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A VITAL ROLE OF PHARMACOINFORMATICS

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ISSN: 2230-7346
Suresh Rewar et al. / JGTPS / 6(2)-(2015) 2562– 2571 (Review Article)

Journal of Global Trends in Pharmaceutical Sciences

Journal home page: www.jgtps.com

A VITAL ROLE OF PHARMACOINFORMATICS

ABSTRACT

The rapid growth of the internet and the World Wide Web has led to the
development of pharmacoinformatics technologies to assist oncology healthcare
professionals in delivering optimum pharmaceutical care and health related
Suresh Rewar* outcomes. There is an increasing recognition that information technology can be
effectively used for drug discovery. The work in pharmacoinformatics can be
Department of Pharmaceutics, broadly divided into two categories - scientific aspects and service aspects. The
Rajasthan University of Health scientific component deals with the drug discovery and development activities,
Sciences, Jaipur, Rajasthan, whereas the service oriented aspects are more patient centric. Pharmacoinformatics
subject feeds on many emerging information technologies like neuroinformatics,
immunoinformatics, biosystem informatics, metabolomics, chemical reaction
informatics, toxicoinformatics, cancer informatics, genome informatics, proteome
informatics, biomedical informatics, The minimizing the time between a drug‘s
discovery and its delivery to the marketplace and maintaining high productivity in
the manufacturing processes. During a product‘s lifecycle many complex decisions
must be made to achieve these goals. To better support the development and
manufacturing processes at each stage, we have proposed a new epitome to
facilitate the management and transfer of data information and knowledge. In
future these information technology efforts are expected to grow both in terms of
their reliability and scope. Thus, this emerging technology (pharmacoinformatics)
is becoming an essential component of pharmaceutical sciences.
Key words: Pharmacoinformatics, Immunoinformatics, Chemoinformatics,
Bioinformatics

INTRODUCTION
Informatics and internet technologies are Pharmacoinformatics is the study,
becoming extremely popular in today’s health-care invention and effectuation of discipline where
system. The emergence of the worldwide web has technology with any aspect of drug delivery, from
affected the way in which health-related information the basic sciences to the clinical use of medications
is distributed and accessed over cyberspace. The in individuals and populations. Informatics is
internet is rapidly gaining importance, not just for commonly defined as the “use of computers to
health-care professionals, but also for patients, by manage data and information” and represents the
enabling them to search for drug-related and other nexus of people, information, and technology.
health-related information [1]. Includes pharmacy technologies involved in the
preparation, delivery, and management of
Address for correspondence medication use within health care delivery systems
[2, 3]
. Many applications of pharmacoinformatics
currently exist within the health-care sector. These
Mr. Suresh Rewar applications have important roles in helping to
Research Scholar,
reduce DRPs in the oncology setting. Studies on the
Department of Pharmaceutics,
effectiveness of support systems for clinical
Rajasthan University of Health Sciences,
decisions, e-prescribing, and drug-order entry have
Jaipur, Rajasthan, 302033
shown benefits in reducing medication errors [4-5],
Mobile No - +919468719912
and in the prevention and management of chronic
E-mail ID: sureshrewar1990@gmail.com
diseases [6].

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CLASSIFICATION OF informatics, genome informatics, proteome
PHARMACOINFORMATICS informatics, biomedical informatics are basic tools
Pharmacoinformatics is new emerging provided for the purpose of drug discovery [7].
information technologies like neuroinformatics, Shows the current statuses of the activities in
immunoinformatics, bioinformatics, Metabolomics, pharmacoinformatics are given in (fig. 1).
chemo-informatics, toxico-informatics, cancer

Figure.1: Classification of Pharmacoinformatics


1. BIOINFORMATICS: Bioinformatics is the Molecular bio-informatics: bioinformatics is
combination of biology and information conceptualizing biology in terms of molecules
technology. The discipline encompasses any (in the sense of physical chemistry) and applying
computational tools and methods used to "informatics techniques" (derived from
manage, analyze and manipulate large sets of disciplines such as applied maths, computer
biological data. Essentially, bioinformatics has science and statistics) to understand and organize
three components: the information associated with these molecules,
on a large scale. In short, bioinformatics is a
 The creation of databases, allowing the management information system for molecular
storage and management of large biology and has many practical applications [11-
12]
biological data sets. . Bioinformatics and medical informatics
(BIOMI) are multidisciplinary fields at the
 The development of algorithms and intersection of computing and informatics,
statistics to determine relationships mathematics and statistics, biology, chemistry,
among members of large data sets. and engineering [13]. Bioinformatics is the
combination of biology and information
 The use of these tools for the analysis technology. The discipline encompasses any
and interpretation of various types of computational tools and methods used to
biological data, including DNA, RNA manage, analyze and manipulate large sets of
and protein sequences, protein biological data. The National Center for
structures, gene expression profiles, and Biotechnology Information (NCBI 2001) defines
biochemical pathways [8]. Bioinformatics as “Bioinformatics is the field of
science in which biology, computer science, and
The term bioinformatics first came into use in the information technologies merge into a single
1990s and was originally synonymous with the discipline [14-15]. There are three important sub-
management and analysis of DNA, RNA and disciplines within Bioinformatics: the
protein sequence data. Computational tools for development of new algorithms and statistics
sequence analysis had been available since the with which to assess relationships among
1960s, but this was a minority interest until members of large data sets; the analysis and
advances in sequencing technology led to a rapid interpretation of various types of data including
expansion in the number of stored sequences in nucleotide and amino acid sequences, protein
databases such as GenBank. Now, the term has domains, and protein structures; and the
expanded to incorporate many other types of development and implementation of tools that
biological data, for example protein structures, enable efficient access and management of
gene expression profiles and protein interactions. different types of information [16]." Basically,
Each of these areas requires its own set of bioinformatics has three components: The
databases, algorithms and statistical methods [9- creation of databases, allowing the storage and
10]
.

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management of large biological data sets. The General Bioinformatics Web Sites: Many of
development of algorithms and statistics to the sites are offering the same sorts of links and
determine relationships among members of large many to other Bioinformatics sites; many have
data sets. The use of these tools for the analysis links to a Sequence Retrieval System or other
and interpretation of various types of biological facilities for sequence retrieval. These are
data, including DNA, RNA and protein categorized as under: Academic Sites and
sequences, protein structures, gene expression Corporate/Government Sites [18].
[11, 15]
profiles, and biochemical pathways . Access to Journals: Providing access to journals
Bioinformatics and internet: Bioinformatics is such as; Nature, Science, Molecular biology and
largely, although not exclusively, a computer- Evolution, Nucleic Acids Research,
based discipline. Computers are important in Bioinformatics.
bioinformatics for two reasons: First, many As a Centre for Biotechnology Information:
bioinformatics problems require the same task to One can explore extensive sites of resources and
be repeated millions of times. In such cases, the including newsletters, Bioinformatics databases,
ability of computers to process information and and links to the major medical bibliographic
test alternative solutions rapidly is indispensable databases. It not only connects to textual
[17]
. Second, computers are required for their databases but also to Protein Structure Servers.
problem-solving power. Typical problems that These include 3DB browser, biomolecular
might be addressed using bioinformatics could modeling and structural classification of proteins
include solving the folding pathways of protein etc [19].
given its amino acid sequence, or deducing a Searching Database:
biochemical pathway given a collection of RNA Types of Biological Databases Accessible:
expression profiles. Internet plays an important There are many different types of database but
role to retrieve the biological information. for routine sequence analysis, the following are
Bioinformatics emerging new dimension of initially the most important. Primary Database
biological science includes computer science, (Nucleic Acid Protein): EMBL, Genbank, DDBJ,
mathematics and life science. The Computational SWISS-PROT. Secondary databases: PROSITE,
part of bioinformatics use to optimize the Pfam. Composite databases: Combine different
biological problems like metabolic disorder, sources of primary databases. Example: NRDB
genetic disorders [18-19]. The Internet provides OWL [18-19].
various facilities for Bioinformatics such as; Some bioinformatics research and service
World Wide Web (WWW) Virtual Library: centers: National Center for Biotechnology
This directory, provided by Cato Research Ltd., Information (NCBI) in the USA; European
contains over 1000 URLs specific to Bioinformatics Institute (EBI) in the UK; Swiss
biotechnology, pharmaceutical development, and Institute of Bioinformatics (SIB); Australian
related fields [18]. National Genome Information Service (ANGIS);
Subject Specific Sites: These sites are more Canadian Bioinformatics Resource (CBR);
likely to concentrate on a particular area of Peking Center of Bioinformatics (CBI);
Bioinformatics. These sites are further divided Singapore Bioinformatics Centre (BIC); South-
into the various areas of Bioinformatics e.g. African National Bioinformatics Institute
genomic comparisons [19]. (SANBI) [18].
Table: 1. Databases Information Contain Type of databases [7, 18-19]
Category Name Description Source
Sequence databases GenBank Genetic sequence database http://www.ncbi.nlm.nih.gov
EMBL Nucleic acid and protein databases http://www.ebi.ac.uk/embl/index.html
Uni–Prot Protein database http://www.uniprot.org
Genome databases dbEST Expressed Sequence Tags database http://www.ncbi.nlm.nih.gov/dbEST/index.html
GDB Human Genome Database http://www.gdb.org/
Ensembl Genome database http://www.ensembl.org/index.html
Secondary protein Pfam Protein family database with multiple http://www.sanger.ac.uk/Software/Pfam/
databases sequence alignments and hidden
Markov models
PROSITE Protein family and domain database http://us.expasy.org/prosite/details.html
Protein interaction BIND Bimolecular Interaction Network http://www.bind.ca
databases Database

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2. GENOME INFORMATICS: database, genome SCOUT gene RAGE,
This is a relatively well-known topic being CoGenT++. In India, Institute of Genomics and
closely related to bioinformatics through Integrated Biology (IGIB) is one of the leading
sequence analysis. Genome informatics as a institutes working in the field of genome
field encompasses the various methods and informatics. Personalized medicine is the
algorithms for analyzing and extracting idealized medical practice to give right drugs to
biologically relevant information from the right patients at right times. Finding SNPs is
rapidly growing biological and essential considered as a premise for this practice, but it
sequence databases [19]. The Genome is by no means the sufficient effort. Good
Informatics program supports research in practice must be supported by well trained
computational biology that will enable the medical professionals who can easily access
development of tools for sequence analysis, relevant data and knowledge. Such an
gene mapping, complex trait mapping and informational environment would be called the
genetic variation. These tools include infrastructure for personalized medicine [25].
mathematical and statistical methods for the 3. IMMUNOINFORMATICS:
identification of functional elements in complex Immunoinformatics is another major area
genomes; the identification of patterns in large in biomedical research where computational and
datasets (for example, microarray data); and the informational technologies are playing a major
mapping of complex traits and genetic role in the development of drugs and vaccines.
variations (for example, single nucleotide This field is still in its infancy and it covers both
polymorphisms, or SNPs).The program also modeling and informatics of the immune system
encourages development and maintenance of and is the application of informatics technology
databases of genomic and genetic data. This to the study of immunological macromolecules,
emphasis includes new tools for annotating addressing important questions in
complex genomes so as to expand their utility. immunobiology and vaccinology. Data sources
The program also supports the production of for immunoinformatics include experimental
robust, exportable software that can be widely approaches and theoretical models, both
shared among different databases in order to demanding validation at every stage. Major
facilitate database interoperability. These immunological developments include
bioinformatics resources will allow the immunological databases, sequence analysis,
scientific community efficient access to structure modeling, modeling of the immune
genomic data, which will enable new types of system, simulation of laboratory experiments,
analyses. The analyses, in turn, will allow for statistical support for immunological
the computer modeling and subsequent experimentation, and immunogenomics [26-27].
experimental validation of the complex The field of immunoinformatics has direct
pathways and networks that ultimately influence in the following areas: (a) improve
determine the phenotype of a cell or the causes transplantation outcomes (b) identify novel
of many human diseases [20-21]. A number of genes involved in immunological disorders (c)
online resources and servers are available that decipher the relationship between antigen
assist in genome informatics research. Few of presentation pathways and human disease (d)
them are – Fly Base [22], KEGG (Kyoto predict allergenicity of molecules including
Encyclopedia of Genes and Genomes) [23], and drugs (e) personalized medicine (f) vaccine
Ensemble Compara Database [24], cis RED development.
Table 2: Some Selected Immunoinformatics Databases and Tools [18, 28-31]

Databases and Tools Brief Description URL


IMGT, the international A sequence, genome, and structure database for http://imgt.cines.fr
ImMunoGeneTics immunogenetics data
information system
HIV Molecular A database of HIV – specific B - cell and T - cell http://www.hiv.lanl.gov/content/imm
Immunology Database responses unology/index.html
MHCPEP Database of MHC - binding peptides http://wehih.wehi.edu.au/mhcpep/
FIMM Database of Functional Immunology http://research.i2r.astar.edu.sg/fimm/
SYFPEITHI Database and prediction server of MHC ligands http://www.syfpeithi.de/
BIMAS Bioinformatics and Molecular Analysis Section http://bimas.dcrt.nih.gov/molbio/hla_
(MHC peptide - binding prediction) bind/

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4. NEUROINFORMATICS: web-based information management systems is
Neuroinformatics may be defined as the one of the major objectives of neuroinformatics.
organization and analysis of neuroscientific data Apart from data sharing, computational
using the tools of information technology. The modeling of ion channels, neurons and neural
information sources in neuroinformatics include networks, second messenger pathways,
behavioral sciences (psychological description) morphological features, and biochemical
and medicinal (including drugs and diagnostic reaction are also often included in
images) and biological (membranes, neurons, neuroinformatics. The initial ideas on
synapses, genes, etc.) aspects. The aim of neuroinformatics can be traced to the work of
neuroinformatics is to unravel the complex Hodgkin and Huxley, who initiated
structure – function relationship of the brain in computational neuronal modeling. Current
an integrative effort. Neuroscientists work at efforts in the direction include studies related to
multiple levels and are producing enormous modeling the neuropsychological tests,
amounts of data. Distributed databases are being neuroimaging, computational neuroscience,
prepared and novel analytical tools are being brain mapping, molecular neuroimaging, and
generated with the help of information magnetic resonance imaging [18].
technology. Producing digital capabilities for
Table: 3. Selected List of Important Neuroinformatics Tools and Databases [18, 32-34]

Databases Brief Description URL


Brain Architecture Repository of brain structure http://brancusi.usc.edu/bkms/
Management System (BAMS) information; contains to date
around 40,000 connections
Brain Map For meta - analysis of human http://brainmap.org/
functional brain-mapping literature
Surface Management System A surface - based database to aid http://sumsdb.wustl.edu/sums/index.jsp
(SuMS) cortical surface reconstruction,
visualization and analysis
L - Neuron Computational Neuroanatomy http://www.krasnow.gmu.edu/LNeuron
Database
GENESIS Neural Simulator http://www.genesissim.org/GENESIS/
NeuroScholar MySQL Database frontend with http://www.neuroscholar.org
management of bibliography,
histological and tracing data

5. TOXIC INFORMATICS: The only limitation of this approach is that


Toxicoinformatics involves the use of the predictive power of these models gets
information technology and computational reduced when chemicals’ belonging to a class
science for the prediction of toxicity of outside the series of molecules is used for the
chemical molecules in the living systems. Early construction of the model. Toxicity prediction
prediction of toxicological parameters of new tools using this approach include TOPKAT and
chemical entities (NCEs) is an important CASE/M-CASE. TOPKAT mainly employs
requirement in the drug discovery strategy electrotopological descriptors based on graph
today. This is being emphasized in the wake of theory for the development of QSTR models.
many drug withdrawals in the recent past. TOPKAT uses linear free - energy relationships
Computational methods for predicting in statistical regression analysis of a series of
toxicophoric features is a cost effective compounds. In this software, the
approach toward saving experimental efforts continuous/dichotomous toxicity end points are
and saving animal life. Current efforts in correlated to the structural features like
Toxicoinformatics are mainly based on QSTR electronic topological descriptors, shape
(quantitative structure – toxicity relationships) descriptors, and substructure descriptors. CASE
and rule - based mechanistic methods. QSTR is (Computer Automated Structure Evaluation)
a statistical approach, in which a correlation is and M - CASE are Toxicoinformatics software
developed between structural descriptors of a packages that have the capability to
series of compounds and their toxicological automatically generate predictive models. A
data. In this approach, a model can be trained hybrid QSTR artificial expert system - based
with the help of a set of known data, validated methodology is adopted in CASE - based
using many approaches, and then used for the systems [35-38].
prediction of toxicological parameters.

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6. METABOLOMEINFORMATICS: (CYP450 enzymes) are being studied [18, 39].
Metabolomics is an emerging new ominous Many databases and software systems are
science analogous to genomics, transcriptomics, available in this field for the early prediction of
proteomics, etc. Metabolomics is the lesser- substrates of CYP450 enzymes. Some of the
known cousin to genomics and proteomics. An databases and predictive systems for metabolic
understanding of the pharmacokinetics of a drug information of drugs are given in Table. The
can play a major role in reducing the probability Human Drug Metabolism Database (hDMdb)
of bringing a new chemical entity (NCE) with project is a nonprofit, internet database of
inappropriate ADME/Toxicity profile to the xenobiotic metabolic transformations that are
market. Drug metabolism and toxicity in the observed in humans [40]. The predictive systems
human body are primarily assessed during available for metabolism are mainly expert
clinical trials, and preclinical assessment of the systems based on experimental data
same involves study on in vivo and in vitro representing the metabolic effects (database)
systems. In silico models for predicting and/or rules derived from such data (rule -
pharmacokinetic properties based on the base). The rules may either be induced rules,
experimental results can greatly reduce the cost which are quantitative, derived from a statistical
and time required for the experiments. These analysis of the metabolic data, or knowledge -
methods range from modeling approaches such based rules derived from expert judgment [41].
as QSARs, to similarity searches as well as Plant breeding and assessment of crop quality,
informatics methods like ligand-protein docking Food assessment and safety, Toxicity
and pharmacophore modeling. Metabolic assessment, Nutrition assessment, Medical
biotransformation of any NCE may profoundly diagnosis and assessment of disease status,
affect the bioavailability, activity, distribution, Pharmaceutical drug development, Yield
toxicity, and elimination of a compound; the improvement in crops and fermentation,
effects of probable metabolism are now Biomarker discovery, Technological advances
considered in the early stages of drug discovery in analytical chemistry, Genotyping,
with the help of computer - aided methods. In Environmental adaptations, Gene-function
silico prediction of metabolic biotransformation elucidation, Integrated systems biology.
occurring at the liver cytochrome enzymes
Table: 4.Databases and Tools for Metabolism Informatics [18, 39-41]

Databases and Tools Brief Description URL


Human Drug IUPAC project for a web-based model database for http://www.iupac.org/projects/2000
Metabolism Database human drug metabolism information /2000 -010-1-700.html
(hDMdb)
MDL Metabolite Comprised of a database, registration system, and http://www.mdl.com/products/predi
browsing interface ctive/metabolite/index.Jsp
Biofrontier/P450 Human cytochrome P450 information and predictive http://www.fqs.pl/
system
METEOR (LHASA Ltd., Predictions presented as metabolic trees http://www.lhasalimited.org/
Leeds, UK)
META (Multicase, Inc.) Uses dictionaries to create metabolic paths of query http://www.multicase.com/products
molecules /prod05.htm

7. HEALTHCARE INFORMATICS: Biomedical data itself and its biological implications.


Informatics is an emerging discipline that has Medical informatics, biomedical informatics,
been defined as the study, invention, and clinical informatics, nursing informatics, etc.
implementation of structures and algorithms to come under the service-oriented sectors. Other
improve communication, understanding and topics like cancer informatics, diabetes
management of medical information." Medical informatics are specific therapeutic area based
informatics is more concerned with structures information technology topics. These topics are
and algorithms for the manipulation of medical also related to pharmacoinformatics as a whole
data, rather than with the data itself. This because the information obtained from these
suggests that one difference between subjects leads to decision making in
bioinformatics and medical informatics as pharmaceutical industry. For example, medical
disciplines lies with their approaches to the data informatics deals with medicines and health care.
there are bioinformatics interested in the theory The databases associated with this filed include
behind the manipulation of that data and there the feedback received response to a drug. Thus,
are bioinformatics scientists concerned with the future designing of the drugs can be made to suit

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the needs of the patients. Electronic health record practitioners, academic researchers and
(EHR) systems, Hospital Information Systems educators, scientists and technologists in
(HIS), Decision Support Systems (DSS), etc. are operational, commercial and academic domains.
the major components of healthcare informatics The ultimately focus is to improve patient safety
[43]
. Medical Information Science is the science and organisational effectiveness to achieve better
of using system-analytic tools to develop outcomes [45].
procedures (algorithms) for management, process
control, decision making and scientific analysis Nursing informatics (NI) is a specialty that
of medical knowledge - Ted Short life. Medical integrates nursing science, computer science, and
Informatics comprises the theoretical and information science to manage and communicate
practical aspects of information processing and data, information, knowledge, and wisdom in
communication, based on knowledge and nursing practice. NI supports consumers,
experience derived from processes in medicine patients, nurses, and other providers in their
and health care - Jan van Bemm. Medical decision making in all roles and settings. This
Informatics (MI) is the study of information support is accomplished through the use of
processing as it is used in healthcare. It might information structures, information processes,
have been called medical computing, but the and information technology opportunities in
French-derived term informatics is more Health broadly cover the following facets,
commonly used internationally and probably sometimes in combination and with grey
conveys a broader set of concerns, including the boundaries between them [46].
uses and flows of information that may have 8. CHEMO INFORMATICS: Chemo informatics
little to do with computers. Like many is the application of informatics methods to solve
engineering fields, MI has scientific aspects that chemical problems. All areas of chemistry from
focus on the description, modeling and analytical chemistry to drug design can benefit
interpretation of how information is actually from chemo informatics methods. And there are
generated, disseminated and used, and still many challenging chemical problems
underlying constraints or natural laws that waiting for solutions through the further
govern these activities. MI is also deeply development of chemo informatics [46]. The term
concerned with the design of appropriate medical "Chemoinformatics" appeared a few years ago
information processing systems, with tradeoffs in and rapidly gained widespread use. Workshops
their implementation, and with ways to evaluate and symposia are organized that are exclusively
their effectiveness [44]. Some have suggested devoted to Chemoinformatics, and many job
health informatics as a better, broader term, advertisements can be found in journals. The first
meant to encompass aspects of health care that mention of Chemoinformatics may be attributed
are not traditionally the focus of medicine, such to Frank Brown [47]. Chemo informatics is the
as preventive care, nutrition, patient education, arrangement of information resources to
epidemiology, etc. Related terms include transform data into information and information
bioinformatics, which is the study of information into knowledge for the intended purpose of
processing in biological sciences. Opinion making better decisions faster in the area of drug
currently varies on whether bioinformatics is part lead identification and organization. So chemo
of medical informatics, or-if it forms a distinct informatics is helpful in drug design, Greg Paris
discipline-how it relates. Most expect that came up with a much broader definition.
progress in understanding the molecular basis of Chemical Data →Storage in Databases →Data
disease will bring these fields closer together, if Information →Data Retrieval →Analysis The
not to merger. Telemedicine (or the recent current schema of chemoinformatics in drug
European coinage telematique) focuses on one designing is given below: Analysis of
aspect of MI, access to and use of medical predesigned drug structure structural property
information at a distance. At MIT, in line with prediction (QSAR) property prediction by smiles
our traditions of institutional flexibility, we have format perform some modification in prior drug
no official organization that does medical again predict the drug property if variation
informatics, but a number of small foci around occurs in novel structure save that structure and
the research and teaching interests of faculty in design a fragment library [48].Chemoinformatics
different Departments and Laboratories [42-45]. is a generic term that encompasses the design,
Pharmacoinformatics preventing adverse drug creation, organization, management, retrieval,
reactions in hospital patients. Health informatics analysis, dissemination, visualization, and use of
is concerned with the systematic processing of chemical information. The needs for
data, information and knowledge in medicine and chemoinformatics recent chemical developments
healthcare, increasingly delivered by a mix of for drug discovery are generating a lot of
public and private organisations. Health chemical data. These developments are
informatics is delivered by operational health combinatorial chemistry and high-throughput

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