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J Med Syst (2009) 33:413–421

DOI 10.1007/s10916-008-9203-3

ORIGINAL PAPER

Cholangiocarcinoma—An Automated Preliminary Detection


System Using MLP
Rajasvaran Logeswaran

Received: 30 May 2008 / Accepted: 4 August 2008 / Published online: 12 August 2008
# Springer Science + Business Media, LLC 2008

Abstract Cholangiocarcinoma, cancer of the bile ducts, is Introduction


often diagnosed via magnetic resonance cholangiopancrea-
tography (MRCP). Due to low resolution, noise and Cancer, in its many varieties, is on the rise in most parts of
difficulty is actually seeing the tumor in the images, the world. Increasingly common in modern medical
especially by examining only a single image, there has technology is the use of computers as an aid in the
been very little development of automated systems for diagnosis of diseases. Artificial neural networks (ANN)
cholangiocarcinoma diagnosis. This paper presents a are commonplace in such efforts, including in cancer
computer-aided diagnosis (CAD) system for the automated detection systems of the liver [1], brain [2], breast [3], lung
preliminary detection of the tumor using a single MRCP [4], thyroid [5] etc.
image. The multi-stage system employs algorithms and Bile is used in digestion for absorption of fat-soluble
techniques that correspond to the radiological diagnosis nutrients, as well as in the removal of fat-soluble waste
characteristics employed by doctors. A popular artificial products (such as cholesterol) from the body. Produced in
neural network, the multi-layer perceptron (MLP), is used the bile ducts of the liver and stored in the gallbladder, bile
for decision making to differentiate images with cholangio- is transported via the biliary tract to the small intestines
carcinoma from those without. The test results achieved during digestion. Diseases affecting the biliary structures
was 94% when differentiating only healthy and tumor block the biliary system causing swelling, pain and a
images, and 88% in a robust multi-disease test where the buildup of toxins in the body. Cholangiocarcinoma or
system had to identify the tumor images from a large set of tumor of the bile ducts is on the rise [6]. It is the second
images containing common biliary diseases. most common primary malignant tumor of the liver after
hepatocellular carcinoma and comprises approximately 10
Keywords Magnetic resonance cholangiopancreatography to 15% of all primary hepatobiliary malignancies [7].
(MRCP) . Cancer . Tumor . Bile ducts . Clinical diagnosis for this disease depends on appropri-
Computer-aided diagnosis ate clinical, imaging, and laboratory information [7]. The
signs and symptoms include clay colored stools, jaundice
(yellowing of the skin and eyes), itching, abdominal pain
that may extend to the back, loss of appetite, unexplained
weight loss, fever, chills [8] and dark urine [9]. Follow-up
tests include non-invasive imaging such as computed
tomography (CT), magnetic resonance imaging (MRI) or
R. Logeswaran
Global School of Media, Soongsil University, ultrasound; while invasive ones include endoscopic retro-
Seoul, South Korea grade cholangiopancreatography (ERCP), endoscopic ultra-
sound (EUS), percutaneous transhepatic cholangiography
R. Logeswaran (*)
(PTC) or even bile duct biopsy and fine needle aspiration
Faculty of Engineering, Multimedia University,
63100 Cyberjaya, Malaysia [8]. MRI, or more specifically, magnetic resonance chol-
e-mail: loges@ieee.org angiopancreatography (MRCP), has now become the
414 J Med Syst (2009) 33:413–421

favorite follow up test, replacing the former golden bile ducts


standard ERCP.
MRCP images are taken to cover the biliary system area,
as shown in Fig. 1 [10]. Some information relating to the
MRCP protocol, examination and other relevant informa-
tion are available online [11]. A sample MRCP image for a
patient with cholangiocarcinoma is given in Fig. 2. Auto-
mated computer-aided diagnosis (CAD) systems for MRCP
are very rare, more so for cholangiocarcinoma detection.
This is due to the high complexity in accurately identifying cholangio
such diseases in a relatively noisy image. Often, the tumor carcinoma
is not seen clearly in a single MRCP image (refer to the
labeled area in Fig. 2) as being a solid, it just appears as a Fig. 2 MRCP image containing cholangiocarcinoma
low intensity area in the T2-weighted MRCP image (cf.
high intensity indicates liquid, thus the biliary structures are making capabilities would required in at least some of the
represented by the high intensities). Furthermore, back- stages. The radiological diagnosis knowledge and experi-
ground tissue and organs, orientation and overlapping ence, as well as the medical data in terms of MRCP images
structures, noise, body fat, signal strength, artifacts, partial and confirmed diagnosis, were obtained through collabora-
volume effect and parameter settings are some of the factors tion with a hospital that was the liver referral center for
affecting the quality of image acquired. They cause the liver diseases. From the information gained and consid-
large inter-patients and even intra-patient image variations erations above, the algorithm shown in Fig. 3 was
in grayscale intensity, which makes computer-aided auto- developed. The implementation details are given below.
mated processing very difficult.
Image preparation

Methodology The intensities between MRCP images can differ signifi-


cantly, even between images of the same patient. This is
As the objective of this work was to develop a system to aid further compounded by the fact that the images are usually
medical practitioners in their diagnosis, it was decided that acquired at a 12 bits per pixel (bpp) resolution, providing a
as far as possible, radiological diagnosis based ideas should large intensity distribution range. Normalization is required
be followed in the methodology. This is further a necessity but fixed values of intensities cannot be used. When a
as the nature of the images makes it a challenge for any radiologist analyses MRCP images with different intensity
single conventional algorithm to perform well. In addition, distributions (e.g. change in brightness and/or contrast), it is
it was realized that a successful system would require the relative information within the intensities are usually
multiple stages, and some amount of dynamic decision used instead of the absolute values.
In a study [12], it was realized that the general histogram
distribution pattern in MRCP images were roughly similar
even though their intensities were not. From the study, it
was found that the first global maximum peak (P1) in an

Output: Optimized Decision


[Tumor /
Trained MLP
Normal]

Fig. 1 Location of the biliary tract in the abdomen Fig. 3 Proposed cholangiocarcinoma detection system
J Med Syst (2009) 33:413–421 415

MRCP image corresponded to the intensity of most of the between Y and Z such that Z′ is at the original Z intensity.
air in the body (e.g. those in the bowels). The second peak Finally, the whole resulting histogram is scaled down to
(P2) corresponded to the intensity of the soft tissues, which 8 bpp (intensities 0–255) from the original 12 bpp, to make
also overlaps with the lower intensities of the biliary them suitable for analysis on a normal computer monitor.
structure as the intensities are not uniform throughout the The area between X and Y is not stretched by design as it
biliary system. The minimum point between the two peaks contains most of the background tissue and should not be
(i.e. the trough, X) could be used as a threshold to remove enhanced. However, it cannot be eliminated as parts of the
the air. The remainder of the histogram then corresponds to biliary structures also fall within that intensity range and are
various parts of the biliary tract, along with some residue required in the following stages.
noise, artifacts, background and other structures that were
not successfully thresholded. The image may have bright Segmentation
spots (very high intensities), which make the rest of the
image appear dull in comparison. A point Y (about a third The previous stage employed intensity frequency but did
down the slope) and Z (about two-thirds from Y to the not take the location information into consideration, a
maximum intensity) are estimated as the beginning and necessary criteria to segment an image into meaningful
ending intensities of most of the biliary structures. homogenous sections. Although infamous for its over-
Identifying the intensities in a particular MRCP image segmentation problem where images tend to be broken up
that correspond to points P1, P2, X, Y and Z, the image can into too regions, the watershed algorithm [13] does produce
be dynamically normalized and enhanced. Figure 4 shows relatively accurate segmentation boundaries. Taking the
the histograms before and after the image preparation stage. intensity gradient image, the watershed algorithm produces
The histogram is thresholded at X, and truncated at Z (to segment boundaries at the steepest points of the gradient,
minimize the effect of very high intensities). The remaining thus separating the image into semi-homogeneous seg-
parts are shifted left such that X′ is on the y-axis, stretched ments. To overcome the over-segmentation problem,
caused by minor fluctuations in the intensity of the
background as well as throughout the biliary system, the
spurious and very small regions need to be consolidated
into the larger regions.
Before merging, to counter inter-pixel variations within a
segment, the intensity of all pixels within the segment is set
to the average intensity of that segment. This allows the
segments (instead of pixels) to be treated as the minimal
unit in the remaining stages. The segment merging is then
performed. Mistakes in selecting the appropriate criteria for
merging could lead to premature elimination of parts of the
biliary structure, with dire consequences in the tumor
detection stage. In practice, using manually labeled test
set of 256×256 MRCP images obtained from the collabo-
rating medical institution, it was found that the segments
that generally fit the criteria for merging were those that
were less than 30 pixels in size (i.e. very small), and only
merged to other segments with intensities within a
difference of 10% from their own (i.e. similarity criterion).

Biliary structure identification

In the ideal scenario, the images should now be well


segmented and the biliary system should be easily
identified. In a realistic environment, this is rarely the case,
especially when dealing with biological objects. The nature
of the MRCP images, partial volume problems and
intensity inconsistencies, make the biliary structure identi-
fication process more complicated. Several strategies
Fig. 4 MRCP histograms for image preparation stage including scale-space analysis and directional wavelets
416 J Med Syst (2009) 33:413–421

known as contourlets also failed to produce sufficiently small border (maximum 30 pixels; large border often
accurate results. Finally, an adaptation of the conventional background).
region growing at the segment level, called segment Figure 5 [14] shows the effect of the biliary structure
growing, was found to produce good results [14]. identification on a sample 256×256 50 mm thick slab
Growing strategies require the selection of initial seeds MRCP image, along with the results of the previous
to start the process. In an automatic system, this has to also stages. It is observed that application of the various
happen automatically. The criteria for the selection had to stages of the proposed scheme successfully eliminated
be identified. Next, to proceed with the growing, criteria for most of the background in the image, although not all as
selecting appropriate segments to grow into have to be some background shared very similar characteristics with
identified. These criteria were identified through analysis the biliary structures. The resulting image also provides
of a number of test MRCP images, which were prepared better 3D information approximation, with the lower
and segmented using the strategies discussed in “Image intensities representing parts further away (or deeper in
preparation” and “Segmentation” sections. The biliary the abdomen).
structures on the images were then manually labeled. Statistics
on the most significant parts of the structures in the images Tumor detection
were used as the criteria for seeds, whilst the statistics of the
other labeled areas, compared with the statistics of the Diseases of the bile ducts generally cause distention or
unlabeled background, were used as the growing criteria. swelling of the ducts due to the blockage of the flow of bile
The analysis [15], found that only average intensity, in the ducts and cholangiocarcinoma is no exception.
location and size influenced the correct selection of seed Although the tumor itself is not seen clearly in a T2 MRCP
segments. Seeds were found to be segments within the top image, where solid objects are represented by low intensi-
20% highest intensity, close to the middle of the image ties, the appearance of disjoint distended biliary ducts
(bright segments at the fringes of the image tend to be provides clue to their presence. This is also the case in
bright spot noise or artifacts) and not too small (minimum radiological diagnosis, in which the suspicion is then
10 pixels in size). Multiple seeds are required to identify confirmed by examining the appropriate series of MRCP
disjoint biliary structures, so all seeds meeting the criteria images, other series (different orientations and sequences)
were grown in descending order. The growing criteria were and possibly ordering more tests and/or images, if neces-
segments had to be of similar high average intensities (i.e. sary. In the interest of lower processing requirements, time
intensity greater than 200 with an intensity difference of and complexity, the developed algorithm is meant for
less than 20%), small segment size (less than 100 pixels as preliminary detection of cholangiocarcinoma by examining
larger segments were usually background) and sharing a only a single 2D MRCP image.

Fig. 5 Result of image prepara-


tion (b), segmentation (c), and
biliary structure detection (d)
J Med Syst (2009) 33:413–421 417

For a bile duct to be considered as swollen, it should be [16]. Although there have been critiques by some [17], the
sufficiently large. The common bile duct (CBD) is usually feedforward multi-layer perceptron (MLP) is still arguably
less than 6 mm thick in a healthy person, so biliary the most popular ANN with a long and successful track
structures beyond that may be considered distended. record. Easily set up, with the ability to be instructed on
Ideally, the duct thickness (or a simple approximation of expected outcomes through supervised training, the MLP in
area divided by length) would be used as a measure of Fig. 6 was used in the decision-making stage. In the case of
distension, but it was found that in many images, the multi-layered architectures, the number of hidden layers
distension of the biliary structures in the case or cholangio- and corresponding hidden neurons relate to the complexity
carcinoma were not significant enough (see Fig. 2) to be of the problem. Decision-making information is usually
incorporated as a criteria. Instead, simplifying, it was stored as weights (coefficients) and biases affecting the
decided that the area would be used and structures less neurons, set (“learned”) during a training phase.
than 50 pixels in size were not considered as a significant The quality of training is determined by a learning rate
biliary structure and would not participate in the detection and learning goal (i.e. error rate). In many cases, over-
process. In the case of Fig. 5d, the small patch of training may also be prevented by setting a maximum
background tissue above the biliary structure could be number of iterations (epochs) limit. Over-training an ANN
eliminated this way. makes it rigid and hinders its generalization ability to
Normally, a tumor would not be very large and thus, the handle new data. A good distribution of training data,
disjoint areas would be in moderately close proximity. covering typical and atypical scenarios, improves the
However, although a maximum distance may be prescribed, ANN’s generalization ability.
the actual distance covers a large range dependent on the The input layer consists of a neuron for each of the
3D orientation of the structures when captured in the 2D features (f) presented to the MLP, namely, average segment
plane. For example, two disjoint sections as seen in the intensity and sizes of the individual biliary structures
coronal (front) view may appear closer and even joined in detected. Therefore, a minimum system would require four
the sagittal (side) view, with decreasing distance between input neurons as there should be at least two disjoint
the disjoint sections in the rotational angles between the structures. Additional sets of input neurons could be used if
coronal and sagittal views. The case of joined structures is more than two biliary segments are to be analyzed. Further
beyond the scope of this work as even a trained radiologist input neurons to incorporate parameters including distance
would not be confident of a cholangiocarcinoma diagnosis between the midpoint of the structures, thickness as well as
by examining such an image. The developed system will be shape characteristics, could be added. As the priority was
limited to excluding such images as normal (thus, unhealthy) low complexity and fast processing, only one hidden layer
in the case of distention of the bile ducts are present. All the was implemented. Ten hidden neurons were found to be
tumors in the test cases analyzed were less than 50 pixels adequate to delineate the network and produce the best
wide, and this is used as an additional maximum distance performance. The output layer required only a single
criterion to eliminate potential noise, artifacts or even other neuron for the binary decision, i.e. ‘0’ indicating negative
organs from influencing the tumor detection. tumor detection and ‘1’ indicating possible tumor detection.
The activation or transfer functions used in the neurons
Decision-making were sigmoidal and linear, in the hidden and output layers,
respectively.
The assumption of the size of disjoint structures can vary
depending on the orientation of the acquired image, and is Input Hidden layer Output layer
greatly influenced by the size of the focus area in the layer [sigmoidal] [linear]
image. To add to the complication, not all disjoint structures
necessarily indicate the presence of a tumor. As such, there
may be more subtle criteria that need to be used in the
decision-making, which has not been identified as yet.
ANN have been used successfully in a large number of f1 Tumor /
medical system (and a variety of other fields), allowing not
tumor
automatic learning, error tolerance and generalization in fn
handling unseen data. As such, an ANN is used in the final
stage of the proposed system to the boost decision-making
performance.
There are a large number of ANN topologies available,
with different abilities to handle specific problems and data Fig. 6 MLP architecture used in the proposed system
418 J Med Syst (2009) 33:413–421

Being a supervised network, a set of training data and detected were: due to lack of distention which made the
confirmed diagnosis results were required to train (i.e. structures appear to be that of a healthy patient, and
configure the weights and biases) the MLP. The training set orientation that made the distended biliary structures appear
consisted of approximately 20% of the 593 MRCP images joint indicating other biliary diseases. The inaccuracy for
obtained from Selayang Hospital, Malaysia. The training the normal image that was due to the biliary structure
images were selected pseudo-randomly to include a appearing unusually large (possibly zoomed during image
distribution comprising proportionately of images consider acquisition) and merely indicated not normal (i.e. diseased)
as normal (healthy), diagnosed as cholangiocarcinoma, and as opposed to tumor. Such cases are unavoidable through a
diagnosed with other biliary diseases. As all the images simple detection system using a single image, given the
were those of actual patients, the radiological diagnoses large inter-patient variations as well as different parameter
were available and further confirmed by a senior radiolo- settings and practices by a number of radiographers who
gist. The standard backpropagation learning algorithm was acquired the images over the years.
used to configure the coefficients (weights and biases) of The second test was to undertake a more realistic
each neuron during training. Due the large variations within simulation applicable in the clinical environment. The
the images, the error rate was high. Thus, the stopping MRCP images with other biliary diseases present (such as
criterion for the training was the maximum iterations, stones, cyst and non-tumor swelling in the bile duct) were
where it was set to 30,000 epochs as there was no included in the testing. Furthermore, patients may suffer
convergence of the achieved error beyond that. Based on from more than one biliary affliction (which may have
past experience, a learning rate of 0.15 was used in this similar visual characteristics), thus some test images were
work as the system was not sensitive to minor changes in influenced by more than one biliary disease. This multi-
the learning rate. affliction test set of 593 images contained 248 healthy
(normal), 61 tumor and the remainder images with other
biliary diseases such as stones, cyst, residual postsurgery
Results dilation, Klatskin’s disease, Caroli’s disease, strictures, and
obstruction from other liver diseases.
Cholangiocarcinoma may be present in different parts of the Table 2 shows the results of this robust testing. The
bile ducts. As with any biological system, even the images evaluation criterion used, overall accuracy, is calculated as
of healthy patients can differ considerably. The choice of the percentage of the sum of the true positives and true
parameters, intensity thresholds, values of the segment sizes negatives over the total test set, taking into account how
for merging and growing, and biliary segment size for well the system performed in detecting the correct disease
tumor detection were varied and tested. The configuration as well as in rejecting the wrong diagnosis. For lack of
and results presented in this paper are for the setup that much benchmark literature, a comparison with only one
performed the best for the acquired MRCP images. prior automated tumor detection system using MRCP [18]
Two types of tests were conducted. The first was a proof is given in the table. From the results, it shows that the
of concept, where the algorithm was evaluated on its ability proposed MLP system’s performance was superior for the
to differentiate images containing tumor from those of detection of both cholangiocarcinoma (88.03%) as well as
healthy patients. Table 1 shows the details of this test, using healthy images (83.64%), even if only by a small margin.
55 test images. The high accuracy level indicates that the In the case of identifying the presence of identifying biliary
proposed system methodology is valid and the system is diseases in general, the MLP system performed much
indeed capable to differentiating cholangiocarcinoma from better. It achieved a detection rate of 90% for non-
normal images. The inaccuracies where the tumor was not cholangiocarcinoma diseases, an increase of 10% as
compared to the results obtained by the reference system.
The specificity (non-tumor images correctly identified as
not containing tumor) results was also calculated. Once
Table 1 Results of the tumor detection validation testing again, the MLP system dominated achieving 94.70% as
compared to 89.85% of the previous system.
Normal Cholangiocarcinoma
Figure 7 presents examples of the images which were
Medically diagnosed 27 28 detected incorrectly by the proposed system. The images in
Correctly detected 26 26 Fig. 7a and Fig. 2 were acquired in the same MRCP
Accuracy 96.3% 92.8% examination. However, although the biliary structures in
Error 1 2
Fig. 2 are clearly disjoint, the orientation in Fig. 7a makes
Description Large biliary 1 normal, 1 other
them look joint and thus makes it impossible for chol-
structures dilation
angiocarcinoma to be diagnosed even by the radiologist.
J Med Syst (2009) 33:413–421 419

Table 2 Results of robust


testing using multi-disease Normal Cholangiocarcinoma Others TOTAL
clinical MRCP images
Test images 248 61 284 593
Overall accuracy
MLP system 83.64% 88.03% 90.14% –
Reference system [18] 76.90% 86.17% 80.99% –

Fig. 7b suffers from poor contrast and low signal strength, make a confident diagnosis by just examining a single
causing the boundaries and inhomogeneous intensities of MRCP image, as they usually use series of images in the
the liver tissue and biliary structures to overlap indistin- examination. Overcoming such problems requires strict
guishably. In both examples, the inaccuracies of the adherence not just to image acquisition standards and
proposed system were unavoidable due to the poor quality uniformity, but also with a realization of the limitations of
and non-standardization of the acquisition process, which the system as it is only presented a single image. As such,
were beyond the control of this work. some selection criteria for the images to be presented to the
Timing performance is not presented in the results as the system have to be set, including standardized acquisition
system was developed in IDL (Interactive Data Language) parameters and good orientation.
for fast development with the available libraries, and not for The proposed system is merely a tool to aid in the
fast performance. However, without any significant optimi- diagnosis of cholangiocarcinoma, the responsibility of which
zation and running on a standard Pentium IV desktop resides with the medical practitioner. Issues on the misuse of
personal computer with the IDL virtual machine run-time ANN technology in oncology have been highlighted in the
environment, the proposed system took less than a minute past [19] and the user should be mindful of the purpose and
to process an MRCP image. The timing performance could usage of the tool. The proposed system is a simulation
be dramatically enhanced if the system is developed to be prototype, requiring further in-depth study and testing
compiled into machine code and executed on a high before it could be used in the clinical environment.
performance workstation. The proposed system was developed with the handicap of
only analyzing a single image in the detection stage. This
restriction was placed in the effort of producing quick
Discussion preliminary detection with minimal resource requirements
and complexity. A typical MRCP examination consists of a
The results obtained show good overall accuracy for the number of series of images, composed of locator slices, axial
MLP system, and an overall improvement over the reference T2 sequence series, axial in-phase (fat saturation) series,
system. The accuracy achieved is impressive, taking into MRCP thin slice series and MRCP thick slab images [11],
account that even visual diagnosis using individual 2D and additional series as deemed necessary by the radiolo-
MRCP images is very difficult and impossible in certain gist. Multiple images could result in improved detection,
cases. This is further compounded by the fact the robust test especially in cases of non-optimal orientation. Such efforts
data consisted of a large number of images with other bile could be taken as future work in developing a more
duct diseases. Even experienced specialists are reluctant to comprehensive diagnosis system. Additional information

Fig. 7 Example problem cases

(a) Orientation problem (Fig. 2 patient) (b) High background intensity


420 J Med Syst (2009) 33:413–421

would be required from the image headers, 3D volume data (with a variety of biliary diseases), produced very good
may be approximated and an interactive interface could be accuracy in excess of 80% in all categories. The system
provided for an improved user-friendly application. used in the simulation was a simple prototype. A discussion
The proposed MLP system, as with most applications, of the issues and recommendations for improving the
treats the ANN as a “black box”. Although training is system for clinical use is also given towards the end of
controlled by the data, expected outcomes, error goal etc., the paper.
the “rules” set within the MLP, by way of the actual
coefficient values of the weights and biases, are left Acknowledgment This paper is supported by the Soongsil
University Research Fund.
unknown. Furthermore, training is usually started by
assigning random values to these coefficients and allowing
them to converge. Thus, the exact setup may not be
repeatable due to the random values. Recently, there have References
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