

BiS735 Computer Graphics and Bio-Application

After basic concepts and techniques of computer graphics are discussed, essential techniques to model and represent
bio-molecules such as mRNA and proteins, and various organs are discussed in two and three dimensional space. In
addition, representative bio-information graphics systems are introduced.
BiS752 Neural Engineering
This course covers basic principles, theories, and methods in several important areas in the field of neural engineering
including neural prostheses, brain-computer interface, and neuro-microsystems.
BiS771 Nanobiotechnology
This course discusses microenergy conversion and transfer as well as the property and behavior of micromaterials
based on mechanical, material, physical, chemical and biological analysis of biomedia and their reactions. Topic
included are nanoscale phenomena in cellular physiology / metabolism, micro / Nano fabrication processes with
unusual materials, microfabricated tools for neuroscience, biological motors and nanobiochips.
BiS772 Nano-Micro-Machining Process Laboratory
This course discusses equipments and processes of nano / micro fabrication. Also, practices of nano / micro fabrication
are provided. Term projects and presentation based on design, fabrication and test of nano / micro devices are required.
BiS800 Special Lectures in Bio & Brain Engineering
Recent research trends and new research topics are investigated in the field of bioinformatics and bioelectronics.
Special emphasize is given to technologies related to fusion of bioinformatics, bioelectronics, and technology. The topic
may be different for each course offering, and the topic may be used as the course co-title.
BiS801 Special Lectures in Bio & Brain Engineering (1)
BiS802 Special Lectures in Bio & Brain Engineering (2)
BiS810 Leadership & Communication
Leadership & Communication provides students with scientific (or technical) writing skill for the public and
presentation skill to the scientists and the public. It also provides them with an opportunity to improve their own
leadership to be creative leaders for future.
BiS960 Thesis/Dissertation Research (Master)
BiS965 Individual Study (Master)
BiS966 Seminar (Master)
BiS980 Thesis/Dissertation Research (Doctoral)
BiS986 Seminar (Doctoral)
BiS987 Biofusion Seminar
In this course, graduate students provide an oral presentation on their recent ongoing work in order to have comments
from students and professors in other research fields within bioengineering.

3.3. Degree Awardees
3.3.1. Bachelor Degree Awardees

No. Name Advisor (Cooperation Advisor) Team Remark
1 Yuri An Chulhee Choi 2010, Winter
2 Kyoung Won Baik Jaeseung Jeong 2010, Winter
3 Dongsik Han Je-Kyun Park 2010, Winter
4 Sung Ho Hong Kwang-Hyun Cho 2010, Winter
5 Min Woong Kim Soo-Young Lee 2010, Winter
6 Jae Hyung Kwon Jaeseung Jeong 2010, Winter
7 Sehui Lee Yoonkey Nam 2010, Winter
8 Young Seop Lee Ki-Hun Jeong 2010, Winter
9 Se-woong Lim Yong Jeong 2010, Winter
10 Jae Hyun Lim Kwang-Hyun Cho 2010, Winter
11 Sangmin Park Jaeseung Jeong 2010, Winter
12 Youn-Hee Park Je-Kyun Park 2010, Winter
3.3.2. Master Degree Awardees
Advisor
No. Name Thesis Title Term
(Cooperation Advisor)
Optical analog of compound eyes using
1 Dongmin Keum Ki-Hun Jeong 2009, Summer
planar micro-optics
A natural compound eye has a spherical set of integrated optical units called ommatidia, whose each individual unit consists of a facet lens, a crystalline
cone, a light-guiding rhabdom, and a photoreceptor. Each ommatidium looks slightly different direction, wide field-of-view (FOV) image and fast motion
detection can be obtained. Due to its attractive advantages, there have been many efforts to mimic its optical structure to apply in imaging system.
To develop high resolution imaging system using a natural compound eye, not only its structure but also its optical characteristics should be mimicked. In
previous work, 3D structure of artificial compound eye which comprising about 8,400 ommatidia was implemented using self-aligned microlens and
waveguide, but it’s not easy to characterize its optical characteristics as a function of geometry parameter such as F-number of microlens, afocal effect,
waveguide diameter, etc.
In this work, optical analog of compound eyes in nature is conducted using planar microoptics. The diameter of the microlens is 25 F-number is 1.8,
and the waveguide diameter is 3 , which are typical sizes of the natural compound eyes. Using a simple photolithographic process with a Rhodamine 6G
dye doped photosensitive polymer resin, the ommatidium can be mimicked on a glass substrate for visualizing the light propagation inside a planar
artificial compound eye (ACE). Under directional illumination, a spherical arrangement of the artificial ommatidia contributes to the angular acceptance
measurement.
Angular sensitivity function of simple apposition, afocal apposition, and transparent apposition eye is measured and characterized. The afocal apposition
eye in nature has narrower angular sensitivity function than the conventional apposition eye due to angular magnification in crystalline cone. And this is
confirmed experimentally using planar ACE.
The measured angular acceptance of an afocal apposition is 4° and that of a simple apposition eye is 8.2°. In the case of transparent apposition eye,
experimental result shows the angular acceptance of 3°. Theoretical analysis is preformed using mathematical model of waveguide modes propagation
in the natural compound eye.
In conclusion, this work demonstrates an optical analog of a natural compound eye by using a planar micro-optical system. Rhodamine 6G dyes doped in
the SU-8 help the direct visualization of light propagation inside a planar ACE as well as a single artificial ommatidium. This method will be very useful for
experimentally understanding several optical schemes of compound eyes found in nature and for developing novel optical imaging systems based on
three dimensional ACEs.

Feature extraction of emotions in speech

2 Dami Kim Soo-Young Lee 2009, Summer
using non-negative matrix factorization
Recognition of emotion is an important part of communication. Also, emotional speech recognition is important for the efficient human-computer
interactions. For those reasons, the importance of automatic emotional speech recognition has been emphasized and the research on this area has been
increased in these days. In this study, we use AIBO feature set with non-negative matrix factorization (NMF) and support vector machine (SVM) as a
classifier. With NMF, we make efficient feature set to recognize emotions. Moreover, though the speech expression of emotion is affected by language and
culture area of the speaker, until now, most of researches on this area have concentrated on feature extraction and emotion recognition for one language
or database. We examine the characteristics of emotional speech according to the speaker’s language and culture area. By this means, we expect the
improvement of emotion recognition rate in speech, and compare the characteristics of emotional expressions in several languages and cultures.
Pathway-based Genome-wide Association

3 Junho Kim Doheon Lee 2009, Summer
Study using functional SNP Effects
Current single SNP based GWAS are insufficient to dissect the origin of the complex diseases. Recent studies apply pathway-based analysis as a new
paradigm for GWAS to overcome their limitations, but there still exist unavoidable generation of the false positive noises according to the characteristic of
LD block. In this study, we propose the way to eliminate the false noises and provide more reliable method to estimate the altered pathways, through
considering functional deleterious SNP effects. Only consider functionally significant SNPs as the candidates of the pathway-based analysis, the resulted
pathways reflect truer altered activity than the current approaches. We verify this result quantitatively through the classification, and show that our
proposed approach has better classification performance than the conventional methods even though the current application coverage is limited.
Droplet Manipulation Using an Optoelectrofluidic

4 Do-Hyun Lee Je-Kyun Park 2009, Summer
Device Integrated with Microchannels
Current single SNP based GWAS are insufficient to dissect the origin of the complex diseases. Recent studies apply pathway-based analysis as a new
paradigm for GWAS to overcome their limitations, but there still exist unavoidable generation of the false positive noises according to the characteristic of
LD block. In this study, we propose the way to eliminate the false noises and provide more reliable method to estimate the altered pathways, through
considering functional deleterious SNP effects. Only consider functionally significant SNPs as the candidates of the pathway-based analysis, the resulted
pathways reflect truer altered activity than the current approaches. We verify this result quantitatively through the classification, and show that our
proposed approach has better classification performance than the conventional methods even though the current application coverage is limited.
A Multicellular Spheroid Formation and

5 Hye-Jin Jin Extraction Chip Using Removable Cell Young-Ho Cho 2009, Summer
Trapping Barriers
This thesis presents a spheroid chip for multicellular spheroid formation and extraction using removable cell trapping barriers. The previous chips using
fixed trapping barriers have faced difficulties in extracting the spheroids. The present spheroid chip achieves a simple spheroid extraction using
removable cell trapping barriers formed by membrane inflation.
The membrane between a top layer and a bottom layer of the spheroid chip is inflated by the membrane pressure to form cell trapping barriers in the
bottom layer. The cell trapping barriers hold cells to be filled in the trapping region to form spheroids. At the reduced membranepressure, the deflated
membrane removes the cell trapping barriers, allowing spheroids to exit to the spheroid outlet. A 4 1 array of the spheroid chips has been designed,
fabricated and characterized.
The cell trapping barriers, formed at the membrane pressure of 50kPa, hold the cells in the trapping region at an initial cell inlet pressure of 200Pa. After
24 hour incubation, the cell-cell interaction makes the trapped cells form the spheroids. The spheroids have been extracted through the spheroid outlet at
the cell inlet pressure of 5kPa for the membrane pressure of 0kPa. The spheroids have the diameter of 197.2 11.7 , showing the viable cell percentage
of 75.5% after extraction.
It is demonstrated that the spheroid chips perform uniform formation and secure extraction of the spheroid for the next stage of spheroid processing.
Micropatterned single lens for wide angle

6 Sun-Ki Chae Ki-Hun Jeong 2009, Summer
illumination
This work presents a simple and effective method for wide angular illumination by using a single lens with micropattern arrays. Unlike a conventional

single curvature lens, structured micropattern arrays on a single lens curvature can help light scatter efficiently. Impinged on micropatterens on a curve
surface, light undergoes omni-directional diffraction as well as total internal reflection and then eventually increases angular illumination. A
hemispherical single lens is microfabricated by a reconfigurable microtemplating and a replica molding methods. The angular illumination of the lens
with different pattern sizes under a collimated light source is measured by an optical power meter fixed on polar rotating arm. The illumination angle
increases by additional 35.5 degree, compared to that of the dome lens. The illumination angle and local intensity distribution can be controlled by lens
curvature as well as different aspect ratio of micropattern arrays on a lens curvature. Each micropatterned single lens having varied lens curvatures is
fabricated by a replica molding technique. Following different lens curvature, the angular illumination of MSL is measured by power meter having a polar
rotating arm under LED source. Hemispherical MSL shows 17.5 degree wider illumination angle than a case of 0.4 curvature. Absolutely, that is 20
degree wider angular illumination than planar grating having 9 degree. The two dimensional distribution from concave micropatterned single lens with
different lens curvatures under a collimated light source is captured by CCD camera. This 2D distribution shows 3.7 times wider 2D distribution than that
of the planar micropattern arrays. And, the angular illumination of the lens is measured under LED source. Hemispherical concave MSL shows 20
degree wider illumination angle than a case of 0.837 curvature. Absolutely, that is 40 degree wider angular illumination than planar grating having 9
degree. Unlike a single curvature micropatterned lens as like a convex MSLs and concave MSLs, double curved MSL has a concave curvature at central
part of lens and a convex curvature at peripheral part with structured micropattern arrays. The concave curvature reduces the hot spot of LED source and
illuminate widely. The convex curvature at peripheral part is practical to couple the light with micropatterns than concave surface which enable to reflect
light backward. Double curved MSL is fabricated by a replica molding technique with pre-cured hemispherical lens. This novel device can be applied
single optical component of bio instruments. In micro total analysis systems (Micro-TAS), the MSLs can be inserted to display analyzed data directly. And,
diffraction gratings on curved surface enable to be volume holograms for spatial filtering to detect size, shape, orientation, and color for bio-applications
such as the recognition of biological cells. The MSLs has also great impact in LED applications, especially in LED based direct-type back-light-unit (BLU)
system for large-scale LCD display.
Human breast cancer classification using

7 Yong Deuk Hwang combined analysis of CNVs and gene Doheon Lee 2009, Summer
expression
DNA copy number variant is a DNA segment in which copy-number differences have been found by comparison of reference genomes. DNA copy number
variants have been studied for prognostic/diagnostic biomarkers, tumor classifications, tumor progression markers, and so on. However, there was no
paper to classify tumors using combined analysis of DNA copy number variants and gene expression data based on pathway analysis. We introduced new
features which have classification power from DNA copy number variants based on pathway analysis. Also, we confirmed that human breast cancer
samples have specific DNA copy number pattern related with gene ER. From this result, we found that combined analysis of DNA copy number variants
and gene expression profiles improved the accuracy of human breast cancer classification.
Knowledge emergence from biomedical text

8 Ali Zeeshan ljaz Doheon Lee 2009, Summer
using the Link Grammar and MetaMap
There have been numerous examples of application of NLP techniques to extract PPI data from natural language texts, but few for other purposes. Most
of the previously developed methods performed only extraction of information with no further analysis or inference. With the advancement in biomedical
science, it has become imperative to extract and then combine information from multiple disjoint researches, studies and articles to infer new
hypotheses, and expand knowledge. We developed a method for extracting relationships using Link Grammar Parser while employing MetaMap as a
named entity recognizer. The rules created from our “Tagger” were fed to the extractor which performed the main extraction task. When applied to
MEDLINE abstracts, the system was able to extract relevant relationships with good precision and recall. Afterwards, the extracted data is used for
knowledge emergence by combining multiple pieces of information to infer new knowledge using our proposed similarity measure. Such system can be
used to provide new insights into the actions of drugs and other substances.
Microfluidic in vitro culture system mimicking

9 Chae Yun Bae Je-Kyun Park 2010, Winter
peristaltic stimulation in bovine embryos
This work demonstrates a novel microfluidic in vitro cultivation system for embryos that improves their development using a partially constricted channel
that mimics peristaltic muscle contraction (the gravity-driven stimulation system). To investigate the compressive effects of constriction geometry on
embryonic development, different constriction widths of the channel were designed. Bovine embryos were loaded on the channel and the whole system
was incubated on a tilting machine to provide embryo movement via gravity. The fertilized embryos were cultivated on the gravity-driven stimulation
system until the blastocyst, hatching, or hatched blastocyst stages. The proportion of eight-cell development among total embryos in the constricted

channel (56.77 13.7%; mean SD) was superior to that in the straight channel (23.97 11.0%). Moreover, the membrane based mechanical stimulation
was also designed because of needs for independent control of flow and compressive force (the pressure-driven stimulation system). Therefore, the
possibility to improve developmental ratio for bovine embryos was suggested as supporting more precise in vivo like environment.
Accelerated Deconvolution Microscopy based

10 Hyunjoon An on Iterative Coordinate Descent Algorithm Jong Chul Ye 2010, Winter
using GPU
In biological research, optical sectioning microscopy is widely used to observe the 3D structures of biological cells and tissues. However, the measured
sectioning images are obscured by the out-of-focus information. To reduce such out-of-focus interference, it is necessary to implement a deconvolution
method. Therefore, we employed iterative coordinate descent(ICD) algorithm which is based on updating of the pixel to optimize the statistical cost
function iteratively. Even if the ICD method has rapidly convergent characteristic, the data complexity and the computational cost remain as limiting
factors. To overcome this limitation, we apply a parallelized computing process occur in GPU hardware, known as general purpose computing on graphic
processing units(GPGPU). In this thesis, we focus on implementation of the ICD algorithm based on the GPU architecture. From simulation data, we verify
the performance by testing several realization of the proposed algorithm.
Size- and Deformability-Dependent Cell

11 Hwan Il Yoo Young-Ho Cho 2010, Winter
Capture and Release Chips
“not open”
Neuronal micro-cluster network design and

12 Jisoon Lim Yoonkey Nam 2010, Winter
analysis for the study of neural network plasticity
The dissociated neuronal culture in vitro combined with electrical instrumentation interface systems are widely used as experimental model systems for
the study of learning and memory mechanism in neuronal network of brain and nerve systems. In order to solve technical problems of randomly cultured
neuronal network on MEAs such as the lack of experimental reproducibility and complex connectivity and to improve the similarity between culture
system and actual nerve system, an agarose hydrogel-based neuron patterning method for making neuronal micro-cluster network (NMCN) is
suggested. The NMCN on an MEA consist of neuronal micro-clusters aligned on microelectrodes of an MEA and neurite bundles connecting the neuronal
micro-clusters. The biological growth properties and synapse distribution of NMCN was analyzed through immunostaining and image processing. The
electrical activity including spontaneous activity and stimulation-evoked activity of NMCN were measured with an MEA and the analysis method for
classifying electrical activity pattern of NMCN was proposed. The final goal of this work was to propose an electrical stimulation protocol based on STDP
(spike timing dependent plasticity) theory for inducing neuronal network plasticity and to investigate the effect of proposed stimulation protocol. The
analysis method for the quantification of NMCN electrical activity was used for analyzing the effect of stimulation protocol. The result shows strengthened
synaptic pathway between NMCN nodes that proved the effectiveness of proposed electrical stimulation. The presented methods for making reproducible
neuronal network pattern, analyzing the electrical activity and inducing network plasticity is expected to be utilized in in vitro research of learning and
memory mechanisms of neuronal network level.
Prediction of Protein - Ligand Interaction of SH3

13 Taesu Chung Domain Dongsup Kim 2010, Winter
UsingMultipleThreeDimensionalComplexStructures
Protein - protein interactions (PPIs) are important since most of biological activities are constructed of a network of a series of PPIs. Therefore specifically
targeting proteins which are involved in key biological activities can lead to controlling of entire system, which is the reason why proteins have been
considered as the major drug target. Studies on PPIs have been done for a long time by widely used experimental methods such as yeast two hybrid
method, SPOT array synthesis, or X-ray crystallography, but those methods are expensive and time-consuming procedures. Consequently, prediction of
PPIs and selecting a probable set of protein - protein pairs beforehand is highly desirable. Previous methods basically focus their study in predicting
result which has answers. But algorithms which are made and trained based on known data are often failed when novel data set is introduced, i.e.
overfitting. Therefore in this research our focus lies on developing method which is flexible to various unknown data. In this study SH3 domain is used for
prediction, since the consensus binding motif of SH3 is classified and only small part, 10 amino acids - decapeptides, of binding protein is most important
in interaction, therefore problem can be simplified. First, homology modeling of SH3 domains of unknown sequence is done by searching the most similar
sequence from PDB and 3 dimensional complex structures which are formed by combining various peptide sequences are generated with MODELLER. A
series of molecular dynamics (MD) simulations were performed to minimize intra and inter-chain clashes and to stabilize peptide backbone structures.

Then interaction energies between SH3 domain and peptides were calculated based on the complex structures generated by MD simulations. Finally, list
of 200 top ranking peptide sequences are used to generate position weighted matrix (PWM). We could conclude with certain aspect that our method can
predict PPIs of unknown sequence.
Plasmon-Enhanced High Power

14 Yong-je Choi Ki-Hun Jeong 2010, Winter
Photoconductive antenna for THz Emission
Terahertz endoscopy has great potential for detcting cancers in early stage. The terahertz frequency regime is highly sensitive to physiological
characteristics related to a water molecule, since the vibration and rotational energy states of the water molecule corresponds to the terahertz frequency
regime. However, also the absorption due to water is high, development of a high power terahertz emitter is demanded to implement the terahertz
endoscopy for clinical applications.
A photoconductive(PC)emitter optically pumped by a Ti:Sapphire oscillator is one of the most widely used terahertz emitter systems in these days.
Currently reported high power terahertz PC emitter emplys an interdigitated electrode arrays wity narrow gaps. An advantage of this structure is that the
terahertz wave emitted from the each electrode gap constructively interferes at far field that results in a high intensity of the terahertz wave. If the optical
pumping area becomes large, the more number of gaps participate in interference so that a further higher intensity of the terahertz wave can be obtained.
To achieve this, however, the photocarrier transition rate should be enhanced to compensate the lowering of intensity of pump beam while it illuminates a
wide area. This is the case with any other typical PC emitters. The emission power of terahertz PC emitter can be further enhanced with increasing optical
pumping power to obtain higher carrier transiton rate. A Ti:Sapphire amplifier laser system can be used for achieving higher power optical pumping than
that of the Ti:Sapphire oscillator system, yet the cost efficiency is low.
In this work, a THz photoconductive antenna(PCA)with high carrier transition rate under optical pumping of Ti:Sapphire oscillator system is demonstrated
via surface plasmon excitation using hierarchically patterned silver nanoislands, namely a plasmon enhanced photoconductive antenna(P-PCA). Silver
nanoislands with a diameter of 20nm is hieratchically patterned around the center of the photoconductive gap between two electrodes of a bow-tie
antenna. The nanoislands are formed on a semi-insulation GaAs substrate by deposition of silver film followed by thermal annealing. The electric field
amplitude of the incident pump laser beam is resonantly enhanced. Also the scattering of pump beam toward the substrate is enhanced so that higher
carrier transition rate is obtained. The emitted amplitude of terahertz waves from the antenna is measured with a conventional terahertz time-domain
spectroscopy. A control antenna without silver nanoislands is also fabricated and measured for comparison. The peak-to-peak amplitude of terahertz
wave emitted from plasmon enhanced PC antenna is 1.6 and 1.3 times enhanced compared to the control antenna.
In conclusion, this work demonstrates a high power terahertz PC antenna via surface plasmon resonance. The peak-to-peak amplitude of the emitted
terahertz wave is 1.6 and 1.3 times enhanced compared to the control antenna. The P-PCA has much potential for terahertz endoscopic imaging which
needs high power terahertz emitters.
Spectrometric analysis using liquid metal

15 Jaekyu Choi Je-Kyun Park 2010, Winter
mirrors in a microfluidic device
This paper presents a new absorbance measurement device using multiple internal reflections and a new novel spectrometer for both of them using
fluidic mirrors filled with liquid metal. Liquid metal mirrors reflect and gather light from LED with high reflectivity and small sample volume. Optical path
length has been extended with various incident angles of 20°, 30°, 40° and 50°. We demonstrated the enhancements of the sensitivity and limit of
detection (LOD) compared to the air mirrors and linear channel. As incident angle lowers, optical path length extension becomes more effective without
trade-offs of sensitivity and LOD. This device with incident angle of 50° has a 84 nM of LOD and 3.62 x 10-4 of sensitivity for absorbance measurement of
fluorecein diluted in deionized water. The spectrometer is suitable for direct spectral analysis in the sample channel plane using fluidic slit and mirror
filled with liquid metal. Solutions of phenol red and trypan blue which are used widely for biomolecular detection are measured for spectrometric
analysis. This platform can be simply adapted to the applications using the fiber optics integration. The measurements of phenol red and trypan blue
result 212 nM, 154 nM of LOD and 1.09x10-3, 8.10x10-4 of sensitivity respectively.
Topological Comparison Method of Multi-

16 Jaejoon Choi level Biomedical Interaction Data for Doheon Lee 2010, Winter
Undiscovered Public Knowledge Inference
Since the increase of the public biomedical data, Undiscovered Public Knowledge (UPK, proposed by Swanson) became an important research topic.
Many researchers tried to discover UPK, but these previous works required manual modulations to be applied to desired tasks, and had several inference
limitations. In this paper, we propose TCM, Topological Comparison Method, to discover novel hypotheses using topological patterns of data. Topological
patterns are connected sub-graphs of data, which store types of data, instead of values of data. TCM is appropriate for multi-level biomedical interaction
data, because topological patterns are depending on the difference of types of entities and relations. By applying TCM to a public database, BIND, we could

validate our method.
Cell Signaling Dynamics Analysis in Leukemia

17 Woo Chang Hwang Doheon Lee 2010, Winter
with Switching Boolean Networks
To make model and analyze biological signaling network is a major challenge of Systems Biology. Here we suggest Switching Boolean Network using
Threshold Boolean Network and we made Acute myeloid leukemia (AML) signaling network and analyzed this network to find component which make
signaling network abnormal by being deregulated.
Acute myeloid leukemia (AML) features the rapid growth of abnormal white blood cells that accumulate in the bone marrow and perturb the production of
normal blood cells. We constructed AML singling network by combining the signaling pathways involved in myeloid differentiation or cell proliferation. We
analyzed this singling network using Switching Boolean network.
The result of this analysis showed similar result with previous studies. Some of the components which we found in this simulation were experimentally
validated by other research. Some of them were new foundation.
MEMS based Two-Dimensional Lens Scanning

18 Hyeon-Cheol Park Ki-Hun, Jeong 2010, Winter
Module for Forward Endoscopic Imaging
This research presents a MEMS based two-dimensional lens scanning module for forward endoscopic imaging. Two-dimensional forward scanning with
high resolution is demonstrated implementing MEMS scannersof an x-scanner (in-plane comb drive) and y-scanner (vertical comb drive) together with a
millimeter aspheric glass lens.
A light delivered from an optical fiber is coupled with a collimating lens and scanned with two scanning lenses, which has diameter of 1mm. Then it
focuses to the image plan using an objective lens. To identify the feasibility of high resolution, optical simulations with a commercialized ray tracing
program ASAPTM for beam divergence are performed. Simulation results present no significant change of the beam spot size until the light goes through
inside of the ideal optical surface region of the objective lens. This represents about 3degree of the scanning angle with an objective lens, which has 2mm
diameter. The operation of each scanning lens is achieved by electrostatic MEMS actuators integrated on a chip with specially designed lens holders to
grab lenses. Each scanner is designed to have maximum scan length of 40 with considerations of simulation results.
Designed two-dimensional MEMS scanners are integrated to a micro optical bench with a special groove for optical fiber, considering both optical and
mechanical requirements.
Micro optical bench is fabricated by standard SOI (Silicon on Insulator) wafer process, and then released with vapor phase HF gases so that the batch
process at a wafer level is achieved.
Fabricated device is separated from wafer using specially designed fused tether technique due to the complex geometry of the micro optical bench. Then,
the device eventually packaged on the Printed Circuit Board and glass lenses are mounted using UV curable epoxy resins.
Resonant frequency of the device is before the lens mounting, however, decreases to due to the heavy mass of the lens while, on the other hand, the
quality-factor (Q-factor) is increased by a factor of 8.
Due to the high Q-factor gain by the lens mass, before the lens mounting, scanning angle of the device is 1.6 degree with 20V of dc and 10V of ac bias while
scanning angle 3 degree is achieved under 5V of dc and 10V of ac bias after the lens mounting. The measurement result of beam divergence provides no
reduction of optical resolution in scanning angle range of 3 degree. Finally, forward two-dimensional Lissajou's pattern has been demonstrated with
scanning area.
In conclusion, two-dimensional MEMS lens scanning module is very functional for developing forward imaging system capable of fitting in an endoscopic
capsule with optical biopsy schematics such as confocal and multi-photon imagings or optical coherence tomography.
3.3.3. Ph.D Degree Awardees

Advisor
No. Name Thesis Title Term
(Cooperation Advisor)
Autonomous Flow-rate Regulators
1 Il Doh Using Pressure-adaptive Parallel Membrane Young-Ho Cho 2009, Summer
Valves
In this thesis, autonomous flow-rate regulators using pressure-adaptive parallel membrane valves, capable of maintaining a constant flow-rate at varying
inlet pressure supplied from micropumps, has been proposed. The pressure-adaptive parallel membrane valves in the autonomous flow-rate regulators

are designed to adjust flow resistance according to the inlet pressure, thus maintaining a constant flow-rate independent of the inlet pressure variation.
Prototypes has been designed and fabricated by polymer molding process using PDMS (PolyDiMethylSiloxane). In the experimental study, flow-rate
characteristics of the fabricated autonomous flow-rate regulators for both static and dynamic inlet pressures were measured. The measured static flow-
rates were ranged from 32.83 nl/s to 24.32 /s, thus achieving 800% of ratio. In a dynamic characterization, we had applied the inlet pressure switched
between 20 to 50 kPa with the maximum frequency of 60 Hz and the prototypes were observed to perform the flow-rate regulation function for the
dynamic inlet pressure. For the application of present devices, pumpless fuel supply method using pressurized fuel and the autonomous flow-rate
regulators was demonstrated. The present pumpless fuel supply method could provide constant fuel flow-rate without micropumps, thus achieving
cheaper and more efficient fuel cell. In this thesis, autonomous flow-rate regulators using pressure-adaptive parallel membrane valves have been
proposed and verified its strong potential for application to the integrated microfluidic systems, such as lab-on-a-chip (LOC), drug delivery system (DDS)
and fuel cells (FC).
High-radix Microfluidic Multiplexers Using

2 Dong-Woo Lee Young-Ho Cho 2009, Summer
Pressure Valves of Different Thresholds
We propose high-radix microfluidic multiplexers that effectively address a large number of flow channels with a few control lines having pressure valves
of different thresholds. Previous binary multiplexers address only two flow channels by controlling identical threshold pressure valves in two control
lines; that is, they address 2n/2 flow channels by using n control lines. However, the proposed high radix multiplexer, ternary or quaternary multiplexer,
address three or four flow channels by controlling two or three kinds of valves in two control lines, respectively. Thus, these multiplexers address 3n/2 and
3n/2 flow channels, which are results by increasing the radix from binary to quaternary. In experiment, we determined the static/dynamic operating
conditions of the pressure valves having different thresholds in the ternary and quaternary multiplexers. Under these conditions, the prototypes such as 3
3 well array, 4 4 well array and digital dilution chip are successfully operated. In well array test, the ternary and quaternary multiplexers selectively fill
out 3 3 and 4 4 well array, respectively. In the dilution chip, the ternary multiplexer controls nine valves which dilute sample within 16.7% error and
react samples within 17.7% error. Thus, the present high-radix multiplexers reduces the number of control lines for multiple flow channel and valve
addressing, achieving effective flow channels control required for simple and compact microfluidic systems.
Protein functional sites prediction based on

3 Byung-Chul Lee Dongsup Kim 2009, Summer
the evolutionary information
It is common belief that a few residues in a protein are important for its function and structure. Furthermore, these sites are usual targets to the protein
engineering modifying or improving the functions of the protein. All proteins belong to a protein family, which have similar structure and sequence
homology. From this concept, highly conserved sites are considered to be important as a result of natural selection. If those sites are mutated, the fitness
of the protein dramatically drops, and protein sequences may be extincted in a gene pool. In other cases, hypervariability is observed in the bindining
interface residues of the proteins which have diverse binding parters. Besides conservation and hypervariation, correlated mutation has been another
important evolutionary information. Diverse studies have shown that correlated mutation (CM) is an important molecular evolutionary process. However,
attempts to find the coevolving residue pairs under the structural and/or functional constraints are complicated by the fact that a large portion of
covariance signals found in multiple sequence alignments are from correlations due to sharing common ancestry and stochastic noises. In this thesis, we
develop a method to verify the functional sites from sequence information. Motivated by the correlated mutation, the residue-residue coevolution network
(RRCN) analysis is developed. RRCN is an network whose nodes are residues and links are set when the coevolutionary interaction strengths between
residues are sufficiently large. After constructing the RRCN, we identify residues that have high degree of connectivity and residues that play a central role
in network flow of information. These residues are likely to be functionally important residues. Since this method is based on the coevolution and network
analysis, the development of more accurate CMA algorithm is required. Assuming that the background noises can be estimated from the coevolutionary
relationships among residues, we propose a new measure for the background noises named the normalized coevolutionary pattern similarity (NCPS)
scores. By subtracting NCPS scores from the raw CM scores and combining with entropy factor, we show that our new scores effectively detect the
residue pairs under the structural constraints and is successfully applied to double mutant cycle experiments and protein-protein interaction. These
results sugget that coevolution would be a valuable tool to study protein functions and sequences.
Hydrophoresis for Size Separation of

4 Sungyoung Choi Je-Kyun Park 2009, Summer
Biological Particles
This thesis presents ‘hydrophoresis’, a novel flow-assisted separation principle for size separation of biological particles. Hydrophoresis refers to the
movement of suspended particles under the influence of a microstructure-induced pressure field. Particles subjected to lateral pressure gradients or
flows induced by anisotropic microfluidic obstacles dynamically move from the one sidewall to the other sidewall without any active component.

Therefore, hydrophoresis exhibits both advantages of field-based and flow-assisted methods that are dynamic particle manipulation and biocompatibility,
respectively.
To demonstrate the hydrophoretic self-ordering of particles, I have designed and fabricated microfluidic obstacles slanted with respect to a fluid flow in a
polymer device made of poly(dimethylsilosane). Experiments were performed with micron, submicron beads, and DNA molecules to verify the strong
nature of hydrophoresis such as dynamic particle manipulation and biocompatibility. Micron-sized particles ranged from 10 to 15 were discriminated
with less than 6% resolution. DNA molecules of 49 and 115 kb were separated for 0.12 s over the channel length of 5 mm wtih the corresponding
separation throughput of 1.7 106 molecules/s.
For exact characterization of the hydrophoresis, I conducted three-dimensional (3D) measurement of particle positions in a hydrophoretic microchannel
by using a mirror-embedded microchannel. The mirror ideally at 45 degrees reflects the side view of the channel and enables obtaining 3D positional
information from two different orthogonal-axis images. With this method, I clearly revealed that hydrophoresis is governed by convective vortices and
steric hindrance. I also observed that the hydrophoresis enables 3D particle focusing without sheath flows and an accurate flow-rate control.
I next developed a new class of a hydrophoretic device composed of slanted obstacles and filtration obstacles for the effective separation of blood cells.
Red blood cells (RBCs) are similar in diameter to that of white blood cells (WBCs), which makes difficult to separate two cell types based on their sizes. In
the hydrophoretic filtration device, RBCs are aligned parallel to the filtration obstacles of 4.0 -height due to their small thickness and deformability, and
thus pass through the obstacles, separating from WBCs. In the presented device, I separated WBCs from RBCs with an enrichment ratio of ~210-fold at a
throughput of 4 103 s-1.
The final section of the thesis deals with the use of hydrophoretic size separation to sort cells in target phases of the cell cycle entirely based on a
hydrodynamic principle. With this method, I found that there is a linear relationship between a cell’s size and its position distribution in a hydrophoretic
device. I also demonstrate the robustness of the hydrophoretic method for practical applications by sorting cells in G0/G1 and G2/M phase out of original,
asynchronous cells with a high level of synchrony of 95.5% and 85.2%, respectively.
Inferring transcriptional regulatory networks

5 Hyojin Kang by integrative analysis in Arabidopsis seed Doheon Lee 2010, Winter
germination
Living cells must continually adapt to changing environments by altering their gene expression patterns. One of the central regulatory mechanisms is
transcriptional regulatory interactions between transcription factors and their target genes.
In this study, the transcriptional regulatory networks of Arabidopsis seed germination controlled by PIL5 were investigated by applying integrative
analysis. First, total 748 novel PIL5 binding sites in the Arabidopsis whole genome were identified using Chromatin immunoprecipitation (ChIP)-chip
assay. Second, the in vivo binding motifs of PIL5 were identified by Oligo-analysis combined with Kolmogorov-Smirnov test. Third, the comprehensive
DNA-binding specificity analysis for PIL5 was performed. The results showed that PIL5 binding sites can be explained by attributes such as neighboring
motif composition, nucleosome density, DNA methylation, and distance from transcription start site in addition to G-box.
Microfluidic Multiplexed
6 Minseok S. Kim Immunohistochemistry Platform for Je-Kyun Park 2010, Winter
Quantitative Pathological Diagnosis
A quantitative, reproducible, fast, and inexpensive multiplexed immunohistochemistry (IHC) system is critical for
personalized cancer therapy. In this dissertation, we first present a novel parallel multiplexing method, microfluidic multiplexed immunohistochemistry
(MMIHC) platform, for the quantitative pathological diagnosis of breast cancer. Two-step multilayer soft lithography was applied for various solutions
control and regular IHC staining. In order to apply conventional thin-section tissues into on-chip without any additional modification process, a novel
tissue slide-compatible assembler was developed for perfect compatibility of conventional IHC method. By using the apparatus enabling reversible seal
between the device and a cellblock sample, not only perfect fluid control for various solutions was exhibited without any leakage, bubble formation and
cross-contamination, but also conventional preservation manner of tissue specimens was guaranteed. In addition, microscopic images were
quantitatively analyzed based on the Bayesian classification and the color distribution of immunohistochemical staining was represented by the
expectation-maximization algorithm and the Gaussian mixture model with Matlab software.
Four predictive and prognostic biomarkers of breast cancers, ER, HER2, PR and Ki-67, were examined for various breast cancer cell lines including SK-
BR-3, MCF-7, AU 565 and HCC 70. Microfluidic multiplexed immunocytochemistry (MMICC) platform enabled immunocytochemical staining of the four
biomarkers on a cell block at one time. Expensive antibody consumption and ICC/IHC processing time were saved up to 200-fold and 10-fold, respectively.
This benefit was acquired from the own microfluidics system and the reason could be explained by convective diffusion mass transport, receptor-ligand
binding kinetics and reaction rate equations, corresponding to CFD simulation results.
In addition, the platform was also applied to patient tissue samples of breast cancers. The MMIHC platform realized investigation of four biomarkers on a
tissue slide at one time. Although the biomarkers were examined in the areas in which cancer was most severe, a comparative study was essential to
clarify whether the results from such a localized examination using the MMIHC platform could be considered representative of the whole tissue section.

The results revealed that Kendall’s coefficient of concordance (KCC, n=105) was 0.96 for ER, 0.90 for HER2, 0.95 for PR, and 0.98 for Ki-67, meaning that
all of biomarkers showed very strong representative compared to conventional whole-section IHC method for tissue samples. Needle biopsy samples
were chosen as a model to strengthen that the platform enables multiplexed IHC even in small-sized sample. Result showed that the platform was fairly
worked on the core biopsy samples as well and the pathological scores were substantially concordant with the whole-section analysis.
To address the possibility of large-scale expansion of multiplexing and in situ quantification, quantitative IHC platform with 20 reaction channels was
developed for a more sophisticated pathological diagnosis of molecularly heterogeneous diseases.Ten biomarkers were examined simultaneously on a
single cellblock. Results exhibited biomarkers’ expressions for breast cancer cell lines and quantitative proteomic profiling for 10 biomarkers.
The results presented in this dissertation indicate that this novel concept in IHC technology will enable histopathological diagnosis using numerous
specific biomarkers at a time, thus facilitating the individualization of cancer therapy. In addition, the method is expected to be useful for identifying novel
markers for classifying solid tumors, biomarker development for IHC, the selection of optimal biomarkers, and biological pathway studies.
Combining Clinical Information and Gene

7 Sangwoo Kim Doheon Lee 2010, Winter
Expression Patterns for Cancer Prognosis
Knowing accurate prognosis of cancer is one of the most important problems in therapeutic studies and applications. Well proven prognostication is
essentially needed to achieve higher degrees of patients’ survival and welfare with providing appropriate options for therapies and medication. As
genome-wide data sets are being sufficiently generated in various omics fields, it is possible to analyze conventional clinical features such as pathological
stages (TNM stage or stage grouping), pathological grade and histological subtypes with related molecular level data. In this thesis, we propose
computational methods to correlate gene expression profiles with clinical features and to provide improved approaches for cancer prognosis.
First, we proposed a new method for extracting cancer metastasis related genes with gene expression data and pathological information (pathological M
stage and histological subtypes). We analyzed differently expressed genes in primary colon tumors and their metastases in liver. In this process, we tried
to reduce metastasis independent noise features which might come from the difference of organs and differently activated organ specific viability. Using
appropriately defined set operations to a large scale data set, we could show that our result is biologically related to the metastasis processes and free
from noise effects especially from tissue specificity.
Second, we proposed a monotonically expressed gene analysis (MEGA) for extracting breast cancer lymph node invasion and tumor size related gene sets
by utilizing expression patterns over a two dimensional N T space with providing appropriate meta-analysis test results of various cancer analyses. The
test has been conducted on completely independent data sets. We showed that gene sets selected from the suggested functions were strongly correlated
with cancer prognoses including metastasis, relapse and survival, and showed significantly better results than conventional approaches. The MEGA
model also enabled us to analyze the impact of each clinical factor independently, and to inspect a specific stage transition in a cancer progression.
Third, we generalized the monotonicity quantifying method and applied to a prostate cancer grade data. In a comparison with conventional correlation
method, we showed our function is better in capturing monotonically expressed genes along the cancer grade progression and a random forest classifier
consists of the result genes showed good classification power.
Anti-buckling Vertical Microprobes with

8 Jung Yup Kim Young-Ho Cho 2010, Winter
Branch Springs
We propose the S-shaped vertical probes with branch springs for the wafer-level testing of IC chips. The conventional S-shaped vertical probe requires a
guide structure to prevent buckling due to the large overdrive actuation involved. However, the guide structure not only increases the cost of fabrication,
but it also requires a troublesome assembly procedure. In this paper, we present the S-shaped vertical probe with branch springs on the left and right
sides of the main spring to prevent buckling. This probe was designed using finite-element methods and fabricated using Ni-Co electroplating. The
performances of the probe for the wafer-level testing of IC chips were measured with the probe test equipments. Compared to the identical conventional
S-shaped probe, the proposed probe has the overdrive (60 ) that is 1.2 times larger and the contact force (25 mN) that is 2.5 times larger. This new S-
shaped vertical probe satisfies the design requirements for a vertical probe without the guide structure and has the potential for use as a cost-effective
guide-free probe card for the wafer-level testing of IC chips.
Drug Assays Using a Cell Trapping Method in

9 Ju Hun Yeon Je-Kyun Park 2010, Winter
a Microfluidic Device
In this thesis, an efficient and accurate drug assay system in a microfluidic device was developed, considering the in vivo delivery path of drugs in humans.
Among the various drug assays, drug permeability assays in the intestine and brain, and hepatotoxicity assay in the liver are very important for drug
screening and development process. The microfluidic assay system for drug permeability and hepatotoxicity assays using a cell trapping method reduces
the assay time as no cell culture in the microfludic device is required and no complex structure, such as cellular membrane, is needed. The microhole
array for cell trapping was fabricated using the poly(dimethylsiloxane) (PDMS) molding technique for mimicking the intestinal epithelial cell membrane.

Based on mathematical simulations, the configuration of the microfluidic device, including a microhole array and a mixing channel, and the flow rate were
optimized to trap cells firmly in each microhole without cell damage. The permeability and hepatotoxicity of drugs was measured and compared with the
reported values of permeability in the human and rat intestine.
In Vivo Optical Modulation Using

10 Myunghwan Choi Chulhee Choi 2010, Winter
Femtosecond Laser
Light interacts with biological tissues generating photo-thermal, photo-chemical, or photomechanical effects. Especially, the femtosecond pulsed laser
can induce localized photo-chemical or photo-mechanical phenomena in biological tissues with ignorable thermal damage. This advantage has enabled
the optical modulation of cells and tissues, yet limited to the irreversible ablative effect or in vitro works. Here I report novel effects of the femtosecond
laser on the smooth muscle and the blood vessel in vivo. Irradiation of the femtosecond laser on smooth muscle cells triggered the generation of calcium
wave followed by cellular contraction. Based on this cellular response, I developed noninvasive tools to optically control the contraction of arterial blood
vessel walls and bladder smooth muscles in vivo. I also found that controlled irradiation of femtosecond laser on venous vascular wall induces a transient
and reversible permeabilization of the vascular wall. By combining this method with intravenous injection, I could locally deliver molecular probes in
various tissues, such as brain cortex, meninges, striated muscle, and bone, suggesting wide applicability of this tool for the drug delivery.
System level identification of interactions

11 Sohyun Hwang Doheon Lee 2010, Winter
between cell signaling pathways
Cells coordinate their metabolism, proliferation, and cellular communication according to environmental cues through signal transduction. Recent
technical advances to discover signal tranduction pathways have led to the beginning of signaling networks for a replacement of signal transduction
pathways. A signaling network paradigm is a new model that shows the possible ways to overcome the limitation of the present canonical pathway
paradigm. In this study, we designed omics approaches for constructing signal networks based on system-level identification of interactions between cell
signaling pathways. We applied them to two cellular contexts such as complex disease like cancers. First, we designed an approach constructing
signaling networks for revealing the relationships between genes in association with a specific disease. Applied to asthma, we suggest unknown
candidate target genes associated with asthma, including GNB2L1, BRCA1, CBL, and VAV1. Second, to mine inter-pathway cross-communication
dependent on cellular contexts, we designed a new omics approach for discovering signal transduction pathways regulated by transcription. Applied to
serous ovarian cancer expression profiles, we identified transcriptional regulation between signaling pathways which affect on cancer metastasis.
Especially, we found important transcriptional regulations activating the expression of VEGFA, a prognostic factor of ovarian cancer. These signaling
network-based approach help to understand the underlying biological phenomena of expression data and suggest a list of disease target genes.

Department of
Bio and Brain
Engineering
Research Activities
4. Research Activities 45
4.1. Research Progress 46

4.2. Undergraduate Research Projects 89
4.3. Research Institutes and Centers 92
4.1. Research Progress
4.1.1. Laboratory for Systems Biology and Bio-Inspired Engineering

(Prof. Kwang-Hyun Cho, http://sbie.kaist.ac.kr)
The Life Sciences are witnessing a shift of paradigm from traditional characterization of individual
molecules towards an understanding of interactive pathways and networks. The role of genes,
proteins, metabolites and cells can be understood and defined through their interactions and it is
through our focus on intra- and inter-cellular dynamics that we are deeply involved in the emerging
area of Systems Biology. For Systems Biology to succeed, we have to cope with the bewildering
complexity of cellular systems, covering a wide range of spatial and temporal scales. Two of the key
characteristics of Systems Biology are dynamic modeling and integration (fusion) of various
information sources, such as genomics, transcriptomics, proteomics, and metabolomics. In this context, our research has
been centered on systems-level investigations of cellular signal transduction pathways, reverse engineering of
biomolecular regulatory networks, and the unraveling of hidden cellular dynamics. In the future, we will focus on
developing a systems biology analysis of cellular information processing by signaling and gene networks in cells, with
particular emphasis towards understanding cell-fate decisions on proliferation and differentiation. Regulation of the
commitment to differentiation is central to many biological processes such as cancer, inflammatory diseases, and
neurodegeneration. Our research is driven by two long term objectives: (1) to create a predictive model for a
programmable cell that can be optimized for personalized therapy, and (2) to apply the knowledge obtained from the study
of biological systems to engineering. In this way we hope to contribute to engineering innovation using ideas inspired by
molecular systems biology.
Cellular Signal Transduction Pathways

Cells use receptors to continually monitor their environment and alter behavior
accordingly. In order to determine how cells behave and interact, we need to
understand how information is transferred both amongst and within cells. Cell
signaling or "signal transduction" is the mechanism by which this transfer of
biological information takes place. We have concentrated on signal- and systems-
oriented approaches to investigate this flow of information, focusing specifically on
the NF-kappaB, ERK, Wnt, JAK-STAT, and beta-AR pathways. Our aim was to
identify the functional role of those pathways through quantitative relationships
between parameters and variables. Since most of these relationships are nonlinear
with varying feedback connections, this problem is non-trivial. In the future we plan to further investigate various
crosstalks between pathways and apply the results to the problem of drug target identification.
Biomolecular Regulatory Networks

In order to probe complex biomolecular regulatory networks, we believe that a
useful approach is to study their interactive structures. Therefore, inference of gene
regulatory networks (GRN) for a specific subsystem or an entire genome scale can
help us to unravel gene interaction mechanisms. Furthermore, we believe that we
can utilize this information to identify novel drug targets and predict potential

adverse effects. Thanks to the recent development of high-throughput measurement technologies, there is a renewed
interest in unraveling hidden GRNs and various reverse engineering methods have been developed to infer them. However,
due to both experimental limitations and methodological complexities, the majority of these attempts have not been
completely successful. We have been interested in developing new methods by exploiting dynamical properties of temporal
expression profiles and will further substantiate those properties through practical case studies.
Complex Cellular Dynamics

Cellular networks are composed of complex interconnections in which some
subnetworks with particular functions can be identified as network motifs.
Feedback loops, in particular, have been identified as playing critically important
roles in regulating cellular behavior. Intriguingly, such feedback loops are often
found as coupled structures in many cellular circuits. Using the available biological
information, we have investigated the properties of coupled feedbacks and
identified a set of three principles. Firstly, positive feedbacks enhance signal
amplification and lead to bistable characteristics. Secondly, negative feedbacks
enhance homeostasis. Lastly, positive and negative feedbacks enable reliable decision making by properly modulating
signal responses and effectively dealing with noise. Examples include apoptosis decision circuits, circadian regulatory
circuits, and cellular memory circuits. We will further investigate various cellular dynamics to uncover their hidden design
principles and extend them for bio-medical applications.
Brain Systems Biology

Brain functions (e.g., consciousness, creative thinking, memory formation,
and recognition) are supposed to be mainly determined by the topological
structure of neural networks composed of hundreds of thousands of neurons
and their synaptic interactions. Recent studies suggested that network
properties emerging from neural networks (e.g., synchronized oscillation
between distant neural assemblies) can help us to uncover the underlying
mechanisms of brain function although their correlations are largely
unknown. Moreover, on the assumption that the selective synchronization is
the basis for normal brain functioning, synchrony disruption could cause functional abnormalities such as epilepsy,
Parkinson’s disease, schizophrenia, and so on. We are interested in such correlations between brain functions or disorders
and emergent properties of relevant neural networks. In order to answer the question on what special network structures
make them interlinked, we develop computational models of neural networks and identify the characteristics of network
motifs having significant influence on the dynamics of the whole network. The ultimate goal is to investigate the emergent
properties of a neural network in connection with brain functions and disorders, and unravel the hidden underlying
mechanisms.
Cancer Systems Biology

Colorectal cancer originates from the rapidly renewing epithelium that covers the luminal surfaces of the large intestine
and lines the colonic crypts. At the bottom of these crypts, stem cells continuously proliferate and produce transit-
amplifying cells that rapidly divided several times before differentiating into the various cell types (e.g., absorptive
columnar cells, Goblet cells, and neuroendocrine cells). Colorectal cancer arises when genetic alterations deregulate

normal crypt dynamics. Proliferating cells are then no longer confined to

the crypt’s base and the associated proliferative excess generates
biomechanical stress on the crypt structure, which may deform in order to
accommodate the newborn cells. In this study, we focus on understanding
how deregulation of cell proliferation leads to the loss of homeostasis and
malignant transformation of crypt dynamics. We also have interests in the
identification of potential therapeutic interventions. To this end, we are
developing a multi-scale platform model for colon crypt dynamics that
integrates subcellular signaling networks (e.g., Wnt, BMP, Eph/Ephrine,
Hedgehog signaling pathways, etc), the cell cycle clock and cell population dynamics of stem cells, transit-amplifying cells
and differentiated cells.
Cardiac Systems Biology

Heart disease is one of the leading causes of death throughout the world.
However, as cardiac functions are dynamically and complicatedly regulated,
the underlying disease mechanisms of the heart have not yet been fully
understood. In order to investigate complex cardiac disease mechanisms, we
are currently developing a platform model that includes a large-scale
signaling network related to cardiac hypertrophy. This platform model will
help us to explore the development of pathological hypertrophy that often
results in lethal heart diseases such as heart failure and arrhythmias using a
systems-approach based on dynamical analysis of mathematical models.
Moreover, we will establish drug/gene therapeutic strategies (multi-target drug & combinatorial therapies) in order to
suppress or delay the development of pathological hypertrophy based on our platform model. Ultimately, we hope that the
results obtained from our research contribute to the development of systematic methodologies to predict, diagnose, and
treat various heart diseases.
Network Systems Biology

A large amount of information on bio-molecular interactions has been
accumulated from advanced experimental technologies and omics-data
analysis technologies. Through integrating such interaction information
from various databases and literatures, we construct large-scale biological
networks. The function of such biological networks is too complex to
understand using traditional mathematical modeling techniques. Hence,
instead of analyzing network dynamics by constructing a whole
mathematical model, we explore dynamics and functions of networks by
analyzing the topological properties such as network motifs, node degree
distribution, clustering coefficient, path length, connection density, centrality, robustness, and modularity. The aim of
network systems biology is to investigate the relations between topological properties and biological function.
Bio-Inspired Engineering Based on Molecular Systems Biology

We are currently helping to develop an emerging engineering paradigm: bio-inspired engineering based on molecular

Systems Biology. The key concept is the application of systems-level knowledge on
cellular mechanisms to engineering. Cells are basic units of living organisms and have
many distinct and interesting features compared to artificial systems such as
replication, self-repairing, adaptation, differentiation, and so on. Inspired from some of
these features of a living cell (e.g., adaptation, differentiation, and self-repairing), we
are developing a new concept of self-evolvable system to be called an Artificial Cell (AC)
that can be applied to various hardware designs. The AC is evolvable through evolution
of Artificial Genome (AG), similar to the DNA in a cell, so that it can autonomously adapt
to the changing environment and can constantly achieve its goal. It can also self-repair upon hardware failures by utilizing
its spare elements. The eventual goal of bio-inspired engineering is to invent self-organizing systems that can overcome
unexpected environmental changes or system failures by reconfiguring internal structures and thereby behave almost
autonomously (e.g., evolving digital circuits, and robust integrated circuits capable of “self-repairing” & “self-replication”).
R e fe re n ce s
1. Philip J. Murray, Jun-Won Kang, Gary R. Mirams, Sung-Young Shin, Helen M. Byrne, Philip K. Maini, and Kwang-Hyun
Cho*, "Modelling spatially regulated beta-catenin dynamics and invasion in intestinal crypts", Accepted for publication in
Biophysical Journal (IF: 4.757), 2010.
2. Man-Sun Kim, Jeong-Rae Kim, and Kwang-Hyun Cho*, "Dynamic network rewiring determines temporal regulatory
functions in the Drosophila melanogaster development processes", Accepted for publication in BioEssays (IF: 5.402),
2010. (Cover Paper)
3. Chaoyi Dong, Tae-Woong Yoon, Declan G. Bates, and Kwang-Hyun Cho*, "Identification of feedback loops embedded in
cellular circuits by investigating non-causal impulse response components", Journal of Mathematical Biology (IF: 1.489),
Vol. 60, No. 2, pp. 285-312, Feb. 2010.
4. Jeong-Rae Kim, Dong-Kwan Shin, Sung-Hoon Jung, Pat Heslop-Harrison, and Kwang-Hyun Cho*, "A design principle
underlying the synchronization of oscillations in cellular systems", Journal of Cell Science (IF: 6.383), Vol. 123, No. 4, pp.
537-543, Feb. 2010.
5. Jung-Soo Kim, Najl V. Valeyev, Ian Postlethwaite, Pat Heslop-Harrison, Kwang-Hyun Cho*, and Declan G. Bates,
"Analysis and Extension of a Biochemical Network Model using Robust Control Theory", International Journal of Robust
and Nonlinear Control (IF: 1.560), Epub ahead of print (doi: 10.1002/rnc.1528), Nov. 2009.
6. Dong-San Kim, Walter Kolch and Kwang-Hyun Cho*, "Multiple roles of the NF-kappaB signaling pathway regulated by
coupled negative feedback circuits", FASEB Journal (IF: 7.049), Vol. 23, Issue 9, pp. 2796-2802, Sep. 2009.
7. Chang-Ho Seo, Jeong-Rae Kim, Man-Sun Kim, and Kwang-Hyun Cho*, "Hub genes with positive feedbacks function as
master switches in developmental gene regulatory networks", Bioinformatics (IF: 5.039), Vol. 25, No. 15, pp. 1898-1904,
Aug. 2009.
8. Chaoyi Dong, Ji-Soon Lim, Yoon-Key Nam, and Kwang-Hyun Cho*, "Systematic analysis of synchronized oscillatory
neuronal networks reveals the enrichment of coupled direct and indirect feedback motifs", Bioinformatics (IF: 5.039),
Vol. 25, No. 13, pp. 1680-1685, Jul. 2009.
9. Seong-Jin Park and Kwang-Hyun Cho*, "Delay-coobservability and its algebraic properties for decentralized supervisory
control of discrete event systems with communication delays", Automatica (IF: 3.178), Vol. 45, No. 5, pp. 1252-1259, May
2009.

4.1.2. NanoSentuating Systems Laboratory

(Prof. Young-Ho Cho, http://mems.kaist.ac.kr)
NanoSentuating Systems Laboratory aims to develop the integrated multi-functional Nano

Sentuating N/MEMS Systems(Figure), where nano-scale sensing and actuating functions are
integrated together in a single chip; thus achieving the autonomous nanosentuating functions
required for high-performance non-electrical information devices and systems. Laboratory’s key
strategy and unique research directions are focused on the invention of a new class of sentuating
nanodevices (NT) inspired from biological sentuating organs (BT) for on their applications to a wide
variety of non-electrical information systems (IT) demanded in information, communication,
computers, electronics, biomedical, environmental, automotive, transportation and aerospace products. Recent topics on
the bio-inspired sentuating devices for specific industrial applications include: muscle-inspired nanoactuators for protein
detectors; elbow-inspired rotating mirrors for
optical display and communication; worm-
inspired DNA separators for DNA sorters and
extractors; circulation-inspired cell counters for
cell concentration detectors; spleen-inspired cell
lysis devices for cell deformability monitors;
mitochondria-inspired fuel cells for potable
power sources; electric eel-inspired electrolyte
battery for high-voltage generators; heart-
inspired fluidic injectors for inkjet printers and
thrusters; etc. Integrated NanoSentuating Systems for Non-Electrical Information Carriers.
Research Areas
Micro/Nano Electromechanical Devices and Applications 1)

Bio-inspired electromechanical digital actuators, including silicon muscle chips, micromechanical digital-to-analog
converters, micromechanical modulators, and nano-gap actuators for applications to nanoparticle detection and
characterization. Inertial microsensors, including accelerometers, gyroscopes and magnetic detectors, combined with
ASIC, microprocessors and/or RF wireless communication modules for applications to automotive electronics,
aerospace navigation, location finders, virtual reality systems, computer input devices and electronic games.
Micro/Nano Optomechanical Devices and Applications 2)

Movable optomechanical mirrors, waveguides and optical components combined with light sources, detectors, optical
fibers and/or electrical interconnections for applications to high-density information storage and high-speed optical
communication systems.
Micro/Nano Thermo- & Bio-fluidic Devices and Applications 3)

Digital injectors, propulsion devices, fluidic digital-to-analog converters, separators, pumps, valves and diffusers
combined with heaters, channels, mixers, and/or reactors for applications to inkjet printing, pressure regulation, flow
control, satellite maneuvering, biomolecule manipulation and analysis, lab-on-a-chip, bio-chip and micro total analysis
systems.

Fundamental Technology and Physical Phenomena in Micro/Nano Regime 4,5)
Electromechanical modeling, analysis and simulation, micro/nano-transduction and phenomena, low-level energy
signals, noise and interference, material behavior and property characterization, fabrication process and structuring,
multi-physics interface and interconnection, wafer-level bonding and on-chip packaging, measurement and
instrumentation, reliability evaluation.
Bio-Inspired Digital Nanoactuators (National Creative Research Initiative Program)

Sponsor: Ministry of Science and Technology (2000.10 ~ 2009.5)
Thernary Microfluidic Multiplexer6)

The ternary microfluidic multiplexer addresses
multiple flow channels (F1~F3) using different
pressure threshold valves (V1, V2). When the
number of control lines is increased by pairs,
there is a threefold increase in the number of
controllable flow channels; thus, the ternary
multiplexer addresses 3n/2 flow channels by
using n control lines.
Clog-free Particle Separator7)

The continuous size-dependent particle sorter separates
red blood cells (RBCs) and white blood cells (WBCs) using
a negative dielectrophoretic virtual pillar array. Repulsive
negative dielectrophoretic force, induced by applying
voltage to a spot electrode array on a substrate, generates
the virtual pillar array. Thus, the present particle separator
achieves clog-free size-dependent particle separation and
controls the size of separable particles.
Research Planning for Multi-Cognitive Convergence Technology Development Program CognoMics:

Cognotechnology for EconoMics)
Sponsor: Korea Science and Engineering Foundation (2007.11 ~ 2008.1)
The research planning project is intended to establish strategic plans of

cognitive-based BINT technology convergence and fruition for future new
markets and high value added products. The project scope includes 1) the
analysis of objectives and needs, 2) the review of capability and feasibility, and 3)
the establishment of strategies and plans for multi-cognitive convergence
technology development.

R e fe re n ce s
1. Won Chul Lee, Young-Ho Cho, and Alber P. Pisano, “Nanomechanical Protein Concentration Detector Using a Nanogap
Squeezing Actuator With Compensated Displacement Monitoring Electrodes,” Journal of Microelectromechanical
Systems, Vol.16, No.4 (Aug. 2007) pp.802-808.
2. Won Han, Won Chul Lee, and Young-Ho Cho, “High-Accuracy Digital-to-Analog Actuators Using Load Springs
Compensating Fabrication Errors,” Journal of Microelectromechanical Systems, Vol.16, No.3 (June, 2007) pp.528-536.
3. Dong Woo Lee, Soyen Yi, and Young-Ho Cho, “A Flow Rate Independent Cell Concentration Measurement Chip Using
Electrical Cell Counters Across A Fixed Control Volume,” Journal of Microelectromechanical Systems, Vol.17, No.1
(Feb. 2008) pp.139-146.
4. Young-Hyun Jin, Young-Ho Cho, Lars E. Schmidt, Yves Leterrier, and Jan-Anders E. Manson, “A Fast Low-temperature
Micromolding Process for Hydrophilic Microfluidic Devices Using UV-curable Acrylated Hyperbranched Polymers,”
Journal of Micromechanics and Microengineering, Vol.17 (May 4, 2007) pp.1147-1153.
5. Sechan Youn, Dong Woo Lee, and Young-Ho Cho, “Cell Deformability Monitoring Chips Based on Strain-Dependent Cell
Lysis Rates, ” Jounal of Microelectromechanical Systems, Vol.17 (Apr. 2008) pp.302-308.
6. Dong Woo Lee, and Young-Ho Cho, "High-radix Microfluidic Multiplexer with Pressure Valves of Different Thresholds",
Lab on a Chip, Vol. 9, No. 12 (June 21, 2009) pp. 1681-1686
7. Sunghwan Chang and Young-Ho Cho, “A Continuous Size-dependent Particle Separator Using a Negative
Dielectrophoretic Virtual Pillar Array,” Lab on a Chip, Vol.9, No.12 (June. 21, 2009) pp.1681-1686.

4.1.3. Cell Signaling and BioImaging Laboratory
(Prof. Chulhee Choi, http://ccbio.kaist.ac.kr)
We are now beginning to understand the biological phenomena as a complex network system with a
hierarchical architecture. Since typical dynamics of most biological systems are not linear, merely
understanding molecular events cannot simply lead us to the holistic understanding of the cellular
responses to the specific stimuli under the various contexts.
The ultimate goal of our computational cell biology laboratory is to delineate the dynamics
underlying the complex cellular responses, which resembles a "chaotic system." We utilize
biological tools of various systems to investigate the complex behaviors of cells, by developing
specific mathematical models, which will be validated by computational simulation methods. To develop predictable
mathematical models for various human disorders such as Alzheimer's disease, atherosclerosis and brain tumors, we
especially focus on the intracellular biochemical networks responsible for proliferation, inflammation, angiogenesis and
apoptotic cell death.
Development of early diagnostic tool for neurodegenerative diseases based on retinal neuromuscular coupling
When neurons in a brain are activated, they require
more blood supply. To match this need,
surrounding blood vessels are dilated, and blood
flow rate is increased. This process is called
'neuromuscular coupling', which has been known
to be impaired in various neurodegenerative
diseases such as Alzheimer's disease (AD)and
Parkinson's disease(PD).It has been proposed that
impaired function of neurovascular coupling in
neurodegenerative brains actually precedes the
loss of cognitive functions and any pathological
alterations of the brain tissue, and at the same time it is also regarded as one of the leading pathogenic mechanisms via
its vicious effect on brain perfusion. In the retina which is the extension of the central nervous system into the eyes,
neurovascular coupling in response to light stimulation has been observed. It is also reported that function of the retinal
neurovascular coupling is impaired in non-eye-specific diseases such as hypertension. Based on these previous results,
we hypothesized that the function of retinal neurovascular coupling would be impaired in the early stage of
neurodegenerative diseases and there would be a temporal correlation between cerebral and retinal neurovascular
coupling impairment during progress of the diseases. Therefore, we propose that monitoring retinal n neurovascular
coupling function might be used as a non-invasive diagnostic tool for neurodegenerative diseases at early stage. We are
now conducting experiments using neurodegenerative animal models to confirm the hypothesis in vivo. Our diverse and
advanced in vivo imaging techniques are expected to clarify the attractive concept before long.
Dynamic Fluorescence Imaging for functional monitoring of tumor vasculatures

Angiogenesis is essential for tumor growth and a promising target for cancer therapy. In vivo monitoring of functional
blood vessels is an indispensable tool for evaluation and development of anti-angiogenic drugs. Recently, we developed a
new noninvasive in vivo imaging tool, named dynamic fluorescence imaging(DyFI), for the simultaneous measurement of

multiple vascular parameters including vascular density, perfusion rate, and permeability using spatiotemporal profiles
of indocyanine green. Using DyFI, we quantitatively measured multiple vascular parameters in tumors and normal
tissues with high spatial resolution. The multimodality of this method allowed us to find negative spatial correlations
between perfusion and permeability. Moreover, DyFI was effective for revealing the early effects of an anti-angiogeneic
drug; these findings were validated using
two-photon microscopy. We expect that DyFI could be a useful tool for the preclinical development of anti- angiogeneic
drugs.
Delineation of novel crosstalk mechanism between TGF- ‚ and TNF- signaling pathways.
Cells continuously face diverse stimulation and
integrate the signals for proper response;
however, our current understanding gas been
restricted only to study of individual signaling
cascades inside the cell. To get more in vivo-like
information from normal physiology or diseased
conditions, it is required to consider crosstalks
between different signal transduction pathways.
In this project, we studied effects of two major
cytokines of opposite roles: tumor necrosis
factor-alpha (TNF-alpha) and transforming
growth factor-beta (TGF-beta). Interestingly, we
found that in the absence of TGF-beta, TNF-alpha activated both NF-kB and MAPKs including JNK and p38. In the
presence of TGF-beta, however, TNF-alpha-dependent activation of JNK and p38 was remarkably reduced, whereas NF-
kB was intact. Because JNK and p38 cause cell death, pretreatment with TGF-beta rescued cells from TNF-alpha-
dependent apoptosis. We unravelled internal mechanism of this novel crosstalk between TGF-beta and TNF-alpha
signaling pathways.
TGF-beta highly increased expression of MAPK-specific phosphatase 1 (MKP1) through Smad2/3 in hour.
Because the target of MKP1 is JNK and p38, cells can be resistant to subsequent TNF-alpha stimulation.

4.1.4. Computational Genomics and Epigenomics Laboratory
(Prof. Jung Kyoon Choi, http://compgen.kaist.ac.kr)
Rapid advances in high-throughput sequencing and chip-based technologies bring about a

paradigm shift in the way we think about life and how we study underlying mechanisms of life.
Swimming in the sea of ever growing biological data, we can now ask and answer new questions
that have never been asked or answered before, thanks to the phenomenal development of
computer and information technologies. The aim of our laboratory is to uncover novel biological
knowledge that is buried under a myriad of information coming from whole-genome genetic,
epigenetic, and transcript data by developing and applying analytical methods, hoping for valuable
discoveries that can increase human health.
Research Areas
1) Whole-genome cartography of histone H2A.X upon X-ray irradiation

A variant of histone H2A, H2A.X, plays a pivotal role as a
determination switch between DNA repair and cell
death upon DNA double-strand break. We are
interested to reveal its distribution across the whole
genome and its changes in response to DNA double-
strand break, which leads to phosphorylation on a
serine residue of H2A.X. By utilizing next-generation
sequencing technology (ChIP-seq), we are planning to
map H2A.X and phosphorylated (gamma) H2A.X in the
normal and X-ray irradiated T cells. This study could be
extended to examine cancer-induced DNA damage and
its repair especially in terms of 3D chromatin
interactions.
2) Role of intragenic epigenetic mechanisms

Recent epigenomic data suggest a significant role for
intragenic epigenetic marks. Contrary to the previous
notion, DNA methylation and some histone
modifications are observed at a higher level in gene
bodies than in promoters. There is growing evidence
that they might be involved in RNA splicing or
suppression of antisense or cryptic transcripts. Our
plan is to profile particular fly mutants in terms of
nucleosome positioning, H3K36me3, RNA polymerase
II, and exon expression to validate the function of the
intragenic epigenetic mechanisms.

3) Regulatory and functional interaction map of histone residues

A histone systemic mutation library can be a great resource for studying functional roles of histone residues in the
context of 3D structure. Phenotypic changes due to each histone mutation were profiled and are available at a public
database (http://histonehits.org). By measuring the effect of each histone mutation in terms of regulatory changes by
means of DNA microarrays, we expect to observe regulatory relationships of histone residues, reveal molecular
mechanisms underlying phenotypic changes, and uncover novel residues that are linked with post-translational
modifications.
4) Neurogenomics
Genome-wide association analysis offers great opportunities to study neurological disorders by harnessing the power of
population genetic analysis with the help of genomics tools such as genotyping microarrays. There have been such
studies for Alzheimer’s disease, schizophrenia, Parkinson’s syndrome, to name a few. Specifically, we are involved in
genetic studies of sleeping disorders such as insomnia. For example, genetic differences between insomniacs and non-
insomniacs provide insights into genetic risk factors that are underlying sleep control and potential therapeutic agents
that can be used in clinics.

4.1.5. Computational Neurophysiology Laboratory
(Prof. Christopher D. Fiorillo, http://bioeng.kaist.ac.kr/fiorillo.htm)
The computational principles underlying neural function are largely unknown. Work in our
laboratory combines computational principles with neurophysiological and behavioural analyses to
further our understanding of neural information processing. The purpose of the brain is to select
amongst potential behaviours or motor outputs, a function that could be viewed as “decision-
making” (in a broad sense of the term). The basic problem in decision-making is uncertainty about
aspects of the world related to biological goals, or “reward.” Thus our research seeks to understand
how neurons and networks of neurons can learn through neural plasticity to accurately predict
reward-related aspects of the world.
Testing a General Computational Theory of the Nervous System

A primary goal is to test a general computational theory of nervous system function. My previously published work
(Fiorillo, 2008), which is freely available at www,plosone.org, proposed a general computational theory of the nervous
system. According to the theory, each neuron learns in the same manner (through Hebbian and anti-Hebbian plasticity)
to predict the state of a small part of the world. However, because each neuron develops in a unique environment, each
neuron naturally acquires its own distinct information about a distinct part of the world, depending on the statistical
patterns in the inputs to which the neuron is exposed. Due to the influence of reward feedback on synaptic plasticity,
neurons further from the sensory periphery would have less information about the immediate sensory world, but more
information about “future reward,” and would thus be in a position to render the system’s “decision” about the most
appropriate output. If the theory is correct, it could potentially allow us to progress towards the creation of artificial neural
networks that possess the intelligence of biological nervous systems.
A schematic illustration of the proposed computational

function of a single generic neuron (Fiorillo, 2008). The
output of the neuron corresponds to prediction error, or
the difference between current and prior information. The
neurons selects its own inputs. Hebbian plasticity
mechanisms select amongst those individual inputs
contributing current information in order to maximize the
prediction error. Anti-Hebbian plasticity mechanisms
select amongst those individual inputs contributing prior
information in order to minimize the prediction error.
One critical means of testing the theory will be to simulate a network of these artificial neurons and to ask whether the
network is able to organize itself so as to generate intelligent and adaptive outputs. The theory also proposes a novel and
important role for non-synaptic ion channels. Past theoretical and experimental work has focused on plasticity at
synapses as a critical component of learning. Different synapses contribute information from different points in space,
and an individual neuron selects some synapses over others. Similarly, different types of voltage-regulated non-synaptic
ion channels contribute information from different periods of the past (due to their differing kinetic properties), and
somehow a neuron selectively expresses some types of ion channels but not others. However, although the effect of non-

synaptic ion channels on a neuron’s output is comparable in strength to the effect of synaptic ion channels, little attention
has been given to the rules that govern how a neuron selects from amongst its non-synaptic ion channels. My published
theory suggests that the detection of coincident activation of non-synaptic ion channels and the neuron functions to select
those ion channels that provide the most predictive temporal information (following a plasticity rule known as “anti-
Hebbian”). This novel proposal will be tested through in vitro electrophysiological experiments.
Dopamine Neurons
In addition to exploring the general computational theory described above, a second component of the work in our
laboratory examines the physiology of midbrain dopamine neurons in behaving animals. According to the theory
summarized above, as well as other accounts, the neural development of goal-directed behavior requires one or more
reward signals that shape neural circuitry. A group of neurons in the midbrain that contain the neurotransmitter
dopamine are thought to provide such a reward signal. Dopamine neurons are well known to be of primary importance in
drug addiction, Parkinson’s disease and schizophrenia. Starting around 1980, dopamine became known to the public as
the “pleasure chemical,” although we now know that this description is rather simplistic and misleading. Physiological
studies have shown that dopamine neurons are activated when reward value is better than expected, and their activity is
suppressed when reward value is worse then expected. Thus dopamine neurons are said to encode a “reward prediction
error.” Prior to this physiological discovery, such errors were already used to drive learning in models of reinforcement
learning, in both machines and animals. Based on the apparent correspondence between theory and physiology, as well
as a large body of pharmacological evidence, it is believed that dopamine may function to teach the brain to distinguish
what is “good” from what is “bad” by modulating neural plasticity.
To investigate the function of dopamine neurons, electrophysiological recordings of individual dopamine neurons are
performed in behaving animals. My published work has examined the effect on dopamine neurons of uncertainty about
reward magnitude (Fiorillo et al., 2003; Tobler et al., 2005), and has used the dopamine error signal to characterize the
temporal precision of reward prediction (Fiorillo et al., 2008) (see figure). My unpublished work has shown that
stimulation of a structure in a part of the brain called the thalamus has reward value and also activates midbrain
dopamine neurons (Fiorillo and Newsome, 2006). Data on the responses of dopamine neurons to aversive stimuli are still
being analyzed, but partial results have been presented at the annual conference of the Society for Neuroscience (Fiorillo
and Newsome, 2008). My observation suggest that dopamine neurons are sensitive to a variety of different types of reward
events, and I have characterized how an animal’s prior information related to uncertainty about reward magnitude and
timing shapes the prediction-error responses of dopamine neurons.
The prediction-error signal of dopamine neurons following receipt of juice reward increased in proportion to the
logarithm of the interval between onset of a conditioned stimulus and receipt of juice reward (Fiorillo et al., 2008). This
suggests that the temporal precision of reward prediction
declines as interval duration increases. Thus the
expectation of reward at the end of an 8 second interval
was not strong, even though the animals had extensive
experience in timing the 8 second interval.
Whereas past work has examined responses of dopamine

neurons to natural reward stimuli, an important

component of future work will be to study the influence of artificial reward stimuli on dopamine neurons, including
electrical brain stimulation reward and addictive drugs. An important goal of this work is to explore computational
theories of reinforcement and drug addiction. Another research interest is in the effect of various clinically relevant drugs
on the responses of dopamine neurons to natural reward stimuli. In addition, future experiments will examine the effect
of the dopamine released by natural reward events on behavior and neural plasticity.
R e fe re n ce s
1. Fiorillo CD, Newsome WT. Modulation of dopamine neurons by aversive stimuli. 38th annual meeting of the Society for
Neuroscience, Washington D.C., Nov. 15-19, 2008.
2. Fiorillo CD. Towards a general theory of neural computation based on prediction by single neurons. PLoS ONE, 3: e3298
(2008).
3. Fiorillo CD, Newsome WT, and Schultz W. The temporal precision of reward prediction in dopamine neurons. Nature
Neurosci 11: 966-973 (2008).
4. Fiorillo CD, Newsome WT. Activation of Midbrain Dopamine Neurons by Brain Stimulation Reward in Mediodorsal
Thalamus. 36th annual meeting of the Society for Neuroscience, Atlanta, Oct. 14-18, 2006.
5. Tobler PN, Fiorillo CD and Schultz W. Adaptive coding of reward value by dopamine neurons. Science 307: 1642-1645
(2005).
6. Fiorillo CD, Tobler PN, and Schultz W. Discrete coding of reward probability and uncertainty by dopamine neurons.
Science 299: 1898-1902 (2003).

4.1.6. Brain Dynamics Laboratory

(Prof. Jaeseung Jeong, http://raphe.kaist.ac.kr)
The ultimate goals of our laboratory are to understand fundamental mechanisms underpinning
information processing of the brain and to elucidate pathophysiology of various neuropsychiatric
disorders. We utilize various concepts from diverse fields; economics, psychology, neuroimaging
techniques (EEG/fMRI), electrophysiological recording, and computational modeling. Our research
topics include animal electrophysiological recording (1) and human non-invasive neuroimaging
studies during various cognitive tasks (2-5). Human decision-making processes also have been
studied in neuroeconomics point of view using game theory and neuroimaging tools (6, 7). We also
collaborated with several groups of psychiatrists, and neurobiologists executing interdisciplinary research topics (8-10).
Cognitive motivations of free-riding and cooperation

Sponsor: Korea Science and Engineering Foundation (2007.9-2010.8)
Free-riding behavior has been a critical issue to be solved in the provision of the public goods. The origin of free-riding
and cooperative behavior has received much attention in various social studies, but their underlying mechanisms are
poorly understood. The aim of the current study was to
investigate human strategic decisions based on
valuating the incentives to cooperate or to free-ride and
particularly the cognitive and emotional motivations of
free-riding behavior. We examined the decision
patterns of 41 healthy subjects and 37 schizophrenic
patients during performance of the public goods (PG)
game, one of the popular games often used to simulate
human cooperation and free-riding in group
interactions. Strategic decision processes during the
iterative binary PG game were assessed in terms of
Mean free-riding ratios in each session. Healthy subjects exhibited
significantly lower free-riding rates in session III than in session I. cognitive understanding, loss sensitivity, and theory of
Schizophrenic patients showed comparable free-riding rates across all three mind (TOM).
sessions, but showed relatively lower rates of free-riding than the healthy
group. Black asterisk: within-group difference; grey asterisk: between-group We observed that fear of losing money and greed for
difference. Standard errors of each session are represented as error bars. earning more money than others both induced healthy
**p<0.01; ***p<0.001
subjects to free-ride. We also observed the superior
Mean free-riding ratios in the trials preceded by successful or failed trials. Both groups displayed comparable free-riding rates regardless of the result of
the preceding trial in (a) session I and (b) session II. (c) Only healthy subjects exhibited significantly less free-riding ratios in trials following successful
versus failed trials in session III. Standard errors of each session are represented as error bars; **p<0.01

Mean free-riding ratios in the trial following a trial with the indexed number of free-riders. Both groups displayed comparable free-riding rates within their
groups in (a) session I and (b) session II. (c) In session III, healthy subjects showed significantly higher free-riding rates when all participants defected
than when 0, 1, or 2 players free-rode in the preceding trial. Black asterisk: within-group difference; grey asterisk: between-group difference. Standard
errors of each session are represented as error bars. *p<0.05; **p<0.01; ***p<0.001
influence of greed over fear found in previous behavioral experiments. The healthy subjects showed notable sensitivity of
loss and TOM behavior through repeated trials of the PG game. In contrast, the schizophrenic patients had low sensitivity
to both fear of losing money and greediness which result in highly cooperative behavior in the PG game. Furthermore, the
schizophrenic group showed diminished loss aversion and dysfunction of TOM on iterated PG trials. They also showed
abnormal population drift, i.e., non-strategic decision changes, between cooperator and free-rider behavior through
repeated rounds. To the best of our knowledge, this study is the first investigation for free-riding and cooperative
behaviors in psychiatric patients and shows that the three-session, iterative binary PG game is useful for assessing social
decision-making impairments in psychiatric diseases such as Schizophrenia.
R e fe re n ce s
1. W.H. Shim, Y.W. Chae, K.Y. Baek, Jaeseung .Jeong, Bruce Rosen and Y.R. Kim, “Comparison between BOLD and CBV
Fluctuations using Partial Directed Coherence in Rat Brains during Rest”, Brain & BrainPET 2009, Chicago, Illinois-
USA, June 29th - July 3rd, (2009)
2. J. Dauwels, F. Vialatte, C. Latchoumane, Jaeseung Jeong and A. Cichocki, “Loss of EEG synchrony in early-stage AD
patients: a study with multiple synchrony measures and multiple EEG data sets,” the 31st Annual International IEEE
EMBS Conference to be held in Hiltone inneapolis, innesota, USA, September, 2-6 (2009)
3. Charles Latchumane and Jaeseung Jeong, Quantification of Brain Macrostates Using Dynamical Nonstationarity of
Physiological Time Series, IEEE Transactions on Biomedical Engineering (in press)
4. Won Kim, Seungyeon Kim, Jaeseung Jeong, Kyung-Uk Lee, Kook-Jin Ahn, Yong-An Chung, Keun-Young Hong, J eong-
Ho Chae, Temporal Changes in Functional Magnetic Resonance Imaging Activation of Heterosexual Couples for Visual
Stimuli of Loved Partners, Psychiatry Invest 6:19-25(2009).
5. Seungyeon Kim, Yong-An Chung, Jeong-ho Chae, Rahyung Ju, Jaeseung Jeong, Target-specific rCBF changes induced
by 0.3T static magnetic field exposure on the brain, brain Research 4(1317):211-7(2010)
6. Seongmin Park, Soyeong Jeong, Jaeseung Jeong “The influence of investigative TV report on viewers’ cooperative and
free-riding behaviors in public goods game”, the Neuroscience 2009, SfN's 39th annual meeting to be held in
McComick Center, Chicago, IL, USA, October, 17-21 (2009)
7. Kyongsik Yun, Jaeseung Jeong, Dongil Chung, “EEG analysis device, EEG device, brain-brain interface device and lie-
detector using the same, and EEG analysis method”, patent pending (10-2009-0115624) Korea.

8. Inhye Kim, Wonhye Lee, Hansem Sohn, Bradley S. Peterson, Hyunju Hong, Jeong-Ho Chae, Sayong Hong, Jaeseung
Jeong, “Linear and nonlinear analysis of the EEG in Adolescents with Attention-Deficit/Hyperactivity Disorder during
cognitive task.” Clinical Neurophysiology (Accepted)
9. Yong-An Chung, Sam-Wook Choi, Keun Ho Joe, Jaeseung Jeong, Younghoon Cheon, Dai-Jin Kim, Regional Cerebral
Blood Flow in Patients with Alcohol Related Dementia: A SPECT Study, International Journal of Neuroscience
119(11):2100-2111(2009)
10. Yong An Chung, Jaeseung Jeong, Dong Won Yang; Bong-Joo Kang; Sung Hoon Kim; Soo Kyo Chung; Hyung Sun Sohn,
Bradley S Peterson, A Tc-99m SPECT Study of Regional Cerebral Blood Flow in Patients with Transient Global
Amnesia, NeuroImage 47(1):50-55 (2009)

4.1.7. Biophotonics Laboratory
(Prof. Ki-Hun Jeong, http://biophotonics.kaist.ac.kr)
The capability for biosensing, biomedical imaging, and biomolecular manipulation has become
essential in current biomedical research and development. Light is very attractive in that it can be
utilized for all these functions. Biophotonics is the study of light interaction with biological matter
and it is also recently regarded as the key science for the next generation of clinical tools and
biomedical research instruments. This research area, however, is still in need for advanced
biomedical imaging techniques, highly sensitive biophotonic sensors, and massive/rapid
biomolecular manipulation methods. For last decade, a remarkable achievement in
nano/microscale manufacturing of engineering materials has been rapidly stimulated by MEMS and NEMS (Micro/Nano
Electro-Mechanical systems) technology and moreover high sensitive metrological techniques at micro/nanoscale lead
physiologists to deeper understanding on the working mechanism of physiological structures in nature.
KAIST Biophotonics laboratory is currently developing next generation functional endoscopy incooperated with
biomimetic photonics and bionanoplasmonics..
Nature provides innovative solutions for effectively handling photons. For example, compound eyes have extinguished
optical schemes for wide field-of-view imaging and fast motion detection in small form factor. Biologically inspired
artificial compound eyes featured in Science 2006 as a cover article is one of extraordinary achievements. This work is
being developed for endoscopic imaging lenses and illumination lens. Not only lenses, advanced photonic devices
inspired from nature’s vision, bioluminescence, and biocamouflage organs are also being actively developed for
functional endoscopy. Label-free biosensing is a key requirement for functional endoscopy. Ultra high sensitive
biosensing and bioimaging techniques based on nanoplamonic biosubstrates are being developed. Small molecules such
as neurotransmitters are hardly detectable without labeling. Nanoplasmonic biosensing techniques also enable the
detection of small molecules at pico molar level by incooporating nanofluidics and nanopores. Nanophotonic and
Microphotonic techniques are currently being empolyed for functional endoscopy based on optical coherence tomography
(OCT) and Terahertz time-domain spectroscopy.

Biomimetic Advanced Photonic Devices

In nature, animal eyes can be categorized as four
types of shadow eyes, camera eyes, compound eyes,
and reflective eyes depending on their optical
schemes. Each optical scheme has both advantages
and disadvantages but fully functional enough to
satisfy their need for survival. We have demonstrated
several biomimetic efforts for advanced photonic
systems. For examples, tunable liquid-filled
microlens arrays inspired from autofocus mechanism
of human retina and a deformable CMOS image sensor array mimicking human retina with spherical configuration to
minimize optical aberrations. Especially, insect’s compound eyes have been of my most concern among natural optical
schemes, because their optical schemes are completely different from others. They have many advantages capable of
wide field-of-view detection, polarization detection, spectral sensitivity, and fast motion detection in miniaturized imaging
system. Our approach on the demonstration of biomimetic microfabricated compound eyes for omni-directional detection
can also be a suitable example for the development of biomimetic advanced photonic devices. The omni-directional
optical sensing of insects in a small form factor is one of the most important needs for their survival. Their functionality is
achieved by spherically arranging ommatidia that collect impinging light within small angle ( 4 ). Each ommatidium
consists of a light refracting facet lens, a light-guiding crystal cone and rhabdomere, and photoreceptors. The
engineering duplication of the unique 3D structure has been demonstrated by utilizing polymer microlens and a nonlinear
UV lithographic process called a self-written waveguide process in a photosensitive polymer resin. This work gives a new
paradigm for developing wide field-of-view detection or motion detection in surveillance detectors, mini-robots, and
miniaturized imaging systems such as digital cameras or mobile phones.
R e fe re n ce s
1. J. Kim, S. Chae, K. Jeong, ”A micropatterned single lens for wide-angle light-emitting diodes”, Optics Letters, 35(6),
2010.
2. H.Jung, K. Jeong, “Microfabricated Artificial Ommatidia Using a Laser Induced Self-writing Process”, Optics Express,
17(17), 2009.
3. K. Jeong, J. Kim, L.P. Lee, “Biologically inspired artificial compound eyes,” Science, 2006, 312 (5773): 557-561.
4. K. Jeong, G. L. Liu, N. Chronis, L. P. Lee, “Tunable microdoublet lens array,” Optics Express, 2004,12 (11): 2494-2500.
5. P. Hung, K. Jeong, G.L. Liu, L. P. Lee, “Biomimetic imager as omni-directional sensor,” Applied Physics Letters, 2004,
85 (24): 6051-6053.
6. J. Kim, K. Jeong, L. P. Lee, “Artificial ommatidium by microlens-induced self-writing of waveguide,” Optics Letters,
2005, 30 (1): 5-7.
7. N. Chronis, K. Jeong, G. L. Liu, L. P. Lee, “Tunable liquid microlens array integrated on microfluidic network,” Optics
Express, 2003, 11 (19): 2370-2378.

Biophotonic NEMS/MEMS for Biomolecular Sensing and Biomedical Imaging
The development of highly sensitive nano/microscale biophotonic
sensors that can improve the fundamental understanding of natural
system is of our major interest. A nanomechanical force gauge for force
measurement in a pico-newton regime, and dielectro-spectroscopic
nanogap electrodes for the dielectro-spectroscopic detection of label-
free DNAs/protein conformation and nano-knifes for mechanical cell
lysing in a sample preparation biochip have been previously done. In
particular, optical coherence tomography similar to low coherence
interferometer is the emerging modality for in-depth biomedical
imaging. Unlike ultrasonic imaging or confocal imaging, the unique
advantage of this method is that the lateral resolution can be achieved
down to the diffraction limit with the penetration depth of several millimeters. This technique is recently coupled with
endoscopic imaging for early cancer detection. One of the most critical elements is a high speed scanning device within
an endoscopic catheter of few millimeters. Scanning MEMS mirrors, lens scanners, or fiber scanners can be utilized as a
fast scanning device. Our approach is focused on the development of MEMS mirrors and lens scanners for OCT based
endoscopic catheter that requires the parallel consideration from design to packaging due to spatially restriction.
R e fe re n ce s
1. K. Jeong, L. P. Lee, “A novel microfabrication of a self-aligned vertical comb drive on a single SOI wafer for optical
MEMS applications,” J. Micromechanics and Microengineering, 2005, 15: 277-281
2. K. Jeong, C. G. Keller, L. P. Lee, “Direct force measurements of biomolecular interactions by nanomechanical force
gauge,” Applied Physics Letters, 2005, 86 (17): 193901-193903.
3. M. Yi, K. Jeong, and L. P. Lee, “Electrical double layer interaction within nanogap,” Biosensors and Bioelectronics, 2005,
20 (7): 1320-1326.
4. D. Di Carlo, K. Jeong, L. P. Lee, “Reagentless mechanical cell lysis by nanoscale barbs in microchannels for sample
preparation,” Lab on a Chip, 2003, 3 (4): 287-291.

4.1.8. Cognitive and Behavioral Neuroscience Laboratory

(Prof. Yong Jeong, http://ibrain.kaist.ac.kr)
Understanding the human brain is one of the most seductive and challenging topics in the scientific
field. Among the function of brain, higher cognitive functions such as perception, memory, attention,
language, judgment, emotion are the core factors which make human “intellectual” beings.
Cognitive and behavioral neuroscience is an academic field concerned with the scientific study of
biological mechanisms underlying
cognition, with a specific focus on
the neural substrates of mental
processes and their behavioral manifestations. Results
from these studies are applicable to neurosurgical
intervention, to the design of medical interventions and
to the treatment of neurological and psychiatric
disorders. The aims of our laboratory are to
understand the higher cognitive functions of human
brain (how the brain works) and to develop restoration,
augmentation and modulation systems for patients
with brain dysfunctions using current cutting-edge
bioengineering techniques.
Research Areas
1) Brain mapping and Neural Engineering

Recent technological advances allow us various imaging tools for brain mapping, a study of the relationship between
structure and function in the human brain. Brain mapping can be acquired from the electrical or magnetic signals and
through measuring metabolic or hemodynamic activities of the brain. We are using different modalities of neuroimaging
techniques including magnetic resonance imaging (MRI), PET (positron emission tomography), SPECT (single photon
emission computed tomography), NIRS (near-infrared spectroscopy) and etc. We combine the brain imaging information
with behavioral and neuropsychological testing, and establish a theoretical model of higher cortical functions. Our
research is undergoing to better analyze the brain mapping data (neuroinformatics) and network analysis. Eventually we
seek to develop modulation systems for patients with brain dysfunctions using neurochip or bio MEMS technique.
2) Clinical Neuroscience and Neuropsychology

Patients with brain damage or degeneration can provide us invaluable
cognitive function model. With deep collaboration with major university
hospitals, we are performing clinical studies on patients with neurological
disorders. We are trying to characterize the neurological diseases such as
Alzheimer’s disease, Parkinson’s disease, frontotemporal dementia and
stroke using neuroimaging techniques and to find candidate biomarkers.
In addition, to understand the mechanism of hemispatial neglect and
visuomotor control system. Our methods are equally diverse; including

neuroimaging, behavioral and neuropsychological testing, transcranial magnetic stimulation, event-related potentials,
eye tracking, motion tracking, and computational modeling.
3) In Vivo System for monitoring neuronal and neurovascular activities

With a certain cognitive process, clusters of neurons activate together and
form neural circuit that is thought be a substrate of such process. In
addition, neuronal activities always follow changes of vascular activity that
increase the blood flow of those regions of the brain, the neurovascular
coupling. Neurovascular coupling forms the basis of functional MRI
signals. Altered coupling may explain various disease conditions such as
hypertension, Alzheimer disease, epilepsy and stroke. For understanding
the behavior of neural circuit and coupled vascular activities,
simultaneous recording of both systems is needed. Using two-photon
microscope, we converge optical imaging (intrinsic optical signal, calcium
signal and microvasculature activity), electrophysiological technique and
biomolecular analysis. We are applying this system to understand the
mechanism of cognitive processing and also neurological disorders which alter the neurovascular coupling.

4.1.9. Protein Bioinformatics Laboratory

(Prof. Dongsup Kim, http://pbil.kaist.ac.kr)
The aim of the Laboratory is to study all molecular biological systems using physical, chemical, and
computational principles in order to understand such systems and to develop mathematical and
computational models. This will make possible the establishment of predictive biosystems models,
which can be used in applications such as the development of new drugs and innovative diagnosis.
The main research areas include the prediction/analysis of the structure and function of proteins,
structural study of protein-ligand and protein-protein interactions, computational protein design,
and computational drug discovery.
Protein Bioinformatics
In order to develop the accurate prediction systems for proteins, it is
essential to develop several key prediction methods. Recently, we
developed a remote homolog detection algorithm with the highest
sensitivity [1], a prediction method for hot spots in protein interaction
interfaces [2], a new method for detecting correlated mutations in
proteins [3]. By combining all these developments, we aim to create a
total prediction system for proteins. One of our recent studies is on the
protein-protein interactions [4]. In this study, we examined yeast
protein?protein interaction networks and discovered a close relationship
between the path-based localized information centrality and gene
essentiality, which suggested underlying topological features that
represent essentiality. We proposed that two important features of the
localized information centrality (proper representation of environmental complexity and the consideration of local
subnetworks) are the key factors that reveal essentiality. We also found that functionally related proteins tend to share
similar network properties.
Computational Protein Design

In protein design, we are trying to create new non-natural proteins with more desirable properties, for example, more
efficient enzymes, stronger antibodies, and more specific transcription factors, etc. Experimental ways to design a new

protein is a very inefficient process relying on serendipity,
requiring enormous amount of time and effort. Teamed up
with experimental groups, we are developing a new
computational method and strategy for protein design by
combining sequence analysis, protein structure prediction,
protein-ligand interaction, protein-protein interaction,
protein structure analysis, and molecular dynamics
simulation.
Computational Drug Discovery

Integrating the biological networks and a variety of information [5] can provide entirely new opportunity to develop new
drugs. One related study on drugs’ promiscuity [6] can aid the drug repositioning. We are participating as a major player
in the international research consortium for S. pombe mutant library project, whose main goal is to develop experimental
and computational tools for systems biology and drug discovery. PBIL is primarily responsible for most of the
bioinformatics works required for the project. We are also studying physico-chemical and binding properties, such as
ADME/Tox properties and protein-ligand interaction property.
R e fe re n ce s
1. I. Jung, D. Kim, “SIMPRO: simple protein homology detection method by using indirect signals”, Bioinformatics, 25:729
(2009).
2. K. Cho, D. Kim, D. Lee, “A feature-based approach to modeling protein-protein interaction hot spots”, Nucleic Acid
Research, 37:2676 (2009).
3. B-C. Lee, D. Kim, “A new method for revealing correlated mutations uder the structural and functional constraints in
proteins”, Bioinformatics, 25:2506 (2009).
4. K. Park, D. Kim, “Localized network centrality and essentiality in the yeast protein interaction network”, Proteomics,
9:143 (2009).
5. S. Lee, K. Park, D. Kim, “Building a drug-target network and its applications”, Expert Opinion on Drug Discovery, 4:1177
(2009).
6. K. Park, D. Kim, “Predicting the multi-modal binding propensity of small molecules: towards an understanding of drug
promiscuity”, Molecular Biosystems, 5:844 (2009).

4.1.10. Bio-Information System Laboratory

(Prof. Doheon Lee, http://biosoft.kaist.ac.kr)
The aim of the Bio-Information System Laboratory (BISL) is discovering and developing novel bio-
markers based on bioinformatics and systems biology. Bio-markers are either proteins or
metabolites which can be a signature for any biological events mainly associated with diseases. For
several decades, medical doctors have depended on specific diagnostic data including organ biopsy
and radiation images, which are usually expensive, invasive and not useful for early diagnosis. The
new bio-markers represent genomic or pathway level changes, which enables more specified
diagnoses and rational prediction of prognoses. To discover these bio-markers, our lab works on
two major projects - the biosystem reverse engineering and the cancer marker project. The biosystem reverse
engineering project concentrates on inferring accurate and applicable biological circuits, which provides the
informational basis for the bio-marker candidate discovery. The cancer marker project focuses on the discovery of
clinically applicable biomarkers for cancers based on the achievements of the biosystem reverse engineering project.
Microbial Systems Bioinformatics for Metabolic Engineering

Sponsor : Korea Science and Engineering Foundation (KOSEF) (2003.6~2012.5)
With increasing evidences for biological system, we found that many organisms had diverse regulation mechanism to be
adjusted to environmental changes. High-throughput data have provided the opportunity for its explanation at genome
scale. Especially, microarray technology has enabled us to observe the global changes at mRNA level, and it was widely
used currently.
But the numerous experimental evidences provide that not only the information from mRNA level, the other levels could
be participated at these regulations. Translational efficiency affects the expression of protein, stability of mRNA and
protein also provides the opportunity of regulation. And also in vivo factor such as protein, mRNA, metabolite can interact
with the components of different level. (Metabolite, protein can also bind to mRNA and regulate the expression. And also
mRNA itself can be used only for regulation instead of protein production.) For more exact examination, we have to
consider various kinds of information at different level systematically. So, we need the integrative system using multi-
omics data. To build the model of regulation up to now, we just need the relationship which is composed of regulator
protein and its target gene. But to build more precise model of regulation, it is necessary to obtain all the kinds of
information simultaneously. Based on the integrative system, we can confront more various kinds of perturbation which

interact with diverse level of biological component with more flexible and precise model.
Cancer Systems Bioinformatics

Sponsor : Samsung Medical Center (2007.1~2010.12)
Cancer is one of the leading causes of death in developed countries. Although many successful biomarkers have been
developed to date, their clinical applicability is limited because of their low accuracy and inaccessibility. Advances in '-
omics' science and bioinformatics promise to develop more informative and accessible biomarkers which can be used in
many clinical areas including risk assessment, early detection of disease, disease stratification and prognosis, response
to therapy, and screening for disease recurrence.
Our research objective is to develop exploratory bio-markers based on integrated disease networks. With the disease
network model, we extract active disease pathways by applying cancer specific multi-omics data to the network. The
active pathways themselves can be used to discriminate normal persons and cancer patients. The pathways can also give
us clues to find out alternative biomarkers called surrogate biomarkers, in case no clear biomarkers are discovered. We
cooperate with Samsung Hospital for this project. We previously applied a protein-network based approach that identifies
markers not as individual genes but as subnetworks extracted from protein interaction databases. The resulting
subnetworks provide novel hypotheses for pathways involved in tumor progression [1]. Additionally, we proposed a new
classification method based on pathway activities inferred for each patient [2]. We show that classifiers using pathway
activity achieve better performance than classifiers based on individual gene expression, for both simple and complex
case-control studies including differentiation of perturbed from non-perturbed cells and subtyping of several different
kinds of cancer.
Neurosystems Research
Sponsor : Korea Science and Engineering Foundation (KOSEF) (2009.1~2012.12)
We aim to identify factors in dopamine-related brain disorders through reverse engineering using data-mining
techniques. Our strategy is to bring together various pieces of information on dopaminergic brain disorders. The
information could be well-known expression patterns of specific genes, sequence motifs, or transcriptional regulatory
networks from patient's tissues. It could also be a result from cross-analysis of networks at the physiological level.

We develop a data-mining network model capable of learning from relatively small numbers of samples, while still being
robust against external noise and insensitive to changes in model parameters. First, we will apply data-mining technology
to some databases related to dopaminergic brain disorders. Second, by using network modeling and inference
techniques, we will construct candidate networks to organize a characteristic circuit of disease. Information integration
for reverse engineering of cellular and molecular networks will be done. The system we are constructing is called a
causality-based integrated VLINE (Very Large Information Network) system in which new information and patterns are
discovered by data-mining techniques. We define a prototype database using primary database interactions and
literature-based interactions. Also, we determine relation extraction methods and types for literature mining. GeneRIF
(Gene Reference Into Function) and Pubmed abstracts are utilized as data sources.
R e fe re n ce s
1. Eunjung Lee, Yu-Tsueng Liu, Doheon Lee, Trey Ideker, Deciphering breast cancer metastasis using protein networks,
Molecular systems Biology
2. Lee E, Chuang HY, Kim JW, Ideker T, Lee D, (2008) Inferring pathway activity toward precise disease classification, PLoS
Comput Biol.
3. Sohyun Hwang, Seung-Woo Son, Sang Cheol Kim, Young Joo Kim, Hawoong Jeong, and Doheon Lee, (2008) A protein
interaction network associated with asthma, Journal of Theoretical Biology

4.1.11. Neuro-Machine Interface Laboratory
(Prof. Kwang-Hyung Lee, http://nmi.kaist.ac.kr)
Neuro-Machine Interface Laboratory focuses on bio-embedded systems which combine the

electrical control systems based on computers and the nervous systems including the brain, spinal
cord, and muscle nerves. We have the capability to record electroencephalogram (EEG) using 64
channels on the scalp (Neuroscan) and the facility to align animals for the stereotaxic placement of
electrodes (David Kopf). We are applying these hardwares and our own technologies such as fuzzy
theories, Petri nets, neural networks, and data mining to develop the various neuro-machine
interface systems.
Brain Computer Interface System

A brain-computer interface (BCI), sometimes called a brain-machine interface, is a communication channel between
human brain and external machines in aid of electroencephalographic or other electrophysiological activity analysis of
brain. It can give alternative communication and control pathways for patients damaged on their brains and additional
communication channels for normal persons for controlling of computers or other machines.
Researches on BCIs have been going on for more than 30 years, but from the mid-1990s there has been a dramatic
increase in working experimental implants. Years of animal experimentation have successfully produced simple working
implants applicable to humans for restoring damaged hearing, sight and movement. The common thread throughout the
research is the remarkable cortical plasticity of the brain, which often adapts to BCIs, treating prostheses controlled by
implants as natural limbs. With recent advances in technology and knowledge, pioneering researchers could now
conceivably attempt to produce BCIs that augment human functions rather than simply restoring them, previously only
the realm of science fiction.
In this project, we have developed a new BCI system which can decode user-desired words in a certain situation using
EEG data from direct character imageries. The objective of this system is divided into two points. First, it should give
capability to use practically, which means that the developed BCI should yield useful communication rate or information
transfer rate. Second, the potential users of the system should feel comfortable when they express intended words or
their needs. Consequently, we have introduced a faster BCI system operated by EEG recorded when a user imagines his
intents directly and at the same time to make that BCI to show serviceable communications rate.
Animal Motion Control Systems

In order to realize animal motion control systems, we have been developing cue-induced rewarding models of animal
brains. To localize brain areas associated with the rewarding system, we have analyzed brain fMRI (functional Magnetic
Resonance Imaging) hemo-dynamics after introducing rewarding stimulation, such as food and dopamine, to the subject
animal. Based on the fMRI study, we also have developed cue-induced rewarding models through the analysis of
physiology of the corresponding brain areas after electrical stimulation. Now, we are planning to study the association
with animal behavior with the various electrical signals.

R e fe re n ce s
1. Sungwon Jung, Doheon Lee, Kwang Hyung Lee (2007),H-CORE:Enabling genome-scale Bayesian analysis of biological
systems without prior knowledge BioSystems 90 (2007), 197-210
2. Sungwon Jung, Doheon Lee, Kwang Hyung Lee (2007), Enabling Large-Scale Bayesian Network Learning by Preserving
Intercluster Directionality, IEICE Trans. Inf. & Syst., Vol. E90-D, No. 7 July 2007, pp. 1018-1027
3. Byong-Wook Lee, Taehyung Kim, Seon-Kyu Kim, Doheon Lee, Kwang Hyung Lee (2007), "Patome: a database server
for biological sequence annotation and analysis in issued patents and published patent applications," Nucleic Acids
Research, 35(D), 2007
4. Dae-Won Kim, Ki-Young Lee, Doheon Lee, Kwang Hyung Lee (2007), "Towards clustering of incomplete microarray
data without the use of imputation," Bioinformatics, 23(1), 2007

4.1.12. Neural Engineering Laboratory
(Prof. Nam, Yoonkey, http://neuros.kaist.ac.kr)
The aim of Neural Engineering Laboratory is to develop ‘Neuron-on-a-Chip’ technology that can be
applied to neuroscience, cell-based biosensor, tissue engineering, and neural prostheses. There are
several key areas that are related to the design and analysis of Neuron-on-a-Chip.
First, we want to build live biological neuronal networks in vitro with ordered structures. We believe
that the cultured neuronal network is a good model system to study basic principles of learning and
memory at a network level. Micro-contact printing technique is the major method to print
biomolecules that can either promote or prohibit neuronal growth. Surface chemical cues and
topographical cues are the design rules for the guided neural growth in vitro. Recently, we have developed a simpler
method to print biomolecules in micro-meter scales in collaboration with Nanobiotechnology Laboratory (Prof. Park, Je-
Kyun, KAIST). [1] We also reported that neuronal networks can be patterned on a novel chemical film made out of cell-
repellent poly(oligo(ethylene glycol) Methacrylate) Films in collaboration with Biomimetic Chemistry Laboratory (Prof.
Choi, Insung, KAIST). [2]
Micro-contact printing of 10 polylysine grids (left), cultured neurons on the grids (right) [1]
A pattern of ‘KAIST’ was created with real neurons by micro-contact printing technique
Second, we design an integrated planar microelectrode array (MEA) system that can be used to study neurobiology and
neurophysiology. Novel flake nanostructures were optimized for neural interface in collaboration with Nano-Oriented
Bio-Electronic Laboratory (Prof. Choi, Yang-Kyu, KAIST). [3] BioMEMS devices or microstructures were integrated with a
planar-type MEA to implement a novel MEA system for high-throughput cell-based assay platform. Micro-scale neuronal
cultures in microchannel devices were interfaced with MEAs and the development electrical activity of neuronal networks

in confined volume of a few nano liters was successfully monitored by the MEAs.[4] We also developed an agarose
microwell based micro-neuronal circuit arrays coupled with a planar microelectrode array for a novel multi-well type
neuron-based biosensing platform. The simultaneous 60 channel detection of electrical activities from neuronal circuit
array allowed us to collect multiple data points from a single chip experiment. [5]
Planar microelectrode array system designed in Neural Engineering Lab.
Neuronal development in 50 wide microchannels and measured electrical activity

and extracellular action potentials [4]
Agarose hydrogel based micro-multiwell MEA platform [5]
Third, we are interested in the network structures and information processing of engineered neuronal networks in vitro.
We have explored the synchronized oscillating behaviors generated in the cultured neural networks using systems
biology approach (in collaboration with Prof. Kwang-Hyun Cho’s Lab at KAIST). Recently, we have found some interesting
network motifs that may be essential for the oscillating cultured neuronal networks [6].

Multichannel spike-trains from cultured neuronal networks and identified
coupled direct and indirect feedback motifs(CDIF) in the network. [6]
Fourth, we develop software and hardware platform to automate neural signal acquisition and analysis. We collaborate
with CMOS circuit designers to build large-scale integrated system for massively parallel neural recording and
stimulation in multichannel neural recording experiments [7, 8]
Retrofitted neural recording system for the stimulation and recording

from a stimulating electrode [7]
R e fe re n ce s
1. Hyundoo Hwang, Gyumin Kang, Ju Hun Yeon, Yoonkey Nam*, Je-Kyun Park*, "Direct rapid prototyping of PDMS from a
photomask film for micropatterning of biomolecules and cells," Lab Chip, Vol. 9, No. 1, 2009.
2. Kyungtae Kang, Gyumin Kang, Bong Soo Lee, Insung S. Choi*, and Yoonkey Nam*, “Generation of Patterned Neuronal

Networks on Cell-Repellent Poly(oligo(ethylene glycol) Methacrylate) Films”, Chemistry: An Asian Journal, in press,
2010.
3. Ju-Hyun Kim, Gyumin Kang, Yoonkey Nam*, and Yang-Kyu Choi*, “Surface-modified microelectrode array with flake
nanostructure for neural recording and stimulation”, Nanotechnology. Vol. 21, No. 8, 2010.
4. Gaurav Goyal and Yoonkey Nam, “Effective maintenance of cell microenvironment for long-term neuronal culture in
nano-liter scale microfluidic channels”, Proceedings of TAS 2009 Conference, pp. 522-524, Jeju Island, Korea, Nov. 1-
5, 2009.
5. G. Kang, J.H. Lee, C.S. Lee, Y. Nam*, “Agarose microwell based neuronal micro-circuit arrays on microelectrode
arrays for high throughput drug testing”, Lab. Chip, Vol. 9, No. 22, pp. 3236 ? 42, 2009.
6. C. Dong, J. Lim, Y. Nam*, K. Cho*, “Systematic analysis of synchronized oscillatory neuronal networks reveals an
enrichment for coupled direct and indirect feedback motifs”, Bioinformatics, Vol. 25, No. 13, pp. 1680 ? 5, 2009.
7. Y. Nam*, E. A. Brown, J. D. Ross, R. A. Blum, B. C. Wheeler, S. P. DeWeerth, “ A retrofitted neural recording system
with a novel stimulation IC to monitor early neural responses from a stimulating electrode”, Journal of Neuroscience
Methods, Vol. 178, No. 1, pp. 99-102, 2009.
8. E.A. Brown, J.D. Ross, R.A. Blum, Y. Nam, B.C. Wheeler, S.P. DeWeerth*, “Stimulation-artifact elimination in a multi-
electrode system”, IEEE Trans. Biomedical Circuits and Systems, Vol. 2, No. 1, pp. 10 - 21, 2008.

4.1.13. NanoBiotech Laboratory
(Prof. Je-Kyun Park, http://nanobio.kaist.ac.kr)
Micro/nano fluidics, one of the major nanobiotechnology fields, has been a key technology for the
realization of micro total analysis systems (µTAS) or lab-on-a-chip and the next generation bio-tools
for drug discovery. This research covers the design and development of miniaturized devices that
manipulate liquid samples at nanoliter volumes, allowing biological assays to be integrated and
accomplished on a small scale with minimum time and cost. Prof. Park's research focuses on
nanobiotechnology and integrative bioengineering. During the last several years, his laboratory has
been interested in developing novel microfluidic devices for biotechnology and bioengineering,
based on the synergetic integration of miniaturization technology to biology, chemistry, and medicine. In particular, he is
interested in developing a novel nanobiosensor, microfluidic device, and lab-on-a-chip as a new platform for biological
sample processing and detection, including optoelectrofluidic manipulation, hydrophoretic separation, magnetophoretic
assay, and cell-based assay. From June 2008, his laboratory has been selected to receive a National Research Laboratory
(NRL) Program grant through the National Research Foundation of Korea funded by the Ministry of Education, Science
and Technology (MEST).
Optoelectrofluidic Manipulation Platform

Optoelectrofluidics refers to the motion of particles or molecules and their interactions with an optically induced electric
field and surrounding fluid. Recently, we demonstrated the rapid and selective concentration of microparticles by
combining several electrokinetic mechanisms and electrostatic interactions. The particle movements resulted from the
frequency-dependent behavior according to the particle diameter. The dynamic control of local molecular concentration
was also achieved by using several frequency-dependent optoelectrofluidic phenomena such as optically induced ac
electroosmosis, dielectrophoresis and electrostatic dipole interactions [1a]. Optoelectrofluidic fluorescence microscopy,
wherein an optoelectrofluidic device is integrated into a conventional fluorescence microscopy, made it possible both to
modulate and to detect the molecular concentration in a localized area at the same time. In another application, we have
demonstrated a sudden decay of molecular concentration in a localized
area by optoelectrofluidics in a few hundred Hz frequency range. On the
basis of this approach, the measurement of diffusion using different-sized
biomolecules has been performed [1b]. This technique would be a useful
tool for analyzing electrokinetic behavior of molecules as well as studying
molecular diffusion kinetics. In addition, the sudden change of local
molecular concentration can be applied for several biological and
chemical applications such as cellular chemotaxis and optoelectrofluidic
immunoassay.
Hydrophoretic Separation Platform

We proposed a new microfluidic separation scheme, hydrophoresis, which uses slanted or
anisotropic obstacles to induce hydrodynamic interaction between the obstacles and the
particles subjected to rotational flows induced by the obstacles. By exploiting the slanted
obstacles in a microchannel, we can eliminate the needs of sheath flows and complex channel
networks. In addition, we can generate a lateral pressure gradient so that microparticles can

be deflected and arranged along the lateral flows induced by the gradient. The equilibrium positions of the particles by the
hydrodynamic interactions depend on their size. The hydrophoretic principles were successfully applied to the particle
sizing, sheathless particle focusing, isolation of white blood cells, and self-sorting of mammalian cells to achieve cell
cycle synchrony [2a]. We recently reported the 3D measurement of hydrophoretic particle ordering for the exact
characterization of hydrophoresis by using an optically coated mirror-embedded microchannel [2b]. The mirror, ideally at
45°, reflects the side view of the channel and enables 3D positional information to be obtained easily from two different
orthogonal-axis images. With this method, it is shown that hydrophoresis is governed by convective vortices and steric
hindrance. It is also observed that hydrophoresis enables 3D particle focusing without sheath flows and accurate flow-
rate control.
Magnetophoretic Assay Platform

We developed a new immunoassay system based on the
magnetophoretic mobility of a microbead, depending on the
amount of associated superparamagnetic nanoparticles
under magnetic field gradient in a microfluidic channel. By
measuring the magnetophoretic deflection velocity of
microbeads as the signal for the presence of analytes, the
multiple analytes (such as allergen-specific IgEs in patient
samples) in a microchannel are simultaneously quantified
by conjugated nanoparticles as a label. Because
magnetophoresis is also influenced by magnetic field
gradient, the detection sensitivity of this assay system can
be improved to the sub-femtomolar concentration range
using an enhanced magnetic force from the ferromagnetic microstructures in a microfluidic device. This technology has
been successfully applied to develop a magnetophoretic, continuous purification platform that rids single-walled carbon
nanotubes (SWCNTs) of superparamagnetic iron-catalyst nanoparticles. We also demonstrated an ultrasensitive
magnetophoretic assay for prostate-specific antigen (PSA) using magnetic nanoclusters (MNCs) as a signal amplifier [3].
The developed system enabled detection of PSA as low as 50 fg mL-1 with a detection limit of 45 fg mL-1. It is expected to
be effectively applied to the detection of a target analyte with low abundance.
Cell-based Assay Platform

A microfabricated cell-based electrochemotherapy (ECT)
testing device which mimics a clinical electroporator of
circular needle-array is demonstrated to study the
electrochemotherapeutic effect on T47D human breast
cancer cells. Until now, the performance between
electroporators having two- and six-needle circular array
electrodes, which are the general needle-type clinical electroporators for ECT, has not been evaluated systemically,
although many studies have investigated the efficacy of ECT on cancer cells. In this study, the cell-based performance on
the newly developed ECT testing device was analyzed in two and six-electrode modes using propidium iodide and
bleomycin, and the electroporation characteristics were characterized [4a]. We also developed a microfabricated
electroporator for the irreversible electroporation (IRE) of tissues by miniaturizing a clinical electroporator with a two-

needle array while keeping the same electric field strength distribution. With the developed microfabricated
electroporator, the effect of IRE on rat liver tissues was analyzed with time by immunohistological stainings and electrical
measurement, and the experimental results were compared with those operated with the corresponding real-scale
clinical electroporator [4b].
R e fe re n ce s
1. a) Hyundoo Hwang, Je-Kyun Park*, Dynamic light-activated control of local chemical concentration in a fluid, Anal.
Chem., 2009, 81 (14): 5865-5870; b) Hyundoo Hwang, Je-Kyun Park*, Measurement of molecular diffusion based on
optoelectrofluidic fluorescence microscopy, Anal. Chem., 2009, 81 (21), 9163-9167.
2. a) Sungyoung Choi, Seungjeong Song, Chulhee Choi, Je-Kyun Park*, Microfluidic self-sorting of mammalian cells to
achieve cell cycle synchrony by hydrophoresis, Anal. Chem., 2009, 81 (5): 1964-1968; b) Sungyoung Choi, Je-Kyun
Park*, Optically coated mirror-embedded microchannel to measure hydrophoretic particle ordering in three
dimensions, Small, 2009, 5 (19): 2205-2211.
3. Zongwen Jin, Young Ki Hahn, Eunkeu Oh, Young-Pil Kim, Je-Kyun Park*, Seung Ho Moon, Jung-Tak Jang, Jinwoo
Cheon, Hak-Sung Kim*, Magnetic nanoclusters for ultrasensitive magnetophoretic assays, Small, 2009, 5 (20): 2243-
2246.
4. a) Youn-Suk Choi, Hong-Bae Kim, Seung-Hoon Kim, Jaekyu Choi, Je-Kyun Park*, Microdevice for analyzing the effect
of electrochemotherapy on cancer cells, Anal. Chem., 2009, 81 (9): 3517-3522; b) Youn-Suk Choi, Hong-Bae Kim, Junho
Chung, Hyung-Sik Kim, Jeong-Han Yi, Je-Kyun Park*, Preclinical analysis of irreversible electroporation on rat liver
tissues using a microfabricated electroporator, Tissue Eng. Part C Methods, 2010, In press.

4.1.14. Bio Imaging Signal Processing Laboratory

(Prof. Jong Chul Ye, http://bisp.kaist.ac.kr)
The main goal of BISPL is to develop new biomedical imaging applications of the compressed
sensing that can revolutionize the imaging industry and greatly enhance our ability to monitor
biological structures and processes. The imaging systems of our interests include existing
modalities such as magnetic resonance imaging (MRI), x-ray computed tomography (CT) as well as
emerging modalities such as near infrared spectroscopy (NIRS), cryo-electron microscopy, diffuse
optical tomography, optical microscopy and etc. We are aiming at developing new type of imaging
devices and sophisticated compressed sensing theory to address the many open problems in bio
imaging area.
k-t FOCUSS : CS dynamic MR imaging Algorithm

We developed k-t FOCUSS algorithm which is optimal from compressed sensing point of
view. According to compressed sensing theory, it is possible to reconstruct original
signal from severely reduced sampling ratio which break Nyquist sampling limit.
Therefore, this theory is getting huge interests in MRI area, because it is greatly required
to reconstruct artifact free images from very sparse measurements to improve
temporal resolution. There are some constraints to exploit this concept. From
compressed sensing perspective, the aliasing pattern due to down sampling should
incoherently appear. Therefore, the random sampling pattern is preferred.
Furthermore, the original signal should be able to be sparsely transformed or
compressed. And then, L1 minimization of the sparse signal is required. From these

basic assumptions, we found that FOCUSS is a very suitable reconstruction algorithm. FOCUSS is originally designed to
reconstruct sparse signal. Furthermore, L1 optimization is achieved by successively solving weighted L2 optimization
problem, which can be easily implemented. From these advantages, we successfully developed k-t FOCUSS which
reconstructs high spatio-temporal resolution of dynamic images such as a heart beating. [1][2]
Near Infrared Spectroscopy (NIRS) for Brain Imaging

Near infrared spectroscopy (NIRS) is a non-invasive method to
measure brain activity via changes in the degree of hemoglobin
oxygenation through the intact skull. In this research, we not only
develop a new public domain statistical toolbox, called NIRS-SPM [3],
but also quantitatively analyze the neurovascular coupling during
brain activation. Using this analysis tools, significantly different
behaviors of hemodynamic and metabolic changes are observed
between vascular dementia patients and controls. Furthermore, in
order to extract more individually adaptive activation region based on
the sparsity of neuronal activity, we propose a sparse dictionary
learning algorithm which decomposes the neural activity signals into
sparse signal atoms. [3]
Quantitative Phase Microscopy (QPM)

Phase microscopy is commonly used to visualize live cells without an exogenous contrast agent. In this research, we
develop a type of novel self-reference interferometry suitable for monitoring microfluidic devices. Our system uses the
light through the non-channelized areas of microfluidic devices as a reference field. Two distinct setups, phase shifting
interferometry and Hilbert phase microscopy, can be readily
implemented by changing the reflection optics in the reference arm.
The main advantage is to replace the scanning of the objective lens or
the specimen with a mirror scanning in the object arm to facilitate
the increase of the depth-of-field. Even though phase contrast or DIC
microscopy is often used to qualitatively measure the 3D morphology,
quantitative phase measurements are still important, and QPM is
therefore a more reliable measurement technique. [4]
Thz Time-Domain Spectroscopy

Terahertz time-domain spectroscopy generates the broad-band light which ranges
from 0.2THz~2THz (1THz = 1x10^12Hz ~ 0.3mm). This broad band light is
transmitted through the volume space and is reflected at the target that we want to
reconstruct. When the light interacts with objects, at the frequency domain, some
components are transformed. This transformed wave is detected at detector's
plane with phase information. The changing in the light can be interpreted as an
useful information about target's position and target's optical properties. We
invented two noble systems. One is the imaging system which operates the optical
radon transformation using broad band properties of terahertz. Therefore, the

detected waveform can be considered as radon transformed data and these data is used for reconstruction of original
target structure. The other is the reflectance THz tomography which uses terahertz pulses from AOS THz-TDS as the
reflection tomography. In reconstruction steps of reflection tomography, we apply the compressed sensing theory. [5][6]
Cone-beam Algorithm Artifact Removal

The analytical inversion method of X-ray CT gives perfect reconstruction in ideal cases, however, in reconstruction of image
with metal prostheses, such as dental implants, traditional analytical inversion of radon transform can cause severe
streaking patterns called metal artifact. For the metal artifact reduction (MAR), we proposed an algorithm applying
compressed sensing theory, based on the sparse support of metallic insertion in object image. The proposed method can
reconstruct artifact-free metallic shape in 10 seconds with parallel computing implementation using CUDA. [7][8]
Positron Emission Tomography

Positron emission tomography (PET) is a nuclear medicine imaging technique
which shows the functional processes in the body by detecting pairs of gamma
rays emitted from injected radioactive molecules. However, due to the high
probability of scatter in emitted gamma rays, the reconstructed image has
severe quality degradation. Therefore, we are willing to develop the accurate
scatter estimation algorithm using the compressed sensing theory based on the
sparsity of active area in human body. Furthermore, all processes are
implemented in parallel computing to reduce the computation time for high resolution 3-D PET image reconstruction.
R e fe re n ce s
1. H. Jung, K. H. Sung, K. S. Nayak, E. Y. Kim, and J. C. Ye, "k-t FOCUSS: a general compressed sensing framework for
high resolution dynamic MRI,” Magn Reson Med , vol. 61, pp. 103-116, January 2009.
2. H. Jung, J. S. Park, J. H. Yoo, and J. C. Ye, "Radial k-t FOCUSS for high-resolution cardiac cine magnetic resonance
imaging," Magn Reson Med, vol. 63, pp. 68-78, January 2010..
3. J. C. Ye, S. H. Tak, K. E. Jang, J. W. Jung, J. D. Jang, "NIRS-SPM: Statistical parametric mapping for near-infrared
spectroscopy," NeuroImage, vol. 44, pp. 428-447, January 2009
4. J. Jang, C. Y. Bae, J. K. Park, and J. C. Ye, "Self-reference quantitative phase microscopy for microfluidic devices,"
Optics Letters, vol. 35, pp. 514-516, February 2010.
5. K. H. Jin, Y. C. Kim, D. S. Yee, O. K. Lee, and J. C. Ye, "Compressed Sensing Pulse-Echo Mode THz Reflectance
Tomography," Optics Letters, vol. 34, pp. 3863-3865, December 2009.
6. K. Lee, K. H. Jin, J. C. Ye, and J. Ahn, “Coherent optical computing for T-ray imaging,” Optics Letters, vol. 35, pp. 508-
510, February 2010.
7. Jiyoung Choi, Min Woo Kim, Won Seong, and Jong Chul Ye, “Compressed sensing metal artifact removal in dental CT”,
in Proc. International Symposium on Biomedical Imaging (ISBI), June 2009, Boston, USA
8. Jiyoung Choi, Kyung Sang Kim, and Jong Chul Ye, “Sparsity constrained fractional-pass OS-EM for X-ray CT metal
artifact removal”, in Proc. Image Processing and Image Understanding (IPIU), 2010

4.1.15. Bioinformatics and Synthetic Biology Laboratory
(Prof. Gwan-Su Yi, http://bisyn.kaist.ac.kr)
Bioinformatics and Synthetic Biology lab aims to characterize cellular functional regulation
networks by integrating system-wide biological information with computational simulation and
experimental verification, and use the results to design regulatory modules and their key molecules
engineering cellular functions. Currently, we are targeting the significant regulating components in
cancer development, cell differentiation and neural functions. To facilitate these goals, we
strategically combine the methodologies in the fields of “Bioinformatics”, “Systems Biology”,
“Structural Biology” and “Synthetic Biology”.
Bioinformatics and Systems Biology for Dynamic Cellular Functional Regulation Networks
Cellular functional networks are constructed with the complex regulation of gene expression and protein functions,
dynamically in different cellular conditions. In our study, the concerted genetic or epigenetic regulation mechanisms in
gene expression including the function of chromatin modifiers, transcription factors and small RNAs are integrated and
modeled with the protein level regulation such as protein modification, degradation and interactions. The inferred models
are used to explore the hidden biological mechanisms or engineering targets through computational simulation and
experimental verification. We, first, try to identify the significant functional categories in transcriptional regulation and cell
signaling pathways correlated with condition specific gene expression profiles [1, 2]. The genes in the functional
categories showing significant modular activities or modularity changes in different conditions are further specified [3].
The relations obtained from protein interaction and complex networks are used as key information to extend, modify or
connect the components in functional categories. In cell signaling networks, we are interested especially in the role of
scaffold proteins that facilitate the signaling through their multiple binding sites for signaling proteins. We keep trying to
integrate various components in different levels of gene and protein regulation such as genetic variations on ORF and
UTR regions, post-translational modification (PTM), ubiquitin-mediated protein degradation and signaling [4], and protein
localization and transportation. Our current biomedical application targets are cancer development, cell differentiation
and neural functions. We cluster and differentiate various phenotypic manifestations of these biological phenomena and
associate them with the dynamic changes of cellular functional networks. The results will provide more refined solutions
in diagnosis and treatment of disease, stem cell engineering, and the interpretation of neural functions [5-7].

Synthetic Biology and Structural Biology of Cellular Functional Regulation Components

The goal of our synthetic biology study is to design key regulatory molecules and their networked modules that enable to
engineer the cellular functions. To design those components in complex cellular functional network, integrated approach
of “Bioinformatics”, “Systems Biology”, and “Structural Biology” are necessary. Our fundamental studies to characterize
the dynamic cellular functional regulation networks and the structural details of functional proteins will play a key role to
construct comprehensive synthetic models that overcome many unpredictable huddles that current synthetic biology
faces in practical implementation. To engineer the functional proteins, we investigate the structural implication of protein
domains, motifs, and PTMs in protein interaction and PTM recognition for cell signaling by using both computational and
experimental methods. Our current engineering targets are multi-functional and multi-targeting proteins and peptides
such as scaffold proteins, multi-specific antibody, and targeting peptides [8-11]. The multi-functional and multi-targeting
proteins have a high potential to be used in detection and engineering the cellular pathways or regulation circuitry. The
characterized molecules and their networked modules will be engineered further for the various industrial purposes

Information Technology and Other Applications
The construction of appropriate computational and information resources is important to support our researches. We try
to seek and develop the best algorithms and computational or statistical analysis tools, and keep our integrated biological
information databases updated on grid computing environment. Furthermore, we collaborate with people in various IT
convergence fields providing biomimetic applications. We also contribute in more clinical or public biomedical
applications such as clinical decision support system, ubiquitous healthcare and personalized biomedical information
services.
R e fe re n ce s
1. T. Yun, T. Hwang, K. Cha and G-S. Yi (In Press) “CLIC: Clustering analysis of Large microarray datasets with Individual
dimension-based Clustering”, Nucleic Acids Res.
2. C-H. Sun, M-S. Kim, Y. Han, G-S. Yi (2009) “COFECO: Composite Function Annotation Enriched by Protein Complex
Data.” Nucleic Acids Res. 37, W350-W355
3. C-H. Sun, T. Hwang, K. Oh, G-S. Yi (In Press) “DynaMod: Dynamic Functional Modularity Analysis.” Nucleic Acids Res.
4. H. Lee, G-S. Yi, J.C. Park (2008) “E3Miner: a Text Mining Tool for Ubiquitin-Protein Ligases.” Nucleic Acids Res. 36,
W416-W422
5. E. Kim, E.M. Hwang, O. Yarishkin, J.C. Yoo, D. Kim, N. Park, M. Cho, Y. S. Lee, C-H. Sun, G-S. Yi, J. Yoo, D. Kang, J. Han,
S-G. Hong and J-Y. Park (2010) “Enhancement of trek1 channel surface expression by protein-protein interaction with
-cop”, Biochem. Biophys. Res. Commun. 395, 244-250
6. J-Y. Park, E.M. Hwang, O. Yarishkin, J-H. Seo, E. Kim, J. Yoo, G-S. Yi, D-G. Kim, N. Park, C.M. Ha, J-h. La, D. Kang, J.
Han, U. Oh and S-G. Hong (2008) “TRPM4b channel suppresses store-operated Ca2+ entry by a novel protein-protein
interaction with the TRPC3 channel”, Biochem. Biophys. Res. Commun. 368, 677-683
7. B.M. Ku, Y.K. Lee, J.Y. Jeong, J. Mun, J.Y. Han, G.S. Roh, H.J. Kim, G.J. Cho, W.S. Choi, G-S. Yi, S.S. Kang (2007)
“Ethanol-induced oxidative stress is mediated by p38 pathway in mouse hippocampal cells”, Neuroscience Letters 419,
64
8. S-W. Chi, J. Kim, G-S. Yi, H.J. Hong, S.E. Ryu (2009) “Broadly neutralizing anti-HBV antibody binds to non-epitope
regions of preS1”, FEBS Lett. 583, Issue 18, 3095-3100

9. E. Bochkareva, L. Kaustov, A. Ayed, G-S. Yi, Y. Lu, A. Pineda-Lucena, J.C. Liao, A.L. Okorokov, J. Milner, C.H.
Arrowsmith, A. Bochkarev (2005) “Single-stranded DNA mimicry in the p53 transactivation domain interaction with
replication protein A” Proc. Natl. Acad. Sci. USA. 102 (43), 15412-15417
10. A. Ayed, F.A. Mulder, G-S. Yi, Y. Lu, L.E. Kay, C.H. Arrowsmith (2001) “Latent and Active p53 are Identical in
Conformation” Nature Structural Biology 8(9), 756-760
11. C.B. Park, K-S. Yi, K Matsuzaki, M.S. Kim, S.C. Kim (2000) “Structure-activity analysis of buforin II, a histone H2A-
derived antimicrobial peptide: The proline hinge is responsible for the cell-penetrationing ability of buforin II” Proc.
Natl. Acad. Sci. USA. 97(15), 8245-8250

4.2. Undergraduate Research Projects
4.2.1. Jaemin Kim
Project Title: Modeling the brain Hemodynamics of glia-cell damaged mouse using near infrared spectroscopy
Advisor: Prof. Jongchul Ye
Abstract
When a brain is functioning, concentration changes of chemical components which initiate the dilatation of blood vessels
occur before any other phenomena that is usually observed by MRI or fMRI. What we can observe using MRI or fMRI is
that concentration changes of deoxy-hemoglobin and oxy-hemoglobin, and there are time interval and spatial differences
between those and the origin of physiological phenomena of a brain.
According to former researches, the glial cell, one type of astrocyte, attach both to synapses and blood vessels in the
brain. The goal of this research is that observation of changes of CBF(cerebral blood flow) under two conditions: when
having functional glial cells and malfunctioned glial cells by using NIRS. We expect that the result of this research can
provide useful information about the origin of physiological phenomena of a brain.
4.2.2. Youngseop Lee
Project Title: What is the principal role of micro-scale defined cuticle structures of a firefly light organ?
Advisor: Prof. Ki-Hun Jeong
Abstract
Recently, bio-inspired researches in micro scale get scholarly interests. Study micro structures in nature, and
technologies of the structures are utilized in many areas. Firefly is few individual that have self-luminescence organs or
structures. Luminescence of fireflies is important to the firefly, because the firefly pairs each other by using this radiation
of light. Based on this fact, we make the assumption, 'There are some special structures on the surface of a firefly's belly
that is located above of light organ', because the efficient luminescence is important to a firefly for the pairs. We got
pictures of light and non-light organ of fireflies's belly by using SEM. Using MATLAB program, we do image processing of
pictures. The result of image processing, surface of light organ conist of nano-scale structures that have specific
patterns. Result of simulation by FEA(Finite Element Analysis), this pattern makes the only light's components of upward
of 1st order can pass the structures when the incidence angle of light is larger than the critical angle. So, the conclusion
is light transmission efficiency of the structures increase when the structures have this micro-scale pattern.
4.2.3. Min Woong Kim
Project Title: Developement of Bioimaging platform for Endoscopic MEMS Optical Coherece Tomography
Advisor: Prof. Ki-Hun Jeong
Abstract
Optical Coherence Tomography(OCT) is a new imaging method, which have deeper axial resolution than that of optical
microscope and higher lateral resolution than that of other tomography methods. On this project we focused on optical
fiber based OCT by manufacturing MEMS bio imaging platform for OCT. For this, we set michelson interferometer on the

free space using near-infrared light source and beam splitter, and developed interferometer to the fiber-based by using
fiber optic coupler. Finally, We construct automatic OCT scanning system by embodying hardware-computer interface
with LabVIEW.
4.2.4. Kiun Choi and Sung Han Joo
Project Title: Development of Multi-channel Neuro-stimulator System for Robot-control of Live neuron cells
Advisor: Prof. Yoonkkey Nam
Abstract
We designed a novel neuro-robot interface system to control a small robot by live neurons cultured on an
MEA(Microelectrode Array). The system was implemented by LabVIEW, a graphical programming language, and the
whole system is composed of a major modules such as decoder, robot controller, encoder and stimulation generator. A
real-time feedback can be applied to the live neurons through the closed-loop circuit consist of robot's sensor, neural
encoder and stimulator.
The essential part of decoding and encoding algorithm is to make a 'Response Map'. We considered only activated
channels(channels whose firing rate are above the threshold) to stimulate and record evoked response. The two channels
which evoked the most responses when stimulated were selected and stimulation generator received these channel`s
informations. Neuron decided direction of the robot by showing different responses for each stimulation. As a result,
robot went to a desired direction with a 40% probability when it was stimulated. We found that this success rate was
different in each direction, left and right, and this rate was dependent to response map that we had made before.
4.2.5. So-Ra Yun and Joo-Yeon Chung
Project Title: Development of a Bio-inspired Self-repairing Electronic Circuit

Advisor: Prof. Kwang-Hyun Cho
Abstract
Self-repair is an essential ability for survival. We adopted the concept of stem cells and differentiation to build self-
repairing algorithm for electronic circuit, assuming that the system is a biological organism and a module of the system
is a cell. If one cell apoptosizes by detecting fault, a stem cell, which is a spare cell, is differentiated into the dead cell
type. We developed and implemented self-repairing digital clock on Field Programmable Gate Array (FPGA) chip. This
research showed that self-repair algorithm development using FPGA is available. Based on this research, development of
more effective algorithm and simplification of the system will be followed to achieve the intrinsic repair without the help
of a computer. We expect that this research would be applicable to constructing various fail-safe system.
4.2.6. Se-woong Lim
Project Title: Research on the recognition of exquisite instruments and normal instruments based on the secondary
features of exquisite instruments (Stradivarius, Guarneri)
Advisor: Prof. Soo-Young Lee

Abstract
This research focuses on the differences between exquisite violins made by Stradivarius and Guarneri and normal violins
which can be easily found. To solve the exquisite/normal instrument recognition problem, we used the frequency
response of the violin sound from, found the features which only represent the information of instrument itself,
independent of other factors. The features of instruments used in recognition are time-note spectrogram, gathered by
performing frequency-note transformation on the frequency domain. By this study we can find that, in exquisite
instruments harmonics are widely distributed in all frequency domain and the change of note spectrum is slow. These
frequency characteristics can be an important features to classify exquisite instruments and normal instruments.
4.2.7. Sam You
Project Title: Quantitative analysis of brain activity using wavelet-based Hemodynamic response function modeling and
detrending
Advisor: Prof. Jong Chul Ye
Abstract
Near-infrared spectroscopy (NIRS) is used to investigate various brain activities such as oxy- and deoxy hemoglobin
concentration by measuring the absorption of its light. To analyze the signal model based approach GLM representation
of signal is thought to be the standard method for NIRS data. Using the characteristic of the signal that the task paradigm
is periodic I could do the signal modeling using optimal Hemodynamic Response Function. However GLM model fails in
case of containing low frequency global drift caused by breathing, cardiac vasoils in, or other experimental error, cSo the
proposed wavelet minimum description length detrendingr experime optimally gets rid of this unwanted drift cis onenact
However, it uses pre-determined HRF model in every case, therefore, I proposed the new method which is ite, Iively pert
miing HRF estimation and detrending by pmogite, in esby bred HRF d bo the GLM for detrending, and then performing
detrending process until the HRF converges to certain level. As a result, using new detrending method and Wavelet based
approach outperforms in HRF estimation compared to gamma basis approach.
4.2.8. Sangmin Park
Project Title: Detection of default mode network in infant brains

Advisor: Prof. Jaeseung Jeong
Abstract
This study tried to find default mode network by EEG and compare between full-term and preterm infants. The preterm
babies have a high risk for poor neurodevelopmental outcomes and we hypothesize that these are also reflected in the
default mode network (DMN). The electroencephalogram (EEG) dm (, supplied from hospital laboratory, were consisted of
2 full-term and 3 preterm babies. We estimate mutual information over average local regions, cross-tory,pheric and long
distance channels. It was hard to establish the results duistedfluctuation of mutual information, except existence of slight
differences. Establishment of DMN in EEG is challengeable and this initial study provides the data necessary for the
design of these future investigations.

4.3. Research Institutes and Centers
4.3.1. Digital Nanolocomotion Center (DNC) (http://mems.kaist.ac.kr)
Goals
Digital Nanolocomotion Center (DNC) is a National Creative Research Center funded by the Ministry of Science and
Technology. Since 2000, DNC has been devoted to the research on the bio-inspired digital nanolocomotion devices and
systems, whose major functions are the high-performance and cost-effective digital manipulation and control of non-
electrical information in nano/micro scales. The bio-inspired digital N/MEMS has potential to overcome the technological
problems of noise, fabrication and material uncertainties in nano/micro-scales; thereby, creating a technology
breakthrough for engineering innovation in N/MEMS areas.
Participating Professors
Young-Ho Cho (Director)
Biological Muscle Locomotion and Bio-inspired Silicon Muscle Chip

Bio-inspired Digital Structure Actuators and Applications
Bio-inspired digital actuators for nano-precision silicon muscle chips
Bio-inspired digital direct methanol fuel cells for portable power sources
Bio-inspired digital serial/parallel actuator modules for optical storages and RF switches
Bio-inspired Digital Fluidic Actuators and Applications

Bio-inspired digital thrusters for high-impulse satellite attitude controllers
Bio-inspired digital injectors for high-quality digital printers
Bio-inspired digital DA converters for high-precision flow controllers
Bio-inspired digital particle velocity profilers for flow characterization

Bio-inspired Digital Processors and Applications
Bio-inspired digital motion detectors for high-precision motion tracking
Bio-inspired digital cell counters for concentration monitoring
Bio-inspired digital protein detectors for nanomechanical biomolecule analysis
Bio-inspired digital cell deformability monitoring chips for health monitoring
Bio-inspired digital bioparticle separators for DNA and cell sorting and extraction
Bio-inspired digital bioparticle focusing chips for cell characterization
Research Awards
1) Science and Technology Medal of Honor in 2008 (President, Republic of Korea)
2) Grand Prize for Nano Research Innovation in 2005 (Prime Minister of MOST)
3) Nano-Bio Scientist Award in 2002 (Minister of MOST)
4.3.2. BK21, Medical Information Technology (Medical IT)
Our BK project team aims interdisciplinary and fundamental research of BT and IT. This innovative multi-disciplinary
approach will provide us bio-fusion platform technology and driving force related to bio industry. We are emphasizing “T”
type education, which will be needed for mutual understanding different areas of knowledge such as medicine and
engineering. By providing “T” education, we hope to educate fusion industry experts who will drive our future. This
mission will be perfected matched with the founding philosophy of the department of Bio and Brain Engineering.
Specifically, we are focusing the interdisciplinary education and research of medical sciences and information technology,
which will be more and more important in near future society. For such interdisciplinary education, three professors with
different background (one medical doctor, one chemist, one computer engineer) nourish students with different
viewpoints for the medical and biological issues.
4.3.3. Chung Moon Soul Center for BioInformation and BioElectronics
Explore new horizons nobody ever achieved in order to educate talent and develop science and technology to provide for
our people” Aiming to this will of the donator, Mr. CHUNG Moon Soul, this center has been established together with
Department of Bio and Brain Engineering. It encourages and supports interdisciplinary research and education for
creative areas in KAIST. Two innovative topics, Brain-Computer Interface and Bio-Optical Instrumentation, are supported
by the center currently.
4.3.4. Bioinformatics Research Center
Bioinformatics Research Center (BiC) was established in 2003 with an aim to advance bioinformatics and related
researches for the benefit of mankind. The main objective of the BiC is carrying out world-class academic and industrial
researches rather than simply providing bioinformatics database services. The BiC has active collaborations with
computer scientists, biologists, biochemical engineers, and other scientists and engineers who are interested in
bioinformatics research. This allows efficient implementation of bioinformatics findings on real biological and

biotechnological systems. We are developing Biosystems Reverse Engineering Information Systems which can infer
internal structure of Biosystem from large-scale experiment data and analyze both structural and dynamical
characteristics of the system.
4.3.5. IBM-KAIST Bio-Computing Research Center
This center has been launched in December, 2004 to leverage active research activities using IBM supercomputers
(roughly equal to 5 million US$) donated by IBM as a prize of SUR (Shared University Research) award in May, 2002. It
aims to investigate fundamental bio-computing technologies utilizing bio-principles and bio-mechanisms, and develop
system technologies for bio-information processing. Researchers from various departments in KAIST including Bio and
Brain Engineering, Chemical and Bio-molecular Engineering, Physics, and Biological Sciences as well as IBM Life
Sciences are collaborating on several projects including bio-encyclopedia, bio-data mining, protein structure analysis,
and metabolic pathway analysis.
4.3.6. Cell Bench Research Center (SEMCELL) (http://mems.kaist.ac.kr/semcell/)
Goals
Cell Bench Research Center (SEMCELL) is an industry-academia collaborative research institute among Samsung
Electro-Mechanics Co. (SEMCO), KAIST, and Samsung Medical Center (SMC). SEMCELL aims to develop the high-
throughput and high-reliability cell bench, composed of bio-inspired cell chips, bio-jetting and bio-detector bench for
personalized anti-cancer drug screening and their clinical applications to optimized solid tumor chemotherapy. SEMCELL
performs creative and innovative convergence of bio-detection and analysis equipment technology (SEMCO), bio-inspired
cell chip and bench technology (KAIST), and profile analysis and clinical study (SMC).
Research Manpower and Area and Contents
Director: Young-Ho Cho Personalized Anti-cancer Drug Screening Process

Je-Kyun Park Dongsup Kim
KAIST Jong Chul Ye Inkyu Park
Soyeon Yi Byung Hee Jeon
SMC Jhingook Kim Dong-Kyu Jin
SEMCO Yong-soo Oh Dong Myung Lee
Research Manpower
KAIST SMC SEMCO Total
Professor 6 5 0 11
Ph.D. 0 4 3 7
M.S. 3 5 0 8
B.S. 3 5 0 3
Total 12 14 3 29

Bio-inspired Cell Chips and Benches for Personalized Anti-cancer Drug Screening
Technology Network
Technology Strategy
Phase I Phase II
Technology
Year I Year II Year III Year IV, V
Bio-Ceramic
Material Bio-Probe Bio-Ink Bio-Material
Bio-Plastic
Bio-Chip
Device Bio-Fluidics Bio-Detector Bio-Device
Bio-Jet
Bio-Processor
Equipment Bio-Image Bio-Reader Bio-Bench
Bio-Stage

Research Performance (1st Year)
Spheroid Spheroid multi-

Droplet receiver Cell culture plate
culture chip modal analysis chip
Inter. conference:
uTAS 2009 Domestic patent: Domestic patent: Domestic patent:
Publication
Domestic patent: Applied Applied Applied
Applied
Main
figure
Spheroid formation, Multi-modal analysis Prevention of

culture, & extraction of spheroids using rebounding and Perfusion cell culture
Function
using removable cell electrodes and evaporation of ejected using drain channel
trapping barrier flexible membrane droplet
4.3.7. WCU Neuro Systems Research Group (http://neurosys.kaist.ac.kr)
WCU Neuro Systems Research Group is an interdisciplinary research group supported by World Class University (WCU)
program. Our research group studies neuro-informatics and neurobiology that may lead to targeted therapies for
dopamine-related brain disorders. The convergence of multi-scaled studies from the molecular levels to the clinical
levels will promote innovation and provide opportunities for significant advances in the understanding and treatment of
dopamine-related brain disorders.

Department of
Bio and Brain
Engineering
Professional Activities
5. Professional Activities 97
5.1. Keynote/Plenary/Invited Talks 98

5.2. Journal Editorship 104
5.3. Professional Society Membership 105
5.4. Conference Committee Membership 108
5.5. Awards and Honors 110
5.6. Extra Activities 112
5.1. Keynote/Plenary/Invited Talks
5.1.1. Kwang-Hyun Cho

- Invited talk, “Topology, dynamics, and emergent properties in biological interaction networks”, the Computational
Systems Biology Workshop / Institute of Systems Biology, Shanghai University, China (September 19, 2009).
- Plenary talk, “Exploring the Design Principle of Emergent Properties in Biological Systems”, the 3rd International
Symposium on Optimization and Systems Biology (OSB2009), Zhangjiajie, China (September 20-22, 2009).
- Keynote talk, “Network systems biology: From molecules and cells towards network and dynamics”, the Annual
Research Day Conference, ‘Systems Biology: Biological Networks in Action, Eindhoven University of Technology, The
Netherlands (May 19, 2009).
- Invited talk, “Towards Virtual Colon Cancer”, Advanced Institutes of Convergence Technology, Suwon, Korea (December
29, 2009).
- Invited talk, “Introduction to Brain Systems Biology: From Topology to Dynamics and Function”, APCTP-KAIST Brain
Dynamics School - International Workshop, KAIST, Daejeon, Korea (December 11, 2009).
- Invited talk, “A system-level study on the cellular mechanism of cardiac hypertrophy”, The Annual Symposium of
Systems Biology Group in The Korean Society for Molecular and Cellular Biology - Current Trends in Systems, Jeju
Island, Korea (December 4, 2009).
- Invited talk, “Systems Biology and Bio-Inspired Engineering”, The 314th NRF Joint Workshop of Academy, Research
Institutes, and Industry - Human 3.0: The Fusion of Human and Technologies, Seoul National University, Seoul, Korea
(November 19, 2009).
- Invited talk, “Systems Biology: A Grand Challenge of Life Sciences in the 21st Century”, Dept. Biotechnology, Yonsei
University, Seoul, Korea (November 13, 2009).
- Invited talk, “A system-level study on the emergent properties of biological interaction networks”, BIOINFO2009, CBI-
KSBSB Joint Conference, Busan, Korea (November 5, 2009).
- Invited talk, “Systems Biology: How to Understand the Emergent Properties of Brain?”, Dept. Psychiatry, Seoul National
University Hospital, Seoul, Korea (November 3, 2009).
- Invited talk, “Systems Biology: How to Understand the Dynamics of Bio-Graphs?”, 2009 Annual Meeting of the Korean
Society for Mathematical Biology (KSMB’09), Daejeon, Korea (October 29, 2009).
- Invited talk, “A ‘Systems’ View of Feedback Loops in Biology”, The 21st Annual Meeting of the Korean Society for
Molecular and Cellular Biology - RNA Biology and Diseases, Seoul, Korea (October 16, 2009).
- Invited talk, “Systems biology: A fundamental framework for synthetic biology”, The 1st Symposium on Synthetic
Biology, Chungbuk National University, Cheongju, Korea (September 25, 2009).
- Invited talk, “Network systems biology - A case study: Network structure vs. dynamics in cultured neural networks”, The
18th Korea Genome Organization Conference (KOGO 2009 Annual Meeting) - Omics to Personal Medicine, Seoul, Korea
(September 11, 2009).
- Invited talk, “Systems Biology and Bio-Inspired Engineering: A Grand Challenge in the 21st Century”, 2009 Autumn
Colloquium of Bio and Brain Engineering, KAIST, Daejeon, Korea (September 9, 2009).
- Invited talk, “Investigations into the Design Principle of Biological Emergent Properties”, Dept. Aerospace Engineering,
University of Glasgow, Glasgow, U.K. (August 17, 2009).

- Invited talk, “Feedback Loops and Cellular Dynamics in Systems Biology”, The 66th Annual Meeting of the Korean
Society for Biochemistry and Molecular Biology - Discovery and Challenge in Biosciences, Seoul, Korea (May 13, 2009).
- Invited talk, “Network Systems Biology: How to Make Sense of Complex Molecular Interaction Networks?”, Dept.
Biochemistry, Yonsei University, Seoul, Korea (May 6, 2009).
- Invited talk, “Systems Biology: How to Discover a Design Principle?”, Dept. Biological Sciences, Seoul National
University, Seoul, Korea (May 4. 2009).
- Invited talk, “Mathematical Challenges in Systems Biology: Network Motifs and Dynamics”, 2009 Spring Colloquium of
Mathematical Sciences, KAIST, Daejeon, Korea (April 30, 2009).
- Invited talk, “Systems Biology: From Molecules Towards a Network and Systems Medicine”, Sungkyunkwan University
School of Medicine, Suwon, Korea (April 29, 2009).
- Invited talk, “Systems Biology: A Case Study on the Puzzle of MCIP in the Calcineurin/NFAT Signaling Pathway”, 2009
MRC International Symposium on Epigenetic Regulation of Human Diseases, Gwangju, Korea (April 13, 2009).
- Invited talk, “Systems Biology: A New Interdisciplinary Research Combining Life Science and Engineering”, The Office of
Patent Administration of Korea, Daejeon, Korea (April 8, 2009).
- Invited talk, “Systems Biology: A Quest for the Design Principle of Biological Circuits”, Dept. Mechanical and Biomedical
Engineering, Kangwon National University, Chuncheon, Korea (March 27, 2009).
- Invited talk, “From Molecules Towards a Network and Its Dynamics”, 2009 KRIBB Symposium on Next Generation
Sequencing and Systems Biology, Korea Research Institute for Bioscience and Biotechnology, Daejeon, Korea (March 5,
2009).
5.1.2. Young-Ho Cho

- Invited Talk, “Joint Activity Progress and Perspective”, 7th Korea-U.S.A. Joint Symposium, KAIST, Daejeon, Korea
(September 27-29, 2009)
- Invited Talk, “Micro/Nano Technology in Korea”, 15th World Micromachine Summit, Edmonton, Canada (May 5-8, 2009)
5.1.3. Chulhee Choi

- Invited talk, “Optical Biomedical Imaging”, VieWorks Corporation, (November, 2009)
- Invited talk, “Current Status and Prospects of Biomedical Optical Imaging”, Korean Cell Biology Association (August,
2009).
- Invited talk, “New Insights into Smoot Muscle Cell in Vascular Celll Biology”, Korean Cardiolog Association (July, 2009)
5.1.4. Jung Kyoon Choi

- Invited Talk, “Role of Intragenic Epigenetic Mechanisms”, 2010 KOGO (Korea Genome Organization) Winter Symposium,
Yongpyeong, Korea (January 21, 2010)
5.1.5. Christopher D. Fiorillo

- Invited talk, “The Activity of Midbrain Dopamine Neurons in Behaving Animals and Its Role in Reward and
Reinforcements its Role in Reward and Reinforcement”, MIT, USA (October 23, 2009)

- Invited talk, “The Role of Dopamine in Reward and Learning”, KAIST, Daejeon, Korea (July 3, 2009)
- Invited talk, “Towards a Geenral Theory of Neural Computation Based on Prediction by Single Neurons”, Korean Society
for Bioinformatics and Systems Biology, Seoul National University, Seoul, Korea (July 3, 2009)
- Invited talk, “The Activity of Midbrain Dopamine Neurons in Behaving Animals and its Role in Reward and
Reinforcement”, Korea University, Seoul, Korea (May 29, 2009)
- Invited talk, “The Activity of Midbrain Dopamine Neurons in Behaving Animals and its Role in Reward and
Reinforcement”, University of Toronto, Japan (January 26, 2009)
5.1.6. Ki-Hun Jeong

- Invited lecture, CMU Biophotonics, “Biophotonic MEMS”, Physics colloquium, Choongnam Univ., Korea (Feburary 20,
2009)
- Invited lecture, “MEMS Technology for Biophotonics” OSK Meetings, Seoul, Korea (Feburary 23-24, 2009).
- Invited lecture, “Optical MEMS Technology Moves to Biophotonics” KI OST colloquium, KAIST, Korea (Feburary 23, 2009)
- Invited lecture, “Biophotonic MEMS”, KRISS Colloquium, Korea (June 30, 2009)
- Invited lecture, “MEMS for Nanobiophotonic Applications” SNU ME Colloquium, Korea (June 03, 2009)
- Invited lecture, “Nanobiophotonic Metrology” KIPO workshop 2009, Korea (June 03, 2009)
- Invited lecture, “Biologically Inspired Optical Structures for Imaging and Illumination: Learning from a Firefly”, EECS
Nanobio workshop, KAIST, Korea (June 2, 2009)
- Invited lecture, “Optical MEMS Technology Moves to Biophotonics” ME Colloquium, SKKU, Korea (June 05, 2009)
- Invited lecture, “BIOSENSE for Imaging and Illumination”, ME Colloquium, GIST, Korea (July 24, 2009)
- Invited lecture, “Biologically Inpired Optical Structures for Wide Angle Illumination and Wide Field of Imaging”, IEEE
Optical MEMS and Nanophotonics 2009, USA (August 17-20, 2009)
- Invited lecture, “BIOSENSE: Biologically Inspired Optical SENSory Emulation”, UC Berkeley Bioengineering colloquium
2009, USA (August 21, 2009)
- Invited lecture, “MEMS/NEMS Enabled Biophtonics”, RRI Colloquium, Chunam University (September 27, 2009)
- Invited lecture, “MEMS Technology For Biophtonics”, BioNano Colloquium, Hanyang Univ., (October 7, 2009)
5.1.7. Yong Jeong

- Invited talk, “In vivo brain imaging of Alzhimer's disease and other dementia”, DRD2009, Okayama, Japan, (December
11-12, 2009)
- Invited talk, “Default mode network and other intrinsic network mapping using resting fMRI and their implications”,
Korean Neurological Association, Goyang, Korea (October 9, 2009)
- Invited talk, “Structural imaging in dementia”, ASAD2009, Seoul, Korea (October 11, 2009)
- Invited talk, “Brain Science in Movies”, Gwangju Education and Science Institute, Gwangju, Korea (April 7, 2009)
- Invited talk, “Function of frontal lobe”, Yangsan hospital, Yangsna, Korea (June 3, 2009)
- Invited talk, “Default Mode Network and Intrinsic Functional Connectivity”, Hanyang University, Seoul, Korea (June 30,
2009)
- Invited talk, “Hemispatial Neglect; Implications in Attention and Spatial Cognition”, Korea University, Seoul, Korea

(September 25, 2009)
- Invited talk, “In vivo imaging in neurodegenerative disease”, Hallym Univerisy, Anyang, Korea (November 12, 2009)
- Invited talk, “Cerebral Cortex”, Biofusion Seminar/KAIST, Daejeon, Korea (November 2, 2009)
5.1.8. Dongseop Kim

- Invited Talks, “Computational Approach to Protein’s Interaction and Stability”, INPEC (October. 26, 2009)
- Invited Talks, “Computational Protein Design by Combining Bioinformatics and Computational Chemistry”, Chemical
Sociely (October. 23, 2009)
- Invited Talks, “New methods for remote homolog detection, coevolving residues, and statistical potential for protein
design”, KIAS Workshop, (September. 18, 2009)
- Invited Talks, “Inferring PTM Network for multi-target drug development and drug repositioning”, (June. 22, 2009)
- Invited Talks, “Inferring Protein Structures, Functions, and Interactions”, Korea Chemistry Conference (May. 22, 2009)
- Invited Talks, “Protein-Ligand Interactions and Drug’s Mode of Actions”, Konkuk University (May. 17, 2009)
- Invited Talks, “Protein-Ligand Interactions and Drug’s Mode of Actions”, KSBMB (May 5, 2009)
- Invited Talks, “Bioinformatics for Inferring Structures, Functions, and Interactions of Proteins”, Biology Engineering
Conference ( April 10, 2009)
5.1.9. Doheon Lee

- Invited lecture, “Trends of Personalized Biomedical Informatics”, SK Telecom, Korea (November 18, 2009).
- Invited lecture, “Data Mining for Personalized Biomedical Informatics”, Korea National Defense University, Korea
(November 26, 2009).
- Invited Talk, “Systems Biomedical Informatics,” Stanford University, (April 26, 2010)
5.1.10. Yoonkey Nam

- Invited talk, "Neurons-on-a-Chip technology: Interfacing Neurons with Microelectronics", School of Interdisciplinary
Bioscience and Bioengineering POSTECH, Korea (March 24, 2009)
- Invited talk, "Neural Interfaces and Integrated Circuit (IC) Systems design", Biomedical IC Workshop, KAIST, Korea
(March 26, 2009)
- Invited talk, "Optical Modulation of Neural Activity: In vitro study using Neurons-on-a-Chip technology", International
Symposium on Optical Recording, Seoul Nat. Univ., Korea (February 17 2009)
- Invited talk, "Agarose Hydrogel based Neuron-on-a-Chip technology", Biotronics workshop, Seoul Nat. Univ., Korea
(October 7, 2009)
- Invited talk, "Neurons-on-a-Chip technology: Interfacing live brain cells with electronics", WCU workshop, Pusan Univ.,
Korea (October 15, 2009)
5.1.11. Je-Kyun Park

- Invited talk, “Magnetophoretic nanobiosensor system for multiplexed immunoassays”, BIT's 2nd World Congress of
Industrial Biotechnology, Seoul, Korea (April 5-7, 2009).

- Invited talk, “Biological applications of programmable optoelectrofluidic manipulation”, MRS Symposium U at the Spring
2009 Materials Research Society (MRS) Meeting, San Francisco, USA (April 13-17 2009).
- Invited talk, “Biofluidics for biological sample preparation and detection”, The Spring Meeting of The Korean BioChip
Society, Daejeon, Korea (Arpil 4-5, 2009).
- Invited talk, “Optoelectrofluidics for biotechnology”, The 4th Asian and Pacific Rim Symposium on Biophotonics (APBP
2009), Jeju Island, Korea (May 27-29, 2009).
- Invited talk, “Hydrophoretic separation method applicable to biological samples”, NATO Advanced Study Institute on
Microsystems for Security - Fundamentals and Applications (NATO-ASI 09), Cesme-Izmir, Turkey (August 23-
September 4, 2009).
- Invited talk, “Magnetophoretic multiplexed immunoassays in a microchannel”, NATO Advanced Study Institute on
September 4, 2009).
- Invited talk, “Programmable cell manipulation using lab-on-a-display”, NATO Advanced Study Institute on
September 4, 2009).
- Invited talk, “Cell-based assays in a microfluidic device”, Bio Korea 2009, Seoul, Korea (September 16-18, 2009).
- Invited talk, “Microfluidic separation technologies for analytical chemistry”, The Fall Meeting of the Korean Chemical
Society, Daejeon, Korea (October 30, 2009).
- Invited talk, “Microfluidics challenges for integrative bioengineering”, The 9th International Symposium on
Microchemistry and Microsystems 2009 (ISMM 2009), Kanazawa, Japan (November 7-8, 2009).
- Invited talk, “Microfluidics and lab-on-a-chip technology”, Korean Intellectual Property Office (KIPO), Daejeon, Korea
(June 2, 2009).
- Invited talk, “Programmable cell manipulation using optoelectrofluidics”, Nano-Bio Workshop, Dept. of Electrical
Engineering, KAIST, Daejeon, Korea (June 2, 2009).
- Invited talk, “Optoelectrofluidic control of biological cells by electrokinetic force”, Sogang University, Seoul, Korea (June
10, 2009).
- Invited talk, “Lab-on-a-chip technology for integrative biology”, Chungam National Univertsity, Daejeon, Korea (October
29, 2009).
- Invited talk, “Perspectives of bio-convergence industry and lab-on-a-chip technology”, NanoHelix Co., Ltd., Daejeon,
Korea (November 24, 2009).
- Invited talk, “Cell and particle manipulation based on optoelectrofluidics”, National Research Foundation of Korea
(NRF), Seoul, Korea (November 26, 2009).
- Invited talk, “Microfluidic cell-based assay platform for biomedical applications”, Ulsan National Institute of Science and
Technology (UNIST), Ulsan, Korea (December 2, 2009).
- Invited talk, “Cell-based micro total analysis systems”, Dept. of Chemistry, Pusan National Univertsity, Busan, Korea
(January 7, 2010).
- Invited talk, “Education and Research in Bio and Brain Engineering at KAIST”, National Research Foundation of Korea
(NRF), Seoul, Korea (January 19, 2010)
- Invited talk, “Lab-on-a-chip technology and bio-convergence industrial perspectives”, Samsung Advanced Institute of

Technology (SAIT), Ulsan, Korea (February 20, 2010)
- Invited talk, “Biomedical microdevices for cancer research”, Seoul St. Mary's Hospital, The Catholic University of Korea,
Ulsan, Korea (February 26, 2010).
5.1.12. Jong Chul Ye

- Invited talk, “Compressed sensing: theory and applications”, Postech, Pohang, Korea (March 5, 2010).
- Invited talk, “Compressed sensing theory”, Winter workshop of Korea Information and Communications Society,
Pyongchang, Korea (February 22, 2010).
- Invited talk, “NIRS-SPM: statistical toolbox for near infrared spectroscopy”, Shimadzu Corp., Tokyo, Japan (February 17,
2010).
- Invited talk, “Compressive sensing for bio-imaging and signal processing”, Dept. Bio and Brain Engineering, KAIST,
Daejeon, Korea (February 3, 2010).
- Invited talk, “Compressive sensing for biomedical imaging applications”, NIMS Thematic Workshop, Ewha Woman
University, Seoul, Korea (December 29, 2009).
- Invited talk, “Compressed sensing: theory and applications”, Seoul National University Hospital, Seoul, Korea
(December 18, 2009).
- Invited talk, “k-t FOCUSS: A general compressive sensing framework for high resolution dynamic MRI”, UNIST
Compressed sensing International workshop, Ulsan, Korea (December 8, 2009).
- Invited talk, “Compressed sensing: theory and applications”, Samsung Forum, Suwon, Korea (November 18, 2009).
- Invited talk, “Quantitative analysis of neurohemodynamics using near infrared spectroscopy”, Busan University, Busan,
Korea (October 27, 2009).
- Invited talk, “Compressed sensing: theory and applications”, Yonsei University, Seoul, Korea (October 23, 2009).
- Invited talk, “Quantitative analysis of neurohemodynamics using near infrared spectroscopy”, Seoul National University
Hospital, Seoul, Korea (October 8, 2009).
- Invited talk, “Compressed sensing: theory and applications for bio-imaging and signal processing”, GIST, Gwangju,
Korea (September 25, 2009).
- Invited talk, “Compressed sensing for biomedical imaging applications”, KAIST Math Dept. Colloqium, Daejeon, Korea
(September 18, 2009).
- Invited talk, “Measurement Technique for Cognitive Science”, 2009 summer Cognitive science education program,
Daejeon, Korea (August 24, 2009).
- Invited talk, “Fast Magnetic Resonance Imaging”, Yonsei University Serverance Hospital, Seoul, Korea (March, 2009).
5.1.13. Gwan-Su Yi
- Invited talk, “Bioinformatics of protein complex data and drug target analysis”, JungAng University (College of
Pharmacy), Seoul, Korea (October 23, 2009).
- Invited talk, “Computational Systems Biology Lab Introduction & Discussion for Cloud Computing”, KAIST (CS dept.),
Daejeon, Korea (November 2 2009).

5.2. Journal Editorship

- Editor-in-Chief, IET Systems Biology (IET, London, U.K.)
- Editorial Board Member, Mathematical Biosciences (Elsevier, Netherlands)
- Editor-in-Chief, Encyclopedia of Systems Biology (Springer, New York, U.S.A.)
- Editorial Advisory Board Member, Molecular BioSystems(the Royal Society of Chemistry, London, U.K.)
- Editorial Board Member & Associate Editor, Bulletin of Mathematical Biology (Official Journal of The Society for
Mathematical Biology) (Springer, New York)
- Associate Editor, BMC Research Notes (BioMed Central, London, U.K.)
- Editorial Board Member & Associate Editor, BMC Systems Biology (BioMed Central, London, U.K.)
- Senior Editorial Board Member, IET Systems Biology (IET , London, U.K.)
- Editorial Board Member, Systems and Synthetic Biology (Springer, Netherlands)
- Honorary Editorial Board Member, Gene Regulation and Systems Biology (Libertas Academica Ltd., New Zealand)
5.2.2. Jaeseung Jeong

- Editor-in-chief, the journal 'Crossroads,' official journal of Asia-Pacific Center for?Theoretical Physics (APCTP)?
- Editorial member, Biosystems Review
5.2.3. Ki-Hun Jeong

- Optical Engineering and Medicine (OSA)
- Applied Optics (OSA)
- Journal of Micromachining and Micromechanics (OSA)
- Nanotechnology (OSA)
- Optics Express (OSA)
5.2.4. Doheon Lee

- Editorial Board Member, Computers in Biology and Medicine (ELSEVIER)
- Editorial Board Member, International Journal of Data Mining and Bioinformatics (Inderscience)
- Associate Editor, ACM Transactions on Internet Technology (ACM)
- Guest Editor, Journal of Mathematical Modeling and Algorithms (JMMA)
5.2.5. Kwang-Hyung Lee

- Editorial Board, J of Tsinghua Science and Technology (Tsinghua U.)
- Editorial Board, J of Uncertain Systems (World scientific press)
- Editorial Board, J of Advanced Computational Intelligence and Intelligent Informatics (Fuji press)

5.2.6. Yoonkey Nam
- Editorial Board, Journal of Biomedical Engineering Research (KOSOMBE)
5.2.7. Je-Kyun Park

- Editorial Board, Lab on a Chip (RSC)
- Editorial Board, Interdisciplinary Bio Central (IBC)
- Editorial Board, Biosensors and Bioelectronics (ELSEVIER)
- Editorial Board, BioChip Journal (KBCS & Springer)
- Editorial Board, The Open Biotechnology Journal (Bentham Science Publishers)
5.2.8. Jong Chul Ye

- Associate Editor, Korean Society Medical and Biological Engineering (KOSOMBE)
- Editorial Board, Korean Society of Magnetic Resonance in Medicine (KSMRM)
- Invited Guest Editor, Special Issue of “Compressed Sensing Signal Processing”, Journal of Korea Institute of Electrical
and Electronics Engineer (KIEE)
5.2.9. Gwan-Su Yi
- Editor Board, International Journal of Systems and Synthetic Biology (SPRINGER)
5.3. Professional Society Membership

- Research Grant Review Committee Member of International Human Frontier Science Program (HFSP) ( Strasbourg
Cedex, France)
- Senior Member of IEEE Engineering in Medicine and Biology Society (U.S.A.)
- Senior Member of IEEE Control Systems Society (U.S.A.)
- Senior Member of IEEE Systems, Man, and Cybernetics Society (Technical Committee Member of “Systems Biology”)
(U.S.A.)
- Senior Member of IEEE Robotics and Automation Society (U.S.A.)
- Member of IET (IEE)
- Member of Biophysical Society (U.S.A.)
- Member of Institute of Control, Automation and Systems Engineers (Korea)
- Member of Institute of Electronics Engineers of Korea (Korea)
- Academic board director of Korean Society for Bioinformatics and Systems Biology (Korea)
- Member of Korean Society for Molecular and Cellular Biology

* Division of Systems Biology (in charge of the Secretary-General)

- Steering Committee Member of Korea Genome Organization (Korea)
5.3.2. Young-Ho Cho

- Member of Institute of Electrical and Electronics Engineers (IEEE), U.S.A
- Member of American Society of Mechanical Engineers (ASME), U.S.A
- Member of Korean Society of Mechanical Engineers (KSME), Korea
- Member of Korean Institute of Electrical Engineers (KIEE), Korea
5.3.3. Chulhee Choi

- Member Korean Association of Neurology, Korea
- Member Medical Association, Korea
- Member Korean Society for Molecular and Cellular Biology (KSMCB), Korea
- Member of Korean Society for Cell Biology (KSCB), Korea
- Member of Korean Society for Brain and Neural Science (KSBNS), Korea
- Active Member of American Association of Cancer Research (AACR), USA
- Member of Pharmaceutical Society of Korea, since 2009, Korea

- Member of Society for Neuroscience (SFN)
- Member of Computational Neuroscience (CNS)
- Member of Organization for Human Brain Mapping (OHBM)
- Member of IEEE Engineering in Medical and Biological Science (IEEE EMBS)
- Faculty member of fAssociation for Korean Neuroscientists (AKN)
- Member of Korean Physical Society (KPS)
- Member of Korean Society of Biological Psychiatry (KSBP)
5.3.5. Ki-Hun Jeong

- Board of Director of Member of Korean BioChip Society (KBCS)
- Member of Optical Society for Korean. (OSK)
- Member of Institute of Electrical and Electronics Engineers (IEEE)
5.3.6. Yong Jeong

- Member of the Korean Neurological Association
- Member of the Korean Society of Clinical Neurology
- Member of the Korea Dementia Society

- Member of the Alzheimer's Association International Society to Advance Alzheimer Research and Treatment
- Member of the Korean Society of Medical and Biological Engineering
- Member of the Society for Neuroscience
5.3.7. Doheon Lee

- Member of Korean Society of Bioinformatics and Systems Biology (KSBSB)
- Member of Association for Computing Machinery (ACM)

-Member of Korean society of Bioinformatics(KSBI)
-Member of Korea information science Society (KISS)
-Member of Korea intelligent system society
-Member of IEEE computational intelligence systems
-Chair of Korean chapter, IEEE computational intelligence systems
5.3.9. Yoonkey Nam

- Board of Director of Korean Society for Medical and Biological Engineering (KOSOMBE)
- Member of Korean BioChip Society (KBCS)
- Member of IEEE Engineering in Medicine and Biology Society (IEEE-EMBS)
- Member of BioMedical Engineering Society (BMES)
5.3.10. Je-Kyun Park

- Board of Director of Member of Korean BioChip Society (KBCS)
- Member of American Chemical Society (ACS)
- Member of Association for Laboratory Automation (ALA)

- Member of Institute of Electrical and Electronics Engineers
- Board Member of the Korean Human Brain Mapping Society
- Signal Processing Committee & Board Member of Korea Institute of Electrical and Electronics Engineer
5.3.12. Gwan-Su Yi
- Member of Korean Society for Molecular and Cellular Biology (KSMCB)
- Board member of Korean Society for Bioinformatics (MSBI)

- Member of Korean Society of Medical Informatics (KOSMI)

- Member of Korean Institute of Electrical Engineering (KIEE
- Member of Korean Institute of Information Scientists and Engineers (KIISE)
- Member of The International Society for Computational Biology (ISCB)
5.4. Conference Committee Membership

- Conference Organizer, IEEE International Symposium on Industrial Electronics 2009 (ISIE2009), Seoul, Korea, July 5-8,
2009.
- Session Organizer, ICROS-SICE International Joint Conference 2009 (ICCAS-SICE 2009), Fukuoka, Japan, August 18-21,
2009.
- Conference Organizer, 10th International Conference on Intelligent Data Engineering and Automated Learning
(IDEAL2009), Burgos, Spain, September 23-26, 2009.
- Conference Organizer, 2009 IEEE International Conference on Bioinformatics and Biomedicine, Washington DC, U.S.A.,
November 1-4, 2009.
- Conference Organizer, BIOINFO 2009 CBI-KSBSB Japan-Korea Joint Conference, Busan, Korea, November 4-6, 2009.
5.4.2. Young-Ho Cho

- International Steering Committee, International Workshop on Micro and Nanotechnology for Power Generation and
Energy Conversion Applications (PowerMEMS), 2003-2009
- Co-Chair, U.S.A.-Korea Joint Symposium, 2003-2009
- Chief Delegate of Korea, World Micromachine Summit, 1999-2010

- Committee Member, Society for Neuroscience (SFN)
- Committee Member, Computational Neuroscience (CNS)
- Committee Member, Society for Neuroeconomics
- Committee Member, Organization for Human Brain Mapping (OHBM)
- Committee Member, Computational Intelligence in Medicine and Healthcare (CIMED)
5.4.4. Ki-Hun Jeong

- Technical Committee member, Asian and Pacific Rim Symposium on Biophotonics (2009).
5.4.5. Yong Jeong

- International Committee chair, International Symposium on Early Detection and Rehabilitation Technology of Dementia,

December 11-12, 2009, Japan
- Program committee, International Symposium on Early Detection and Rehabilitation Technology of Dementia,
December 11-12, 2009, Japan
5.4.6. Doheon Lee

- Steering Committee Member, International Conference on Artificial Immune Systems (ICARIS-2009), York, UK, August
9-12, 2009
- General Chair, ACM Int’l Workshop on Data and Text Mining in Bioinformatics (DTMBio-2009), Hong Kong, China,
November 2009
- Session Chair, IEEE International Conference on Bioinformatics and Biomedicine (IEEE BIBM 2009), Washington D.C.,
USA, November. 2009
- Program Committee Member, The 8th Asia Pacific Bioinformatics Conference (APBC2010), Bangalore, India, January
2010
- Program Committee Member, Algebraic and Numeric Biology 2010, Hagenberg, Austria, July 2010
- Program Committee Vice Chair, The 11th Pacific Rim International Conference on Artificial Intelligence (PRICAI-2010),
Daegu, Korea, August, 2010
5.4.7. Je-Kyun Park

- Organizing Committee Member, Korea MEMS Conference, April 2-4, 2009, Jeju Island, Korea.
- Program Committee Member, 15th International Conference on Solid-State Sensors, Actuators, and Microsystems
(Transducers 09), June 21-225, 2009, Denver, USA
- Program Committee Member, Biotronics 2009, October 7, 2009, Seoul, Korea
- Local Organizing Committee Member, 13th International Conference on Miniaturized Systems for Chemistry and Life
Sciences (MicroTAS 2009 Conference), November 1-5, 2009, Jeju Island, Korea
5.4.8. Jong Chul Ye

- Program Committee member, Image Reconstruction from Incomplete Data IV, San Diego, USA (2010).
- Technical Committee member, International Forum on Medical Imaging in Asia, Taipei, Taiwan (2009).
- Organizing Committee member, Image Processing and Image Understanding, Jeju Island, Korea (2007-present).
- Steering Committee member, Asian and Pacific Rim Symposium on Biophotonics (2007).
5.4.9. Gwan-Su Yi
- Local organizing committee and programming committee, The 3rd International Symposium on Languages in Biology
and Medicine, Jeju Island, Korea, November 8-10, 2009
- Program Committee Member, The 20th International Conference on Genome Informatics, Yokohama, Japan, December
14-16, 2009

5.5. Awards and Honors

- Young Scientist Award, President of Korea / The Korean Academy of Science and Technology and the Ministry of
Education and Science of Korea, Korea, March 17, 2010.
- International Activity Award, KAIST, Korea, February 12, 2010.
- Technology Innovation Award, KAIST, KOREA, December 31, 2009.
5.5.2. Young-Ho Cho

- Grand Prize of Pre-CEO, Pre-CEO & Pre-Star Competition(Daedeok Innopolis), Korea, Nov 2009
5.5.3. Chulhee Choi

- 2009 Health Industry Technology Award, “Development of Near Infrared Fluorescence Imaging Technology for
Measurement of Peripheral Tissue Perfusion from Ministry for Health, Welfare & Family Affairs, Republic of Korea”, The
HITEK 2009, Coex, Seoul, Korea (December 12, 2009)
- 2009 Technology Innovation Award, “2009 Technology Innovation Award (Excellence in Technology Innovation)”, KAIST,
Daejeon, (2009)
- “Minister Prize for Excellence in University-Industry Cooperation from Ministry of Education, Science and Technology,
Republication of Korea”, The 2009 UIC EXPO University-Industry Cooperation Center, Ilsan, Korea (November 11, 2009)
- Bumsuk Award, “Bumsuk Award (Best Academic Achievement) from Eulji Foundation, Eulji Foundation, Seoul, Korea
(2009)
5.5.4. Jung Kyoon Choi

- Bioneer Award, Korean Society for Molecular and Cellular Biology, Korea, 2009
- TJ Park Bessemer Science Followship (Junior Faculty), Posco TJ Park Foundation, Korea, 2009

- 2009th Foundation 38 Anniversary Commemoration Excellent Teacher(Advanced Ideas Impression Field) Commendation,
KAIST, KAIST, Korea (2009)
5.5.6. Ki-Hun Jeong

- Best Poster Award, “Biocompatible Surface Enhanced Raman Scattering”, Korean Biochip Society 2009 Spring Meeting,
Daejeon, Korea (October, 2009)
- 2009 Lifetime Achievement Award, Korea Biochip Society, Korea (October, 2009)
- Best Presentation Award, “MEMS based two-dimensional lens scanning for miniaturized optical scanning system”,
Photonics Conference 2009, Hongchun, Korea (October, 2009)
- Best Principal Investigator Award, KRIBB Poster Festival 2009 (November 30,2009)

- Best IP Award, “Micropatterned Single Lens”, 2009 University IP Ocean Contest supported by the Korean Intellectual
Property Office (KIPO), Seoul, Korea (December 24, 2009)
5.5.7. Doheon Lee

- Presidential Innovation Award (신지식인상), KAIST, Korea, February 29, 2009
5.5.8. Yoonkey Nam

- “Prize for Excellent English Lecture”, Excellent Faculty Award, KAIST (2009. 02)
5.5.9. Je-Kyun Park

- Highly Rated Poster Presentations, “A microfluidic platform for multiple immunohistochemistry”, AACR 100th Annual
Meeting 2009, Denver, USA (April 18-22, 2009)
- Best Paper Award, “Optoelectrofluidic enhancement of surface enhanced Raman scattering”, Biotronics 2009, Seoul,
Korea (October 7, 2009)
- Excellent Paper Presentation Award, “Permeability assay based on the blood-brain barrier model in a microfluidic
device”, The Fall Meeting of The Korean BioChip Society (Biochip 2009), Seoul, Korea (October 8-9, 2009)
- Student Travel Grant, “A microfluidic multiplexed immunohistochemistry platform for quantitative pathological
diagnosis”, MicroTAS 2009 Conference, Jeju Island, Korea (November 1-5, 2009)
- Young Researcher Poster Award Winner, “Diffusion measurement of biomolecules using rapid generation of black hole
in a molecular solution by optoelectrofluidics”, MicroTAS 2009 Conference, Jeju Island, Korea (November 1-5, 2009)
- Best IP Award, “Lab-on-a-chip for blood cross matching test”, 2009 University IP Ocean Contest supported by the
Korean Intellectual Property Office (KIPO), Seoul, Korea (December 24, 2009)
- Gold Prize, “Microfluidic multiplexed immunohistochemistry system for personalized cancer therapy”, 16th Samsung
Human Tech Paper Competition, Seoul, Korea (February 24, 2010)
- Silver Prize, “Surface-enhanced raman scattering (SERS)-based immunoassays using optoelectrofluidics”, 16th
Samsung Human Tech Paper Competition, Seoul, Korea (February 24, 2010)
- Bronze Prize, “Microfluidic multimeter: a fluidic measuring method”, 16th Samsung Human Tech Paper Competition,
Seoul, Korea (February 24, 2010)
- Grand Award Winner, “Lab-on-a-chip for blood cross matching test”, The 1st ‘Young Pasteurian Award’, Seongnam,
Korea (February 26, 2010)

- Best paper award, “NIRS-SPM toolbox for near infrared spectroscopy neuroimaging: a recent progress”, Korean Society
of Human Brain Mapping 2009, Seoul, Korea (November 6, 2009).
- Student paper award, “Compressed sensing metal artifact removal in dental CT”, Humantech paper award (February
25, 2009).
- Student paper award, “Maximum Likelihood Reconstruction of Helical Macromolecules using Electron Microscopy”,
Humantech paper award (February 25, 2009).

- Reconstruction Challenge, “k-t FOCUSS”, Data Sampling and Image Reconstruction, ISMRM Workshop Series, Sedona,
USA (January 27, 2009).
5.6. Extra Activities

- Chair, Committee for International Collaboration, Dept. of Bio and Brain Engineering, KAIST, 2007-present
- Board Member, Steering Committee, KI for IT Convergence, KAIST, 2008-present
- Board Member, Steering Committee, KAIST-KRIBB BINT Convergence Institute, KAIST, 2008-present
- Board Member, Committee for Academic Affairs, Committee for Academic Affairs, KAIST, 2008-present
- Board Member, Steering Committee for Fusion Research, KI, KAIST, 2008-present
- Board Member, Board Member, College of Information Science and Technology, KAIST, 2009-present
- Chair, Faculty Search Committee, Dept. of Bio and Brain Engineering, KAIST, 2010-present
- Chair, Committee for Academic Affairs, Dept. of Bio and Brain Engineering, KAIST, 2010-present
- Board Member, Selection Committee for Talented Students, KAIST, 2010-present
- Board Member, Committee on Computer Programming CS101, KAIST, 2010-present
5.6.2. Young-Ho Cho

- Science & Technology Ambassador, MEST, 2002-present
- Steering & Evaluation Committee on 21C Frontier Programs: Nanomechatronics Technology, MEST/KIMM, 2002-
present
- Steering Committee on Next Generation New Technology Development: Micro Opto-Thermo-Fluidic Devices,
MKE/KIMM, 2002-present
- Advisory Committee on Nanotechnology Information, MEST/KISTI, 2002-present
- Committee on National Nanotechnology Roadmap, KoNTRS, 2004-present
- Planning Committee on 21C Frontier Programs: Nanomechatronics Technology, MEST/KIMM, 2006-present
- Planning & Steering Committee on Ultra-precision Machine Component and System Process Innovation, KIMM, 2006-
2010
- Advisory Committee on R&D Patent Center, KIPO/KIIP, 2006-present
- Committee on the Curriculum Development for Patent Information Analysis and Utilization, KIPO/KIPA, 2006-present
- Advisory Committee on Patent Information Analysis and Utilization, KIPO/KIPA, 2006-present
- Committee on Technology Licensing Office, KAIST, 2007-2011
- Technical Committee on Stretagic Development of Nanotechnology, MKE, 2008-present
- Personnel Advisory Committee of Dep. Bio and Brain Engineering, KAIST, 2008-2010
- Council for Curriculums in Life Science and Bioengineering College, KAIST, 2008-2010
- Freshman Advisor in 2009, KAIST, 2009-2010

- Advisory Committee on Frontier Program Evaluation Policy, MEST/NRF, 2009
- Committee on Next Generation Talented Enterprisers, KIPO/KIPA, 2009
- Review Committee on Intellectual Property Mentoring Programs, KIPO/KIPA, 2009
- Steering Committee on University Invention and Patent Education, KIPO, 2009

- KAIST, Information Committee, Committee, 2009-Present
- KAIST, Confidence Teacher Committee, Committee, 2009-Present
- KAIST, Culture Event Committee, Operation chairperson, 2009-2011
- Domestic, Asia Pacific Area Theory Physical Center, APCTP-KAIST summer school for Brain Dynamics, chairperson,
2006-Present
- Domestic, Asia Pacific Area Theory Physical Center, Crossroad, Editor in Chief, 2005- Present
5.6.4. Ki-Hun Jeong

- Planning Committee on Nanoresearch Grant for the National Research Foundation (2009)
- Construction Committee of KAIST-Chungmoonsoul Welcome Center, KAIST (2009-Present)
5.6.5. Dongseop Kim

- KAIST, KAIST, Student Committee, Committee, 2009-Present
- Domestic, Korea Bioinformatician System Biology Society, Finance Director, 2009-Present
5.6.6. Doheon Lee

- KAIST, KAIST International Development Site Planning Committee, member, 2007-Present
- Domestic, Korean Society for Bioinformatics and Systems Biology, Program director, 2009-Present
- Domestic, Korea Research Council of Fundamental Science & Technology, Planning & Evaluation Committee, 2009-
Present
- International, Computers in Biology and Medicine Editorial Board Member 2006-Present
- International, International Journal of Data Mining and Bioinformatics, Editorial Board Member, 2009-Present
- International, ACM Transactions on Internet Technology, Associate Editor, 2001-Present
- International, International Conference on Artificial Immune Systems, Steering Committee Member, 2003-Present
- International, CRS Diogenes SRL, Italy, Technical Advisor, 2006-Present

- Dean, academic Affairs, KAIST, 2006 ~.
- Director, Global Institute For Talented Education, 2006~
- Chair, Graduate Program of Science Journalism, KAIST, 2008.

- Dean, School of Innovation, KAIST, 2009~
5.6.8. Je-Kyun Park

- Korea Brain Research Institute bidding Committee, KAIST (2008-continue)
- College of Life Science & Bioengineering Vision Committee, KAIST (2008-continue)
- KAIST-KRIBB BINT Center(KBC) Committee, KAIST (2009-2011)
5.6.9. Jong Chul Ye

- Planning committee, National Brain Research Institute, Ministry of Education, Science and Technology

Department of
Bio and Brain
Engineering
Student Activities
6. Student Activities 115
6.1. Bioinians-News Letter 116

6.1. Bioinians-News Letter

Department of
Bio and Brain
Engineering
Appendix
Appendix 117
A. Publication Lists 118

B. International and Domestic Patens 130
A. Publication Lists
A.1. International Journal Papers

1. Philip J. Murray, Jun-Won Kang, Gary R. Mirams, Sung-Young Shin, Helen M. Byrne, Philip K. Maini, and Kwang-Hyun
Cho*, "Modelling spatially regulated beta-catenin dynamics and invasion in intestinal crypts", Accepted for publication
in Biophysical Journal (IF: 4.757), 2010.
2. Man-Sun Kim, Jeong-Rae Kim, and Kwang-Hyun Cho*, “Dynamic network rewiring determines temporal regulatory
functions in the Drosophila melanogaster development processes”, Accepted for publication in BioEssays (IF: 5.402),
2010. [Cover Paper]
3. Chaoyi Dong, Tae-Woong Yoon, Declan G. Bates, and Kwang-Hyun Cho*, “Identification of feedback loops embedded in
cellular circuits by investigating non-causal impulse response components”, Journal of Mathematical Biology, Vol. 60,
No. 2, pp. 285-312, (February 2010)
4. Jeong-Rae Kim, Dong-Kwan Shin, Sung-Hoon Jung, Pat Heslop-Harrison, and Kwang-Hyun Cho*, “A design principle
underlying the synchronization of oscillations in cellular systems”, Journal of Cell Science, Vol. 123, No. 4, pp. 537-543
(February 15, 2010)
5. Jung-Soo Kim, Najl V. Valeyev, Ian Postlethwaite, Pat Heslop-Harrison, Kwang-Hyun Cho*, and Declan G. Bates,
“Analysis and Extension of a Biochemical Network Model using Robust Control Theory”, International Journal of
Robust and Nonlinear Control, Epub ahead of print (doi: 10.1002/rnc.1528) (November 3, 2009)
6. Dong-San Kim, Walter Kolch and Kwang-Hyun Cho*, “Multiple roles of the NF-kappaB signaling pathway regulated
by coupled negative feedback circuits”, FASEB Journal, Vol. 23, No. 9, pp. 2796-2802 (September 2009)
7. Chang-Ho Seo, Jeong-Rae Kim, Man-Sun Kim, and Kwang-Hyun Cho*, “Hub genes with positive feedbacks function as
master switches in developmental gene regulatory networks”, Bioinformatics, Vol. 25, No. 15, pp. 1898-1904 (August
1, 2009)
8. Chaoyi Dong, Ji-Soon Lim, Yoon-Key Nam, and Kwang-Hyun Cho*, “Systematic analysis of synchronized oscillatory
neuronal networks reveals the enrichment of coupled direct and indirect feedback motifs”, Bioinformatics, Vol. 25, No.
13, pp. 1680-1685 (July 1, 2009)
9. Seong-Jin Park and Kwang-Hyun Cho*, “Delay-coobservability and its algebraic properties for decentralized
supervisory control of discrete event systems with communication”, Vol. 45, No. 5, pp. 1252-1259 (May 2009)
10. Jung Yup Kim, Hak Joo Lee, and Young-Ho Cho, "Anti-buckling S-shaped Vertical Microprobes With Branch Springs",
Microelectronic Engineering, (October 2009)
11. Chang Han Je, Tae Goo Kang, and Young-Ho Cho, "Droplet-Volume-Adjustable Microinjectors Using a Digital
Combination of Multiple Current Paths Connected to Single Microheater",Journal of Microelectromechanical
Systems, Vol. 18, No. 4, pp. 884-891 (August 2009)
12. Jae Yong Lee, Won Chul Lee and Young-Ho Cho, "Serially Connected Weight-Balanced Digital Actuators for Wide-
Range High-Precision Low-Voltage-Displacement Control", Journal of Microelectromechanical Systems, Vol. 18, No.
4, pp. 792-798 (August 2009)
13. Won Han and Young-Ho Cho, “High-Precision Digital-to-Analog Tunable Capacitors With Improved Quality Factor
Using a Parallel Digital Actuator Array”, Journal of Microelectromechanical Systems, Vol. 18, No. 4, pp. 773-783
(August 2009)

14. Kyung Hyun Choi, Muhammad Asif Ali Rehmani, Il Doh, and Young-Ho Cho, “Numerical Study of Particle Focusing
through Improved Lab-on-a-Chip Device by Positive Dielectrophoresis”, Microsystem Technologies, Vol. 15, No. 7, pp.
1059-1065 (July 2009)
15. Il Doh, and Young-Ho Cho, “Passive Flow-rate Regulators Using Pressure-dependent Autonomous Deflection of
Parallel Membrane Valves”, Lab on a Chip, Vol. 9 No. 14, pp. 2070-2075 (21 July, 2009)
16. Sunghwan Chang, Sang Do Suk, and Young-Ho Cho, "Characterization of a Multi-Chip Microelectrofluidic Bench for
Modular Fluidic and Electric Interconnections", Sensors and Actuators : B, Vol. B140 No. Issue 2, pp. 342-348 (July 16,
2009)
17. Young-Ho Cho and Young-Hyun Jin, "SPR Sensor Chips with Polymer Nanogratings", e-Journal of Surface Science
and Nanotechnology, Vol. 7, pp. 750-756, (July 4, 2009)
18. Dong Woo Lee, and Young-Ho Cho, "High-radix Microfluidic Multiplexer with Pressure Valves of Different Thresholds",
Lab on a Chip, Vol. 9, No. 12, pp. 1681-1686 (June 21, 2009)
19. Soyeon Yi, and Young-Ho Cho, "DNA Separation Chips Using Temporally Asymmetric Ratchet Effect in Nonuniform
Electric Fields", Sensors and Materials 21 2, 105-115,(2009)
20. Young Ho Seo, and Young-Ho Cho, "Micro Direct Methanol Fuel Cells and Their Stacks using a Polymer Electrolyte
Sandwiched by Multi-window Microcolumn Electrodes", Sensors and Actuators: A, A150, Issue 1, pp. 87-96, (March 16,
2009)
21. Hyunjung Chu, Il Doh, and Young-Ho Cho, "A Three-dimensional (3D) Particle Focusing Channel Using the Positive
Dielectrophoresis (pDEP) Guided by a Dielectric Structure Between Two Planar Electrodes", Lab on a Chip, Vol. 9, No.
5, pp. 686-691 (March 7, 2009)
22. Seungjeong Song, Sang Won Kang, Chulhee Choi, “Trichostatin A enhances proliferation and migration of vascular
smooth muscle cells by downregulating thioredoxin 1”, Cardiovasc Res, Epub (January 2010)
23. Jinho Kim, Kyungsun Choi, Kyunghwan Kim, Chulhee Choi, “Oxidative stress-induced necrotic cell death via
mitochondria-dependent burst of reactive oxygen species”, Curr Neurovasc Res, Vol. 6, No. 4, pp. 21-222 (November
2009)
24. Seungwook Ryu, Seungjung Song, Chulhee Choi, Sangwon Kang, “Caspase-dependent generation of reactive oxygen
species in human astrocytoma cells confers tumor resistance to TRAIL-mediated apoptosis”, Cell Death Differ, Epub
(October 2009)
25. Kyungsun Choi, Chulhee Choi, “Proapoptotic ginsenosides compound K and Rh2 enhance Fas-induced cell death of
human astrocytoma cells through distinct apoptotic signaling pathways”, Cancer Res Treat, Vol. 41, No.1, pp. 36-44
(March 2009)
26. Yong An Chung, Dong Won Yang; Bong-Joo Kang; Sung Hoon Kim; Soo Kyo Chung; Hyung Sun Sohn, Bradley S
Peterson* (2009), “A Tc-99m SPECT Study of Regional Cerebral Blood Flow in Patients with Transient Global
Amnesia”, NeuroImage, Vol. 47, No. 1, pp. 50-55 (March 2009)
27. Won Kim, Seungyeon Kim,Kyung-Uk Lee, Kook-Jin Ahn, Yong-An Chung, Keun-Young Hong, J eong-Ho Chae* (2009),
“Temporal Changes in Functional Magnetic Resonance Imaging Activation of Heterosexual Couples for Visual Stimuli
of Loved Partners”, Psychiatry Invest, Vol. 6, No. 1, pp. 19-25 (August 2009)
28. Jaeseung Jeong, Charles Latchumane*, “Quantification of Brain Macrostates Using Dynamical Nonstationarity of
Physiological Time Series”, IEEE Transactions on Biomedical Engineering.

29. Jaeseung Jeong, Seungyeon Kim, Yong-An Chung, Jeong-ho Chae, Rahyung Ju, Jaeseung Jeong,* (2009), “Target-
specific rCBF changes induced by 0.3T static magnetic field exposure on the brain”, brain Research, Vol. 1317, No. 4,
pp. 211-217 (October 2009)
30. Yong-An Chung, Sam-Wook Choi, Keun Ho Joe,Younghoon Cheon, Dai-Jin Kim*(2009), “Regional Cerebral Blood Flow
in Patients with Alcohol Related Dementia: A SPECT Study”, International Journal of Neuroscience, Vol. 119, No. 11,
pp. 2100-2111 (November 2009)
31. Jaeseung Jeong, Inhye Kim, Wonhye Lee, Hansem Sohn, Bradley S. Peterson*, “Linear and nonlinear analysis of the
EEG in Adolescents with Attention-Deficit/Hyperactivity Disorder during cognitive task”, Clinical Neurophysiology,
accept (2010)
32. Hyukjin Jung, Ki-Hun Jeong, Microfabricated ommatidia using a laser induced self-writing process for high resolution
artificial compound eye optical systems, Opt. Express vol. 17, No.17, pp. 14761-14766, (2009)
33. Kwangeun Jang, Sungho Tak, Jinwook Jung, Jaeduck JangJ, Yong Jeong, Jong Chul Ye, ,* (May-Jun. 2009), “Wavelet
minimum description length detrending for near-infrared spectroscopy”, Journal of Biomedical Optics, vol. 1, Issue 3,
pp. 340-04 (May/June 2009)
34. Keuwan Park, Dongup Kim* (2009), “Localized network centrality and essentiality in the yeast protein interaction
network”, Proteomics, Vol. 9, pp. 143 (November 2009)
35. Sooyoung Lee, Keunwan Park, Dongsup Kim* (2009), “Building a drug-target network and its applications”, Expert
Opinion on Drug Discovery, Vol.9, pp. 1177-1189 (November 2009)
36. Byung-Chul Lee, Dongsup Kim* (2009), “A New Method for Revealing Correlated Mutations Under the Structural and
Functional Constraints in Proteins”, Bioinformatics, Vol.25, pp. 2506-2513 (October 2009)
37. Keuwan Park, Soyoung Lee, Hee-Seoung Ahn, Dongsup Kim* (2009), “Predicting the multi-modal binding propensity
of small molecules: towards an understanding of drug promiscuity”, Molecular Biosystems, Vol. 5, pp. 844-853
(August 2009)
38. Kyu-il Cho, Dongsup Kim, Doheon Lee* (2009), “A feature-based approach to modelling protein-protein interaction hot
spots”, Nucleic Acids Research, Vol.37, pp. 2672-2687 (May 2009)
39. Inkyung Jung, Dongsup Kim* (2009), “Regulatory patterns of histone modifications to control the DNA methylation
status at CpG islands, IBC, Vol.1, pp.4 (May 2009)
40. Inyung Jung, Dongsup Kim* (2009), “SIMPRO: simple protein homology detection method by using indirect signals”,
Bioinformatics, Vol. 25, pp. 729-735 (March 2009)
41. Inkyung Jung, A. Matsuyama, M. Yoshida, Dongup Kim* (2009), “PostMod: sequence based prediction of kinase-
specific phosphorylation sites with indirect relationship”, Vol.11, pp. S10 (January 2010)
42. Sangwoo Kim, Doheon Lee, “Mining metastasis related genes by primary-secondary tumor comparisons from large-
scale database”, BMC Bioinformatics, Vol. 10, No. S3, pp. 29-36 (2009)
43. Hojung Nam, KiYoung Lee, Doheon Lee, “Identification of Temporal Association Rules from Time-Series Microarray
Data Set”, BMC Bioinformatics, Vol. 10, No. S3, pp. 21-28 (2009)
44. Jieun Shin, Keunhwa Kim, Hyojin Kang, Ismayil S. Zulfugarov, Gabyong Bae, Choon-Hwan Lee, Doheon Lee, Giltsu
Choi, “Phytochromes promote seedling light responses by inhibiting four negatively acting phytochrome-interacting
factors”, PNAS, Vol. 106, No. 18, pp. 7660-7665 (2009)
45. Kyu-il Cho, Dongsup Kim, Doheon Lee, “A feature-based approach to modelling protein-protein interaction hot spots”,
Nucleic Acids Research, Vol. 37, pp. 2672-2687 (2009)

46. Hojung Nam, Jinwon Lee, Doheon Lee, “Computational Identification of Altered Metabolism using Gene Expression
and Metabolic Pathways”, Biotechnology and Bioengineering, Vol. 10, No. 4, pp. 835-843 (2009)
47. Eunjung Lee, Hyunchul Jung, Predrag Radivojac, Jong-Won Kim, Doheon Lee, “Analysis of AML Genes in
Dysregulated Molecular Networks”, BMC Bioinformatics, Vol. 103, No. S9, S2 (2009)
48. Taewoo Ryu, Sejun Lee, Cheol-Goo Hur, Doheon Lee, “A web-based tool for transcriptional regulatory site
identification using a conserved virtual chromosome”, BMB Reports (Journal of Biochemistry and Molecular Biology),
Vol. 42, No. 12, pp. 823-828 (2009)
49. Hojung Nam, Bongchul Chung, Younghoon Kim, KiYoung Lee, Doheon Lee, “Combining Tissue Transcriptomics and
Urine Metabolomics for Breast Cancer Biomarker Identification”, Bioinformatics, Vol. 25, No. 23, pp. 3151-3157 (2009)
50. Byoungwook Lee, Doheon Lee, “Protein comparison at the domain architecture level”, BMC Bioinformatics, Vol.10,
No.S15, pS15 (2009)
51. Hyunchul Jung, Eunjung Lee, Jong-Won Kim, Doheon Lee, “Pathway level analysis by augmenting activities of
transcription factor target genes”, IET Systems Biology, Vol. 3, No. 6, pp. 534-542 (2009)
52. Sungwon Jung, Yoonkey Nam, Doheon Lee, “Inference of Combinatorial Neuronal Synchrony with Bayesian
Networks”, Journal of Neuroscience Methods, Vol. 186, pp. 130-139 (2009)
53. Juhyun Jeong, Taewoo Ryu, Yongdeuk Hwang, Doheon Lee, “Prediction of extracellular matrix proteins based on
distinctive sequence and domain characteristics”, Journal of Computational Biology, Vol. 17, No. 1, pp. 97-105 (2010)
54. Sungwon Jung, Yoonkey Nam, Doheon Lee, “Inference of combinatorial neuronal synchrony with Bayesian networks”,
Journal of Neuroscience Methods, Vol. 186, pp. 130-139 (January 2010)
55. Ju-Hyun Kim, Gyumin Kang, Yoonkey Nam, Yang-Kyu Choi, “Surface-modified microelectrode array with flake
nanostructure for neural recording and stimulation”, Nanotechnology, Vol. 21, pp. 85303, (January, 2010)
56. Gyumin Kang, Ji-Hye Lee, Chang-Soo. Lee, Yoonkey Nam, “Agarose microwell based neuronal micro-circuit arrays on
microelectrode arrays for high throughput drug testing”, Lab. Chip, Vol. 9, No. 22, pp. 3236-3242 (November 2009)
57. Chao-Yi Dong, Jisoon Lim, Yoonkey Nam*, Kwang.-Hyun Cho*, “Systematic analysis of synchronized oscillatory
neuronal networks reveals an enrichment for coupled direct and indirect feedback motifs”, Bioinformatics, Vol. 25,
No. 13, pp. 1680-1685 (July 2009)
58. Yoonkey Nam*, Edgar A. Brown, James D. Ross, Richard A. Blum, Bruce C. fWheeler, Stephen P. DeWeerth. “A
retrofitted neural recording system with a novel stimulation IC to monitor early neural responses from a stimulating
electrode”, Journal of Neuroscience Methods, Vol. 178, No. 1, pp. 99-102 (March 2009)
59. Hyundoo Hwang, Do-Hyun Lee, Wonjae Choi, Je-Kyun Park, “Enhanced discrimination of normal oocytes using
optically induced pulling-up dielectrophoretic force”, Biomicrofluidics, Vol. 3, pp. 014103 (March 2009)
60. Ju Hun Yeon, Je-Kyun Park, “Drug permeability assay using microhole-trapped cells in a microfluidic device”, Anal.
Chem., Vol. 81, No. 5, pp. 1944-1951 (March 2009)
61. Sungyoung Choi, Seungjeong Song, Chulhee Choi, Je-Kyun Park, “Microfluidic self-sorting of mammalian cells to
achieve cell cycle synchrony by hydrophoresis”, Anal. Chem., Vol. 81, No. 5, pp. 1964-1968 (March 2009)
62. Wonhye Lee, Jason C. Debasitis, Vivian K. Lee, Jong-Hwan Lee, Krisztina Fischer, Karl Edminster, Nathan McDannold,
Je-Kyun Park, Seung-Schik Yoo, “Multi-layered culture of human skin fibroblasts and keratinocytes through three-
dimensional freeform fabrication”, Biomaterials, Vol. 30, No. 8, pp. 1587-1595 (March 2009)

63. Young Ki Hahn, Jae-Byum Chang, Zongwen Jin, Hak-Sung Kim, Je-Kyun Park, “Magnetophoretic position detection
for multiplexed immunoassays using colored microspheres in a microchannel”, Biosens. Bioelectron., Vol. 24, No. 7,
pp. 1870-1876 (March 2009)
64. Joo H. Kang, Bumjun Kim, Je-Kyun Park, “Microfluidic pycnometer for in situ analysis of fluids in microchannels”,
Anal. Chem., Vol. 81, No. 7, pp. 2569-2574 (April 2009)
65. Joo H. Kang, Eujin Um, Je-Kyun Park, “Fabrication of poly(dimethylsiloxane) membrane with well-defined through-
holes for three-dimensional microfluidic networks”, J. Micromech. Microeng., Vol. 19, pp. 045027 (April 2009)
66. Youn-Suk Choi, Hong-Bae Kim, Seung-Hoon Kim, Jaekyu Choi, Je-Kyun Park, “Microdevice for analyzing the effect of
electrochemotherapy on cancer cells”, Anal. Chem., Vol. 81, No. 9, pp. 3517-3522 (May 2009)
67. Wonhye Lee, Jason Pinckney, Vivian Lee, Jong-Hwan Lee, Krisztina Fischer, Samuel Polio, Je-Kyun Park, Seung-
Schik Yoo, “Three-dimensional bioprinting of rat embryonic neural cells”, NeuroReport, Vol. 20, No. 8, pp. 798-803
(May 2009)
68. Hyundoo Hwang, Youn-Hee Park, Je-Kyun Park, “Optoelectrofluidic control of colloidal assembly in an optically
induced electric field”, Langmuir, Vol. 25, No. 11, pp. 6010-6014 (June 2009)
69. Sungyoung Choi, Je-Kyun Park, “Tuneable hydrophoretic separation using elastic deformation of
poly(dimethylsiloxane”, Lab Chip, Vol. 9, No. 13, pp. 1962-1965 (July 2009)
70. Hyundoo Hwang, Je-Kyun Park, “Dynamic light-activated control of local chemical concentration in a fluid”, Anal.
Chem., Vol. 81, No. 14, pp. 5865-5870 (July 2009)
71. Myung Gwon Lee, Sungyoung Choi, Je-Kyun Park, “Rapid laminating mixer using a contraction-expansion array
microchannel”, Appl. Phys. Lett., Vol. 95, pp. 051902 (August 2009)
72. Minseok S. Kim, Chae Yun Bae, Gabbine Wee, Yong-Mahn Han, Je-Kyun Park, “A microfluidic in vitro cultivation
system for mechanical stimulation of bovine embryos”, Electrophoresis, Vol. 30, No. 18, pp. 3276-3282 (September
2009)
73. Sungyoung Choi, Je-Kyun Park, “Optically coated mirror-embedded microchannel to measure hydrophoretic particle
ordering in three dimensions”, Small, Vol. 5, No. 19, pp. 2205-2211 (October 2009)
74. Zongwen Jin, Young Ki Hahn, Eunkeu Oh, Young-Pil Kim, Je-Kyun Park, Seung Ho Moon, Jung-Tak Jang, Jinwoo
Cheon, Hak-Sung Kim, “Magnetic nanoclusters for ultrasensitive magnetophoretic assays”, Small, Vol. 5, No. 20, pp.
2243-2246 (October 2009)
75. Do-Hyun Lee, Hyundoo Hwang, Je-Kyun Park, “Generation and manipulation of droplets in an optoelectrofluidic
device integrated with microfluidic channels”, Appl. Phys. Lett., Vol. 95, pp. 164102 (October 2009)
76. Myung Gwon Lee, Sungyoung Choi, Je-Kyun Park, “Three-dimensional hydrodynamic focusing with a single sheath
flow in a single-layer microfluidic device”, Lab Chip, Vol. 9, No, 21, pp. 3155-3160 (November 2009)
77. Hyundoo Hwang, Je-Kyun Park, “Measurement of molecular diffusion based on optoelectrofluidic fluorescence
microscopy”, Anal. Chem., Vol. 81, No. 21, pp. 9163-9167 (November 2009)
78. Sungyoung Choi, Seung-Hoon Kim, Je-Kyun Park, “Optical path-length modulation for three-dimensional particle
measurement in mirror-embedded microchannels”, Lab Chip, Vol. 10, No. 3, pp. 335-340 (February 2010)
79. Jaeduck Jang, Chae Yun Bae, Je-Kyun Park, Jong Chul Ye, “Self-reference quantitative phase microscopy for
microfluidic devices”, Opt. Lett., Vol. 35, No. 1, pp. 514-516 (February 2010)

80. Kanghee Lee, Kyung Hwan Jin, Jong Chul Ye and Jaewook Ahn, “Coherent optical computing for T-ray imaging”,
Optics Letter, Vol. 35, pp. 508-510 (February 2010)
81. Jaeduck Jang, Chae Yun Bae, Je-Kyun Park and Jong Chul Ye, “Self-reference quantitative phase microscopy for
microfluidic devices”, Optics Letter, Vol. 35, pp. 514-516 (February 2010)
82. Kyung Hwan Jin, Youngchan Kim, Dae-Su Yee, Ok Kyun Lee and Jong Chul Ye, “Compressed Sensing Pulse-Echo
Mode THz Reflectance Tomography”, Optics Letter, Vol. 34, pp. 3863-3965 (December 2009)
83. Hong Jung, Jaeseok Park, Jaeheung Yoo and Jong Chul Ye, “Radial k-t FOCUSS for High-Resolution Cardiac Cine
Magnetic Resonance Imaging”, Magn Reson Med, Vol. 63, pp. 68-78 (January 2010)
84. Kwang Eun Jang, Sungho Tak, Jinwook Jung, Jaeduck Jang and Jong Chul Ye, “Wavelet-MDL detrending for near
infrared spectroscopy (NIRS)”, Journal of Biomedical Optics, Vol. 14, pp. 01-13 (May/Jun 2009)
85. Hong Jung, Kyunghyun Sung, Krishna S. Nayak, Eung Yeop Kim and Jong Chul Ye, “k-t FOCUSS: a general
compressed sensing framework for high resolution dynamic MRI”, Magn Reson Med, Vol. 61, pp. 103-116 (January
2009)
86. Sungho Tak, Kwang Eun Jang, Jinwook Jung, Jaeduck Jang and Jong Chul Ye, “NIRS-SPM: Statistical parametric
mapping for near-infrared spectroscopy”, NeuroImage, Vol. 44, pp. 428-447 (January 2009)
87. Choong-Hyun Sun, Min-sung Kim, Youngwoong Han, Gwan-Su Yi, “COFECO: Composite Function Annotation Enriched
by Protein Complex Data”, Nucleic Acids Rese, Vol. 37, w350-w355 (May 2009)
88. Seung-Wook Chi, Jinki Kim, Gwan-Su Yi, Hyo Jeong Hong, Seong Eon Ryu, “Broadly neutralizing anti-HBV antibody
binds to non-epitope regions of preS1”, FEBS Lett., Vol. 583, No. 18, pp. 3095-3100 (August 2009)
89. Jongmin Kim, Jong Man Kim, Seok Joo Hong, Jun Ho Park, Sun Young Park, Taeho Hwang, Gwan-Su Yi, Seong Hwan
Kim, Eun Yoon Cho, Jae-Won Joh, Jin Young Park, Dae Shick Kim, “Increased Expression of Autophagy protein Beclin1
and LC3 in High-grade Hepatocellular Carcinoma and Metastatic Carcinoma”, Biochip Journal, Vol. 3, No. 4, pp. 316-
325 (December 2009)
90. Jongmin Kim, Jong Man Kim, Seok Joo Hong, Jun Ho Park, Sun Young Park, Taeho Hwang, Gwan-Su Yi, Seong Hwan
Kim, Eun Yoon Cho, Jae-Won Joh, Jin Young Park, Dae Shick Kim, “FiGS: a filter-based gene selection workbench for
microarray data”, BMC Bioinformatics, Vol. 11, No. 50 ((January 2010)
A.2. Domestic Journal Papers

1. Dong Woo Lee and Young-Ho Cho, "Digital Variable Focal Liquid Lens", Transactions of the KSME, Vol. 34, No. 5,
(January 2010)
2. Dong Woo Lee and Young-Ho Cho, "A Digital Dilution Chip Using Selective Inter-well Valve Control", Transactions of
the KSME, Vol. 34, No. 5, (January 2010)
3. Il Doh, and Young-Ho Cho, "A Passive Flow-rate Regulator Using Pressure-dependent Autonomous Deflection of
Parallel Membrane Valves", Transactions of the KSME, Vol. 33, No. 6, pp. 573-576 (June 2009)
4. Dong Woo Lee and Young-Ho Cho, "A High-Efficiency Ternary Microfluidic Multiplexer Using Control Lines with Digital
Valves of Different Threshold Pressures", Transactions of the KSME, Vol. 33, No. 6, pp. 568-572 (June 2009)
5. Mun Chul Kim and Young-Ho Cho, "High-voltage Liquid-electrolyte Microbatteries Inspired from Electric Eels",
Transactions of the KSME, Vol. 33 No. 5, pp. 469-473 (May 2009)

6. Soyeon Yi, and Young-Ho Cho, "DNA Separation Chips Using Asymmetrically-switched Nonuniform Electronic Fields",
Transactions of the KSME, Vol. 33 No. 3, pp. 265-268 (March 2009)
7. Hyunjung Chu, Il Doh, and Young-Ho Cho, "A Two-dimensional Particle Focusing Channel Using the Positive
Dielectrophoresis (pDEP) Guided by a Dielectric Structure between Two Planar Electrodes", Transactions of the
KSME, Vol. 33 No. 3, pp. 261-264 (March 2009)
8. Jinho Kim, Yong Jeong,*, “Neurovascular coupling and its involvement in Alzheimer's disease”, Vascular Neurology,
vol. 1, Issue 1, pp. 38-47 (May 2009)
9. Yong Jeong,* (April 2009), “Neuroanatomical Basis of Apraxia”, Brain and Neurorehabilitation, vol. 2, Issue 1, pp. 57-
63 (April 2009)
10. Yoonkey Nam, “Neuron-on-a-Chip technology: Microelectrode Array System and Neuronal Patterning”, Journal of
Biological Engineering Research, Vol. 30, pp. 103-112 (2009)
11. Sungho Tak, Jong Chul Ye, “High resolution neuroimaging using simultaneous recording of near infrared
spectroscopy and functional MRI”, Communications of the Korean, Vol. 27, No. 4, pp. 10-16 (April 2009)
12. Kiryung Lee, Jong Chul Ye, “Compressed sensing of low-rank matrices: A brief survey on efficient algorithms”,
Journal of the Institute of Electronics Engineers of Korea-SP, Vol. 46, No. 5, pp. 15-24 (September 2009)
13. Hong Jung, Jong Chul Ye, “Compressed sensing based dynamic MR imaging: A short survey”, Journal of the Institute
of Electronics Engineers of Korea-SP, Vol. 46, No. 5, pp. 25-31 (September 2009)
14. YunKyu Choi, Seok Kim, Gwan-Su Yi, Jinah Park, “Protein Interaction Network Visualization System Combined with
Gene Ontology”, Journal of Korean Institute of Information Scientists and Engineers : Computer Systems and Theory,
Vol. 36, No. 2, pp. 60-67 (April 2009)
A.3. International Conference Papers

1. Kwang-Hyun Cho*, “Topology, Dynamics, and Emergent Properties in Biological Interaction Networks”, Proc.
Computational Systems Biology Workshop, Shanghai, China (September 2009)
2. Kwang-Hyun Cho*, “Exploring the Design Principle of Emergent Properties in Biological Systems”, Proc. 3rd Int.
Symposium on Optimization and Systems Biology (OSB2009), pp. 485-488, Zhangjiajie, China (September 2009)
3. Man-Sun Kim, Jeong-Rae Kim, and Kwang-Hyun Cho*, “A new concept of dynamic network motif in time-varying
molecular regulatory networks”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California, U.S.A.
(September 2009)
4. Ulf W.Liebal, Jeong-Rae Kim, Olaf Wolkenhauer, and Kwang-Hyun Cho*, “Dynamic behavior determines the design
strategy of metabolic regulation networks”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California,
U.S.A. (September 2009)
5. Sung-Hwan Cho, Junil Kim, and Kwang-Hyun Cho*, “Investigations into the time-varying gene regulatory network of
embryonic stem cell developments”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California, U.S.A.
(September 2009)
6. Min-Gyoung Shin, Dongsan Kim, and Kwang-Hyun Cho*, “The dynamical regulatory role of synthetic lethal paralogous
gene pairs”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California, U.S.A. (September 2009)
7. Dongsan Kim, Man-Sun Kim, Jeong-Rae Kim, and Kwang-Hyun Cho*, “Identification of condition-specific functional
modules in the signaling network of Saccharomyces cerevisiae”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009),
Stanford, California, U.S.A. (September 2009)

8. Sung-Young Shin, Tae-Hwan Kim, Sang-Mok Choo, and Kwang-Hyun Cho*, “A system-level investigation into the
feedback regulatory mechanisms of Ras-Raf-MEK-ERK signal transduction pathway”, Proc. 10th Int. Conf. on
Systems Biology (ICSB2009), Stanford, California, U.S.A (September 2009)
9. Jeong-Rae Kim, Sang-Mok Choo, and Kwang-Hyun Cho*, “Identification of gene regulatory networks with time
delays”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California, U.S.A. (September 2009)
10. Junil Kim, Minsoo Choi, and Kwang-Hyun Cho*, “The bi-phasic regulatory role of hub transcription factors in the gene
regulatory network of HepG2 cells”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford, California, U.S.A.
(September 2009)
11. Jong Hoon Lee, Sung-Young Shin, and Kwang-Hyun Cho*, “A system-level investigation into the functional role of
RKIP in the ERK and NF-kB signaling networks”, Proc. 10th Int. Conf. on Systems Biology (ICSB2009), Stanford,
California, U.S.A. (September 2009)
12. Ae Gyoung Oh, Dong Woo Lee, and Young-Ho Cho, “A Continuous Cell Separator Based on Buoyant Force in Dissimilar
Density Fluid Flows”, Proc. 23rd IEEE Inter. Conf. on Micro Electro Mechanical Systems (MEMS 2010), pp. 1023-1026,
Hong Kong, China (January 24-28, 2010)
13. Hyun-Young Choi, Won Han, and Young-Ho Cho, "Electromagnetic Flapping Shutters for Phone Camera Applications”,
Proc. 23rd IEEE Inter. Conf. on Micro Electro Mechanical Systems (MEMS 2010), pp. 11-14, Hong Kong, China (January
24-28, 2010)
14. Hye-Jin Jin, Taeyoon Kim, Young-Ho Cho, Jin-Mo Gu, Jhingook Kim, and Yong-Soo Oh, “A Multicellular Spheroid Chip
Array Using Removable Cell Trapping Barriers”, Proc. 13th Inter. Conf. on Miniaturized Systems for Chemistry and
Life Sciences ( TAS 2009), pp. 594-596, Jeju Island, Korea (November 1-5, 2009)
15. Sechan Youn, Young-Hyun Jin, and Young-Ho Cho "Electrical and Fluidic Characterization of Microfluidic Bench
Fabricated Using UV-Curable Polymer”, Proc. 13th Inter. Conf. on Miniaturized Systems for Chemistry and Life
Sciences ( TAS 2009), pp. 153-155, Jeju Island, Korea (November 1-5, 2009)
16. Dong Woo Lee, and Young-Ho Cho, “4-Bit Digital Liquid Lens for Variable Focal Length”, Proc. 7th Inter. Nanotech
Symposium & Exhibition in Korea 2009 (NANO KOREA 2009), CD.PNE053, Ilsan, Korea (August 26-28, 2009)
17. Yoonji Kim, Sechan Youn, Won Han, Young-Ho Cho, HoJoon Park, ByeungGyu Chang, and YongSoo Oh, “3D
Microstructures Fabricated by Multi-step Electrochemical Etching of Aluminum Sheet”, Proc. 7th Inter. Nanotech
Symposium & Exhibition in Korea 2009 (NANO KOREA 2009), CD.PTM019, Ilsan, Korea (August 26-28, 2009)
18. Yoonji Kim, Sechan Youn, Won Han, Young-Ho Cho, HoJoon Park, ByeungGyu Chang, and YongSoo Oh, “Three-
Dimensional Microstructures Fabricated by Multi-step Electrochemical Etching of Aluminum Sheet”, Proc. 15th Inter.
Conf. on Solid-State Sensors, Actuators and Microsystems (Transducers 2009), pp. 1059-1062, Denver, U.S.A. (June
21-25, 2009)
19. Dong Woo Lee, and Young-Ho Cho, “A Digital Dilution Chip Using the Selective Control of Inter-well Valves", Proc. 15th
Inter. Conf. on Solid-State Sensors, Actuators and Microsystems (Transducers 2009), pp. 1269-1272, Denver, U.S.A.
(June 21-25, 2009)
20. Il Doh, and Young-Ho Cho, “Passive Flow-Rate Regulators Using the Parallel Membrane Valves Rectifying Dynamic
Inlet Pressure”, Proc. 15th Inter. Conf. on Solid-State Sensors, Actuators and Microsystems (Transducers 2009), pp.
2278-2281, Denver, U.S.A. (June 21-25, 2009)
21. Dong Woo Lee, and Young-Ho Cho, “4-Bit Digital Liquid Lens for Variable Focal Length”, Proc. 15th Inter. Conf. on
Solid-State Sensors, Actuators and Microsystems (Transducers 2009), pp. 2306-2309, Denver, U.S.A. (June 21-25, 2009)

22. Dong Woo Lee, and Young-Ho Cho, “A Quaternary Microfluidic Multiplexer Using Dynamic Control of Pressure Valves
Having Different Thresholds”, Proc. 15th Inter. Conf. on Solid-State Sensors, Actuators and Microsystems
(Transducers 2009), pp. 433-436, Denver, U.S.A. (June 21-25, 2009)
23. Young-Ho Cho “Micro/Nano Technology in Korea”, Proc. 15th World Micromachine Summit, Edmonton, Alberta,
Canada (May 5-8, 2009)
24. Dong Woo Lee, and Young-Ho Cho, “A Digital Dilution Chip Using the Selective Control of Inter-well Valves”, Proc. 11th
Korean MEMS, pp. 339-340, Jeju Island, Korea (April 2-4, 2009)
25. Dong Woo Lee, and Young-Ho Cho, “4-Bit Digital Liquid Lens for Variable Focal Length”, Proc. 11th Korean MEMS, pp.
315-316, Jeju Island, Korea (April 2-4, 2009)
26. Il Doh, and Young-Ho Cho, “A Passive Flow-Rate Regulator Using the Parallel Membrane Valves Rectifying Dynamic
Inlet Pressure”, Proc. 11th Korean MEMS, pp. 287-288, Jeju Island, Korea (April 2-4, 2009)
27. Yoonji Kim, Sechan Youn, Won Han, Young-Ho Cho, HoJoon Park, ByeungGyu Chang, and YongSoo Oh, "Three-
Dimensional Microstructures Fabricated by Multi-step Electrochemical Aluminum-foil Etching”, Proc. 11th Korean
MEMS, pp. 55-56, Jeju Island, Korea (April 2-4, 2009)
28. Taeyun Ku, Chulhee Choi, “Cerebral blood flow imaging using time-series analysis of indocyanine green molecular
dynamics in mice”, Photonics West, San Francisco, CA, USA (January 23, 2010)
29. Yujung Kang, Chulhee Choi, “Assessment of peripheral tissue perfusion by optical dynamic fluorescence imaging and
nonlinear regression modeling”, Photonics West, San Francisco, CA, USA (January 24 2010)
30. Myeonghwan Choi, Chulhee Choi, “Label-free Optical Control Of Arterial Contraction”, Photonics West, San Francisco,
CA, USA (January 24 2010)
31. Jonghee Yun, Chulhee Choi, “Optical Modulation of Smooth Muscle Cell Contraction”, Photonics West, San Francisco,
CA, USA (January 24 2010)
32. Kyungsun Choi, Chulhee Choi, “Involvement of PKC-deata and NOX4 in reactive oxygen species-mediated tumor
resistance to TRAIL-induced cell death”, AACR special conference on cell death mechanisms and cancer therapy, San
Deigo, CA, USA (February 1, 2010)
33. Junsung Park, Chulhee Choi, “Smad-dependent expression of MKP1 contributes tumor resistance to death receptor-
mediated cell death”, Keystone Symposium on Molecular and Cellular Biology of Immune Escape in Cancer,
Keystone, CO, USA (February 7, 2010)
34. Kyungsun Choi, Chulhee Choi, “Involvement of PKC-delta and NOX4 in Reactive Oxygen Species-Mediated Tumor
Resistance to Death Receptor-induced Apoptosis”, Keystone Symposium on Molecular and Cellular Biology of
Immune Escape in Cancer, Keystone, CO, USA (February 7, 2010)
35. Jaeseung Jeong, Seongmin Park, Soyeong Jeong*, “The influence of investigative TV report on viewers’ cooperative
and free-riding behaviors in public goods game”, The Neuroscience 2009, pp. 17-21, IL, USA (October 2009)
36. Jaeseung Jeong, J. Dauwels, F. Vialatte, C. Latchoumane, A. Cichocki,*, “Loss of EEG synchrony in early-stage AD
patients: a study with multiple synchrony measures and multiple EEG data sets”, IEEE EMBS 2009, pp. 2-6, innesota,
USA (September 2009)
37. Jaeseung Jeong, W.H. Shim, Y.W. Chae, K.Y. Baek, Bruce Rosen and Y.R. Kim*, “Comparison between BOLD and CBV
Fluctuations using Partial Directed Coherence in Rat Brains during Rest”, Brain & BrainPET 2009, pp. 29-3, Chicago,
USA (June/July 2009)
38. Dongmin Keum, Ki-Hun Jeong, Optical characterization of planar afocal apposition eye, Photonics Conference 2009.

39. Hyunchul Park, Ki-Hun Jeong, MEMS based Two Dimensional Lens Scanning for Miniaturized Optical Scanning
System, Photonics Conference 2009.
40. Youngjae Oh, Sang-Gil Park, Yongje Choi, Hyukjin Jung, Yoonkey Nam, Junhyuk Choi, Ki-Hun Jeong, Nanoplasmonic
Ensemble Based Nanofluidic Networks For High Sensitive Surface Enhanced Raman Scattering, TAS 2009.
41. Sang-Gil Park, Youngje Oh, Yong Jeong, and Ki-Hun Jeong, Neurochemical Detection through Biocompatible Surface
Enhanced Raman Scattering Biopatch, BIOCHIP Conference(Fall) 2009
42. Youngjae Oh, Yongjae Choi, and Ki-Hun Jeong, Selectively Patterned Metal Nanoisland Arrays for Highly Sensitive
Plasmonic Biosensor , BIOCHIP Conference(Fall) 2009
43. Ki-Hun Jeong, Hyukjin Jung, Sunki Chae, Jaejun Kim and Dongmin Keum, Biologically Inspired Optical Structures for
Wide Field-of-View Imaging and Wide Angle Illumination, IEEE Optical MEMS and Nanophotonics 2009 (Invited)
44. Dongmin Keum and Ki-Hun Jeong, Direct visualization of light propagation inside a planar artificial compound eye
using a Rhodamine 6G doped photosensitive polymer resin, Clearwater Beach, USA, IEEE Optical MEMS and
Nanophotonics 2009.
45. Hyukjin Jung, Dongmin Keum, Ki-Hun Jeong, Laser Induced Self-aligned Microlens and Waveguide Arrays Using a
Self-writing Process in a Photosensitive Polymer Resin, Denver, USA, Transducers 2009.
46. Sunki Chae, Jaejun Kim, Ki-Hun Jeong, Concave Micropatterned Complex Optical Surfaces for Wide Angular
Illumination, Denver, USA, Transducers 2009.
47. Youngjae Oh, Sang-gil. Park, Dalhee Min, and Ki-Hun Jeong, Biocompatible Surface Enhanced Raman Scattering
Substrate based on Agarose hydrogel, BIOCHIP Conference (Spring) 2009, Best Poster award.
48. Jinho Kim, Yong Jeong*, “In vivo brain imaging of Alzheimer's disease and other dementia”, International Symposium
on Early Detection and Rehabilitation Technology of Dementia, pp. 21-23, Okayama, Japan (December 2009)
49. Sang-Gil Park, Young-Jae Oh, Hyukjin Jung, Jae-jun Kim, Dalhee Min, Yong Jeong, Ki-Hun Jeong*, “Neurochemical
Detection through Biocompatible Surface Enhanced Raman Scattering Biopatch”, Annual Fall Meeting of the Korean
Biochip Society. p.0, Seoul, Koare (October 2009)
50. Yong Jeong, William Sohn*, “Default mode network and other intrinsic network mapping using resting fMRI and their
implications”, Annual meeting of Korean Neurological Association. p. 13, Goyang, Korea (October 2009)
51. Kwangsun Yoo, Sungho Tak, Sujin Yoon, Jong Chul Ye, Jeong Y.*, “Annual meeting of Korean Neurological
Association”, p. 91, Goyang, Korea (October 2009)
52. Jinho Kim, Yong Jeong.* (2009), “Measurement of vascular function in mice brain using two-photon laser scanning
microscopy”, The 4th Asian and Pacific Rim Symposium on Biophotonics, p. 0, Jeju, Korea (May 2009)
53. C. Jeong, D. Kim*, “Linear predictive coding representation of correlated mutation for protein sequence alignment”,
DTMBIO2009 (2009)
54. I, Jung, D. Kim*, “PostNet: Inferring post-translational modification network for multi-target drug developmen”,
Biopathways Meeting (2009)
55. Namhoon Kim, Gyeong-Hwan Yoon, Doheon Lee, Intelligent Navigation and Control of an Autonomous Underwater
Vehicle based on Q-Learning and Self-organizing Control, ICCAS-SICE2009, Fukuoka, Japan (August 18-21, 2009)
56. Eunjung Lee, Taewoo Ryu, Hyundae Choi, Doheon Lee, Kwang Hyung Lee, Building a Genome-Scale Transcriptional
Regulatory Network in Human, ISIS2009, Busan, Korea (August 17-19, 2009)

57. Sejoon Lee, Eunjung Lee, Doheon Lee, Kwang H. Lee, Disease Classification Based on the Activities of Interacting
Molecular Modules with Condition-Responsive Correlation, BIBM2009, Washington, USA (November 1-4, 2009)
58. Sejoon Lee, Eunjung Lee, Kwang H. Lee, Doheon Lee, Disease Classification Based on the Activities of Interacting
Molecular Modules with Condition-Responsive Correlation, BIMB2009, pp154-159, Washington (November 2009)
59. Eunjung Lee, Taewoo Ryu, Hyundai Choi, Doheon Lee, Kwang H. Lee, Building a Genome-Scale Transcriptional
Regulatory Network in Human, 10th ISIS, pp. 230-233, Busan (November 2009)
60. Youn-Suk Choi, Hong-Bae Kim, Seung Hoon Kim, Jaekyu Choi, Je-Kyun Park, “Biomedical microdevice for analyzing
the effect of electrochemotherapy on cancer cells”, Proceedings of the 15th International Conference on Solid-state
Sensors, Actuators and Microsystems, pp. 2358-2361, Denver, USA (June 21-25, 2009)
61. W. Lee, V. K. Lee, S. Polio, K. Fischer, J. -H. Lee, J. -K. Park, S. -S. Yoo, “Three-dimensional cell-hydrogel printer
using electromechanical microvalve for tissue engineering”, Proceedings of the 15th International Conference on
Solid-state Sensors, Actuators and Microsystems, pp. 2230-2233, Denver, USA (June 21-25, 2009)
62. Hyundoo Hwang, Je-Kyun Park, “Dynamic control of local molecular concentration using optoelectrofluidic
fluorescence microscopy”, Proceedings of the 15th International Conference on Solid-state Sensors, Actuators and
Microsystems, , pp. 2143-2146, Denver, USA (June 21-25, 2009)
63. Yu Chang Kim, Seung-Hoon Kim, Pil Woo Heo, Je-Kyun Park, “A power-free blood plasma extraction device based on
planar crossflow filter microstructure”, Proceedings of the 15th International Conference on Solid-state Sensors,
Actuators and Microsystems, pp. 920-923, Denver, USA (June 21-25, 2009)
64. Minseok S. Kim, Eunsook Lee, Chul Hwan Kim, Chae Yun Bae, Sun Young Kong, Je-Kyun Park, Nanoparticle based
Surface Enhanced Raman Scattering for Neurotransmitter Detection”, Proceedings of uTAS 2009 Conference, Vol. 2,
pp. 1973-1975, Jeju Island, Korea (November 1-5, 2009)
65. Hyundoo Hwang, Je-Kyun Park, “Diffusion measurement of biomolecules using rapid generation of black hole in a
molecular solution by optoelectrofluidics”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 936-938, Jeju Island,
Korea (November 1-5, 2009)
66. Hyundoo Hwang, Youn-Hee Park, Je-Kyun Park, “Dynamic control of self-assembled colloidal crystals using optically-
induced nonlinear electrokinetics”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 926-928, Jeju Island, Korea
(November 1-5, 2009)
67. Ju Hun Yeon, Je-Kyun Park, “Hepatotoxicity assay system using suspended human hepatocytes trapped in microholes
of a microfluidic device”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 597-599, Jeju Island, Korea (November 1-5,
2009)
68. Chae Yun Bae, Minseok S. Kim, Gabbine Wee, Yong-Mahn Han, Je-Kyun Park, “A microfluidic in vitro cultivation
system to mimic event of in vivo oviductal peristalsis”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 567-569, Jeju
Island, Korea (November 1-5, 2009)
69. Myung Gwon Lee, Sungyoung Choi, Je-Kyun Park, “Inertial size separation of micro- and nano-particles in a
contraction-expansion array microchannel”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 113-115, Jeju Island,
70. Do-Hyun Lee, Hyundoo Hwang, Je-Kyun Park, “Droplet manipulation using optically-induced dielectrophoresis in a
channel-integrated optoelectronic tweezers”, Proceedings of uTAS 2009 Conference, Vol. 1, pp. 88-90, Jeju Island,

71. Jaeduck Jang, Chae Yun Bae, Je-Kyun Park, Jong Chul Ye, “Self-reference extended depth-of field quantitative phase
microscopy”, Proc. SPIE Photonic West BIOS, Vol. 7570, San Francisco, USA (January 2010)
72. Kyung Hwan Jin, Kanghee Lee, Ok Kyun Lee, Jong Chul Ye, “Compressive inverse scattering using ultrashort pulses”,
Proc. SPIE IS & T Electronic Imaging, Vol. 7533, San Jose, USA (January 2010)
73. Kyung Hwan Jin, Ok Kyun Lee, Jong Chul Ye, “Compressed sensing pulse-echo mode THz tomography”, IEEE
International Conference on Infrared, Millimeter, and Terahertz Waves, Busan, South Korea (September 2009)
74. Kwang Eun Jang, Jong Chul Ye, “Single channel exact 3-D blind image deconvolution from cylindrically symmetric
blur kernel “, IEEE Engineering in Medicine and Biology Society, Minnesota, USA (September 2009)
75. Jiyoung Choi, Minwoo Kim, Won Seong, Jong Chul Ye, “Compressed sensing metal artifact removal in dental CT”,
IEEE International Symposium on Biomedical Imaging, Boston, USA (June/July 2009)
76. Hong Jung, Jong Chul Ye, “Performance evaluation of accelerated functional MRI acquisition using compressed
sensing”, IEEE International Symposium on Biomedical Imaging, Boston, USA (June/July 2009)
77. Minwoo Kim, Jong Chul Ye, “Ab Initio Maximum Likelihood Reconstruction of Helical Macromolecules using Electron
Microscopy”, IEEE International Symposium on Biomedical Imaging, Boston, USA (June/July 2009)
78. Jong Chul Ye, Sungho Tak, “Quantitative imaging of neurohemodynamics using NIRS-SPM”, Asian and Pacific Rim
Symposium on Biophotonics, Jeju Island, Korea (May 2009)
79. Sungho Tak, Jong Chul Ye, “Quantification of CMRO2 and CBF using simultaneous NIRS and fMRI”, International
Society for Magnetic Resonance in Medicine, Hawaii, USA (April 2009)
80. Hong Jung, Jong Chul Ye, “Motion estimated and compensated compressive sensing dynamic MRI under field
inhomogeneity”, International Society for Magnetic Resonance in Medicine, Hawaii, USA (May 2009)
81. Jong Chul Ye, “Sensing for Bio-Imaging Applications (Invited Talk)”, International Forum on Medical Imaging in Asia,
Taipei, Taiwan (January 2009)
82. Youngwoong Han, Choong-Hyun Sun, Min-Sung Kim, Gwan-Su Yi, “Combined database system for binary protein
interaction and co-complex association”, 2009 International Association of Computer Science and Information
Technology - Spring Conference, IACSIT-SC 2009, pp. 538-542, Singapore (April 17-20, 2009)
83. Min-Sung Kim, Taeho Hwang, Youngwoong Han, Gwan-Su Yi, “Application Oriented Grid Job Management System for
Sequence Alignmnet”, 2009 International Association of Computer Science and Information Technology - Spring
Conference, IACSIT-SC 2009, pp. 533-537, Singapore (April 17-20, 2009)
84. Youngrae Kim, Hodong Lee, Gwan-Su Yi, “Literature mining for protein acetylation”, The 3rd International Symposium
on Languages in Biology and Medicine, Proceedings of the 3rd International Symposium on Languages in Biology and
Medecine, pp. 135-136, Jeju, Korea (November 8-10, 2009)
A.4. Book Chapter

1. Kwang-Hyun Cho et al., “Systems Biology”, The fusion of technology, Godswin, pp. 133-141 (2010)
2. Alexander G. Fletcher, Gary R. Mirams,Philip J. Murray, Alex Walter, Jun-Won Kang, Kwang-Hyun Cho*, Philip K.
Maini, and Helen M., “Multiscale modeling of colonic crypts and early colorectal cancer”, Multiscale Cancer Modeling
('Mathematical and Computational Biology' Series), Chapman & Hall CRC, USA (2009)
3. Sung-Young Shin, Sang-Mok Choo, Tae-Hwan Kim, and Kwang-Hyun Cho*, “In Silico Analysis of Combined
Therapeutic Strategy for Heart Failure”, Elements of Computational Systems Biology, John Wiley & Sons, Inc., New
Jersey, U.S.A., pp. 49-82 (2010)

4. Peter Wellstead, Sree Sreenath, Kwang-Hyun Cho*, and Olaf Wolkenhauer, “Systems and Control Theory for Medical
Systems Biology”, Handbook of Research on Systems Biology Applications in Medicine, Idea Group Inc. (IGI Global),
London, U.K. & Hershey, PA, U.S.A., Vol. 1, pp. 11-26 (2009)
5. 조영호 외 16인,“Chap.3. 자동차에서 빌딩까지, 피할 수 없는 기술트렌드 : 기계기술의 융복합화 - 시장은 지금 경
기중”
, 진화하는 테크놀로지, 생각의 나무, pp. 240-253 (2009)
6. Kyungsun Choi, Jungsul Lee, Chulhee Choi, “Role of ubiquitination on proinflammatory cytokine signaling in the
central nervous system”, Worzic, In Press., Role of the ubiquitin-proteasome pathway in the central nervous sytems,
Nova Science Publishers; 1edition, pp. 552 (2009)
7. Yong Jeong, Introduction of Bioelectronics, CMOS Bio-Medical IC Design, Springer.
8. Minseok S. Kim, Wonhye Lee, Je-Kyun Park, “Nanobiotechnology for stem cell culture and maintenance”, Emerging
Technology Platforms for Stem Cells, John Wiley & Sons, Inc. pp. 291-310 (2009)
9. Sungyoung Choi, Je-Kyun Park, "Hydrophoretic method for continuous blood cell separation", Lab-on-a-Chip
Technology: Biomolecular Separation and Analysis, Caister Academic Press, pp. 45-55 (2009)
10. Joo H. Kang, Young Ki Hahn, Kyu Sung Kim, Je-Kyun Park, "Magnetophoretic biosensing and separation using
magnetic nanomaterials", Magnetic Nanomaterials. Nanomaterials for the Life Sciences Vol. 4, Wiley-VCH, pp. 77-118
(2009)
B. International and Domestic Patens
B.1. Issued Patents

1. Young-Ho Cho, Dong Woo Lee, "Device for Parallel Digital Valve Array Using Control Fluid and Method thereof", Korea,
10-0945430 (February 25, 2010)
2. Young-Ho Cho, Dong Woo Lee, "High Radix Microfluidic Multiplexer Using Valves of Different Operating Pressure",
Korea, 10-0931302 (December 3, 2009)
3. Young-Ho Cho, Hyunjung Chu, Il Doh, “Device for Focusing and Separating Micro Particles”, Korea, 10-0899138 (May
18, 2009)
4. Ki-Hun Jeong, Sunki Chae, J. Kim, H. Jung, Micro-composite Pattern Lens and method for manufacturing same, PCT
KR2009/005375, 2009 (September 22, 2009)
5. Je-Kyun Park, Minseok S. Kim, Chae Yun Bae, Gabbine Wee, Jeongmin Lee, Yong-Mahn Han, Younghoon Lee,
“Enucleation system of oocyte or ovum which based on microfluid mechanics”, Korean Patent Issued No. 10-0891487
(March 26, 2009)
6. Je-Kyun Park, Seung-Hoon Kim, “Apparatus and method for droplet actuation”, Korean Patent Issued No. 10-0892905
(April 3, 2009)
7. Je-Kyun Park, Joo Hun Kang, Sungyoung Choi, Wonhye Lee, “Isomagnetophoresis for determination of magnetic
susceptibility of the particles, separation of particles and the method for fabricating the same”, Korean Patent Issued
No. 10-0907213 (July 3, 2009)
8. Je-Kyun Park, Hyundoo Hwang, “Apparatus for Optoelectronic Microparticle Manipulation of Integrating Each
Electrode”, Korean Patent Issued No. 10-0921561 (October 6, 2009)

9. Je-Kyun Park, Myung Gwon Lee, Sungyoung Choi, “Apparatus for Filtering Micro-particles”, Korean Patent Issued No.
10-0921562 (October 6, 2009)
10. Je-Kyun Park, Hyundoo Hwang, Do-Hyun Lee, “Microfluidic Chip for Microparticle Focusing and Sorting in Slanted
Substrate”, Korean Patent Issued No. 10-0931303 (December 3, 2009)
11. Je-Kyun Park, Myung Gwon Lee, Sungyoung Choi, “Apparatus for mixing micro-fluids”, Korean Patent Issued No. 10-
0931983 (December 7, 2009)
12. Je-Kyun Park, Minseok S. Kim, Chae Yun Bae, Gabbine Wee, Jeongmin Lee, Yong-Mahn Han, Younghoon Lee,
“Fertilized egg or ovum culture system which mimics physical and biological features of oviduct based on microfluid
mechanics”, Korean Patent Issued No. 10-0936276 (January 4, 2010)
13. Yu Chang Kim, Je-Kyun Park, Sang-Jin Park, Pil Woo Heo, “Device and method for discriminating between cancerous
and normal cells”, Korean Patent Issued No. 10-0940099 (January 26, 2010)
14. Je-Kyun Park, Seung-Hoon Kim, “Apparatus and method for light-controlled microfluidic processing”, Korean Patent
Issued No. 10-0944489 (February 19, 2010)
15. Gwan-Su Yi, Jinki Kim, Minsung Kim, Choong-Hyun Sun, System and Method for the Prediction of Type-II Polyketide
Synthase and their Polyketide Based on Microbial Genome Analysis, Korea, 10-0920782-00-00 (September, 30, 2009)
B.2. Pending Patents

1. Kwang-Hyun Cho*, Seokhwan Kim, Sung Hoon Jung, Hyunho Chu, “Self-repairing electronic circuit system and self-
repairing method by mimicking cell differentiation”, Korea pending patent No. 10-2009-0115787 (November 27, 2009)
2. Young-Ho Cho, Dong Woo Lee, Taeyoon Kim, Yong Soo Oh, Sang Jin Kim, Bo Sung Ku, "Cell Cultivation Device and Cell
Cultivation Apparatus Comprising the Same", Korea, 10-2010-0018161 (February 26, 2010)
3. Young-Ho Cho, Won Han, "Electromagnetic Flapping Actuator”, Korea, 10-2009-0130822 (December 24, 2009)
4. Young-Ho Cho, Dong Woo Lee, "Apparatus for Processing a Sample and Method of Processing a Sample", Korea, 10-
2009-0115798 (November 27, 2009)
5. Young-Ho Cho, Taeyoon Kim, Yong Soo Oh, Sang Jin Kim, Bo Sung Ku, Sung Koo Kang, "Device and System for
Measuring Properties of Cells and Method of Measuring Properties of Cells Using the Same", Korea, 10-2009-0054405
(June 18, 2009)
6. Young-Ho Cho, Taeyoon Kim, Yong Soo Oh, Sang Jin Kim, Bo Sung Ku, Sung Koo Kang, "Droplet Receiver and a
Method of Receiving Droplets”, Korea, 10-2009-0054403 (June 18, 2009)
7. Young-Ho Cho, Hye-Jin Jin, Yong Soo Oh, Sang Jin Kim, Bo Sung Ku, Sung Koo Kang, "Device and System for
Culturing Cells and Method of Culturing Cells Using the Same", Korea, 10-2009-0050314 (June 8, 2009)
8. Young-Ho Cho, Won Han, “Resonant Tilting Actuator and Resonant Tilting Actuator Array having the Same”, Korea,
10-2009-0044352 (May 21, 2009)
9. Young-Ho Cho, Se Chan Youn, “Tactile Information Transceiver and Method of Inputting and Outputting Tactile
Information Using the Same”, Korea, 10-2009-0031243 (April 10, 2009)
10. Young-Ho Cho, Yong Soo Oh, Dong Myung Lee, Sang Jin Kim, Sung Koo Kang, Chang Yong Lee, “SEMCELL” Korea 40-
2009-0004536 (March 6, 2009)
11. Young-Ho Cho, Yong Soo Oh, Dong Myung Lee, Sang Jin Kim, Sung Koo Kang, Chang Yong Lee, "SEMCELL” Korea 40-
2009-0010218 (March 6, 2009)

2009-0010217 (March 6, 2009)
2009-0010216 (March 6, 2009)
14. Chulhee Choi, Myeonghwan Choi, “Controller for vascular permeability using pulsed laser and method for controlling
of vascular permeability using the same”, Korea, 10-2009-0126311 (December 17, 2009)
15. Chulhee Choi, Yujung kang, “Apparatus for measuring of endothelial function and method for the same”, Korea, 10-
2009-0105133 (November 2, 2009)
16. Chulhee Choi, Myeonghwan Choi, Yun J, “Optical Control of Smooth Muscle Contraction”, Korea, 10-2009-0092294
(September 29, 2009)
17. Chulhee Choi, Yujung kang, Jungsul Lee, “Measurement apparatus for perfusion rate in peripheral tissue and method
for the same”, Korea, 10-2009-006194 (July 7, 2009)
18. Chulhee Choi, Kyungsun Choi, “A method for treating and preventing cancer by combined treatment of ginsenosides
and death receptor ligand”, Korea, 10-2009-0025777 (March 26, 2009)
19. Sangwon Kang, Chulhee Choi, Kwon K, Kang DW, “A Composition for the coating of a stent for the prevention of a
restenosis and the stent manufactured using the same”, Korea, 10-2009-0021568 (March 13, 2009)
20. Kyongsik Yun, Jaeseung Jeong, Dongil Chung(KAIST), EEG analysis device, EEG device, brain-brain interface device
and lie-detector using the same, and EEG analysis method, Korea No., 10-2009-0115624 (November 27, 2009)
21. Ki-Hun Jeong, Dongmin Keum, Biomimetic Micro Optical Sensor System and manufacturing method of the Same,
KR10-2009-0086359 (September 29, 2009)
22. Ki-Hun Jeong, Sunki Chae, J. Kim, H. Jung, Micro-composite Pattern Lens and method for manufacturing same, PCT
KR2009/005375, 2009 (September 22, 2009)
23. Ki-Hun Jeong, Youngjae Oh, Sanggil Park, Board for Surface Enhanced Raman Scattering With Nanochannel and
Method in Using the Same, KR10-2009-0086359, (September 14, 2009)
24. Ki-Hun Jeong, Sanggil Park, Youngjae Oh, Manufacturing Method for Surface Enhanced Raman Scattering Patch With
Biocompatibility Using Hydrogel and Surface Enhanced Raman Scattering Method in Using the Patch, KR10-2009-
0085431, (September 14, 2009)
25. Ki-Hun Jeong, Hyunchul Park, Optical bench for moving 2-dimension and light scanning apparatus using the same,
Korea Patent 10-2009-0057700, (June 26, 2009)
26. Ki-Hun Jeong, Yongje Choi, Ultrasensitive Terahertz photoconductive antenna using metal pattern arrays and method
for the same, Korea Patent 10-2009-0046469, (May 27, 2009)
27. Ki-Hun Jeong, Dongmin Keum, Hyukjin Jung, Fabrication of Polymer Waveguides, Korea patent 10-2009-0033962,
(April 20, 2009)
28. Doheon Lee, Bongchul Jung, Hojung Nam, Marker for diagnosis of papillary thyroid cancer comprising 3-
indoleacetonitrile, 10-2009-0059270 (June 30, 2009)
29.“폐수를 이용한 수압펌프식 양변기시스템 및 그 작동방법”임춘택 이광형, 10-2009-0073138 (2009)
30. Je-Kyun Park, Youn-Suk Choi, “Apparatus and method for analyzing the effect of electroporation on cells using
microdevice”, Korean Patent Pending No. 10-2009-0018469 (March 4, 2009)

31. Hak-Sung Kim, Zongwen Jin, Je-Kyun Park, Young Ki Hahn, “Magnetophoretic assay of biomolecules using magnetic
nanocluster”, Korean Patent Pending No. 10-2009-0045363 (May 25, 2009)
32. Je-Kyun Park, Myung Gwon Lee, Sungyoung Choi, “Multi function microfluidic flow control apparatus and multi
function microfluidic flow control method”, Korean Patent Pending No. 10-2009-0062619 (July 9, 2009)
33. Je-Kyun Park, Ju Hun Yeon, Hyundoo Hwang, “Micro Device for Trapping Microparticle and Method Therefor”, Korean
Patent Pending No. 10-2009-0065417 (July 17, 2009)
34. Je-Kyun Park, Ju Hun Yeon, Hyundoo Hwang, “Microfluidic device of capturing particles and method of capturing
particles using it”, Korean Patent Pending No. 10-2009-0066811 (July 22, 2009)
35. Je-Kyun Park, Hyundoo Hwang, “Apparatus for Measuring Diffusion Coefficient and Method Thereof”, Korean Patent
Pending No. 10-2009-0067363 (July 23, 2009)
36. Je-Kyun Park, Minseok S. Kim, “Method of apparatus alignment for tissue samples”, Korean Patent Pending No. 10-
2009-0089412 (September 22, 2009)
37. Je-Kyun Park, Minseok S. Kim, “Method for multiple immunoassays”, Korean Patent Pending No. (September 24,
2009)
38. Je-Kyun Park, Minseok S. Kim, “Apparatus and Method for integrating elastomer and plastomer using the same”,
Korean Patent Pending No. 10-2009-0090444 (September 24,, 2009)
39. Je-Kyun Park, Minseok S. Kim, “Method for displaying reactiion area of apparatus for multiple immunoassays”,
Korean Patent Pending No. 10-2009-0090443 (September 24, 2009)
40. Je-Kyun Park, Minseok S. Kim, “Construction of reaction channels of apparatus for immunoassays and Apparatus for
multiple immunoassays having the same”, Korean Patent Pending No. 10-2009-0090442 (September 24, 2009)
41. Je-Kyun Park, Sungyoung Choi, Myung Gwon Lee, “Apparatus and method for measuring flow characteristics”,
Korean Patent Pending No. 10-2009-0104958 (November 2, 2009)
42. Je-Kyun Park, Do-Hyun Lee, Hyundoo Hwang, “Optoelectrofluidic device integrated with microfluidic channels and
droplet manipulation thereof”, Korean Patent Pending No. 10-2009-0131264 (December 24, 2009)
43. Jong Chul Ye, Jae Wook Ahn, Kang Hee Lee, Kyung Hwan Jin (KAIST), “Teraherz time domain spectral appatatus and
image processing method for reducing sampling number”, Korean Patent Pending No. 10-2009-0114557 (November
25, 2009)
44. Jong Chul Ye, Jiyoung Choi, Chang Joon Ro (EWOO Inc.), “Compressed sensing metal artifact removal in dental CT”,
Korea Patent Pending No. 10-2009-0076902 (Augusut 19, 2009)
45. Jong Chul Ye, Sungho Tak (KAIST), “System and method for estimating cerebral blood flow and oxidative metabolism
without hypercapnia using simultaneous measurements of near infrared spectroscopy and functional magnetic
resonance imaging”, Korea Patent Pending No. 10-2009-0065468 (July 17, 2009)
46. Jong Chul Ye, Kyung Hwan Jin(KAIST), “Image reconstruction system in three-dimensional space using Teraherz
pulse-echo and method thereof”, Korea Patent Pending No. 10-2009-0042488 (May 15, 2009)

http://bioeng.kaist.ac.kr
Department of
Bio and Brain
Engineering

2009 2010 Annual Report-Compressed

Uploaded by

Document Information

Original Title

Copyright

Available Formats

Share this document

Share or Embed Document

Sharing Options

Did you find this document useful?

Is this content inappropriate?

Copyright:

Available Formats

2009 2010 Annual Report-Compressed

Uploaded by

Copyright:

Available Formats

2009/2010

6. Student Activities 115

It is our mission at the Department of Bio and Brain Engineering to

The Department of Bio and Brain Engineering discovers new

Examples of the technology we want to develop:

“The 21st century is the era of bio revolution.”

6 2009 | 2010 Annual Report

Statue of Moon-Soul Chung inside of The Chung Moon Soul Building

Opening of the BioSystems Department

1.3. Mission Statement

Bio and Brain Engineering 7

July 19, 2001 Agreement between Chairman Moon Soul Chung

No. Name Laboratory

1.4.1.2 Affiliated Faculties

No. Name Laboratory

8 2009 | 2010 Annual Report

1.4.1.3 Distinguished Visiting Professors

No. Name Laboratory

1.4.1.4 Adjunct Faculties

No. Name Laboratory

Bio and Brain Engineering 9

1.4.3. International Collaboration Faculty

1.4.4. International Advisory Board

10 2009 | 2010 Annual Report

2.1. Department Regular Seminars 12

2.1. Department Regular Seminars

2.1.1. 2009 Spring Semester

12 2009 | 2010 Annual Report

Bio and Brain Engineering 13

14 2009 | 2010 Annual Report

Bio and Brain Engineering 15

2.4. Conferences and Meetings

16 2009 | 2010 Annual Report

Bio and Brain Engineering 17

2.4.3. The 1st Optical BioImaging Center-Viewworks Joint Workshop

18 2009 | 2010 Annual Report

2.5.1. Department Commencement Ceremony (Feb. 26, 2010)

Bio and Brain Engineering 19

3.1. Undergraduate Program 21

3.1.1 Graduation Credits

General Courses Basic Courses Major Courses Elective

3.1.2 General Course Requirements: At least 27 credits and 9AU

3.1.3 Basic Course Requirements: at least 32 credits

Bio and Brain Engineering 21

Elective Basic Courses: at least 6 credits (MAS109, MAS201)

3.1.4. Major Course Requirements: at least 42 credits

3.1.5. Elective Course Requirements

3.1.6. Research Course Requirements: at most 7 credits

3.1.7. English Proficiency Requirements for Graduation

3.1.8. Minor and Double Major

Mandatory BiS200 Bioengineering Fundamentals 3:0:3(6) Spring

22 2009 | 2010 Annual Report

BiS202 Cell Biology 3:0:3(4) Fall

BiS490 Graduation Research 0:6:3

Bio and Brain Engineering 23

3.1.10. Description of Courses

BiS202 Cell Biology

BiS221 General Biochemistry

BiS222 Molecular & Cellular Biology

BiS223 Physical Principles in Biological Systems

BiS225 Anatomy & Physiology

BiS232 Bio-Data Structures

BiS252 Bioinstrumentation Fundamentals