Predictive Modeling in Biomedical Data Mining and Analysis Sudipta Roy - Download the ebook today and own the complete content
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Predictive Modeling
in Biomedical Data Mining
and Analysis
This page intentionally left blank
Predictive Modeling
in Biomedical Data Mining
and Analysis
Edited by
Sudipta Roy
Department of Artificial Intelligence and Data Science, Jio Institute,
Navi Mumbai, Maharashtra, India
Valentina E. Balas
Professor of Automation and Applied Informatics, Aurel Vlaicu University
of Arad, Arad, Romania
Basant Agarwal
Department of Computer Science and Engineering, Indian Institute
of Information Technology Kota, Jaipur, Rajasthan, India
Mamta Mittal
Delhi Skill and Entrepreneurship University, New Delhi, India
Academic Press is an imprint of Elsevier
125 London Wall, London EC2Y 5AS, United Kingdom
525 B Street, Suite 1650, San Diego, CA 92101, United States
50 Hampshire Street, 5th Floor, Cambridge, MA 02139, United States
The Boulevard, Langford Lane, Kidlington, Oxford OX5 1GB, United Kingdom
No part of this publication may be reproduced or transmitted in any form or by any means, electronic or
mechanical, including photocopying, recording, or any information storage and retrieval system, without
permission in writing from the publisher. Details on how to seek permission, further information about the
Publisher’s permissions policies and our arrangements with organizations such as the Copyright Clearance
Center and the Copyright Licensing Agency, can be found at our website: www.elsevier.com/permissions.
This book and the individual contributions contained in it are protected under copyright by the Publisher
(other than as may be noted herein).
Notices
Knowledge and best practice in this field are constantly changing. As new research and experience broaden our
understanding, changes in research methods, professional practices, or medical treatment may become
necessary.
Practitioners and researchers must always rely on their own experience and knowledge in evaluating and using
any information, methods, compounds, or experiments described herein. In using such information or methods
they should be mindful of their own safety and the safety of others, including parties for whom they have a
professional responsibility.
To the fullest extent of the law, neither the Publisher nor the authors, contributors, or editors, assume any liability
for any injury and/or damage to persons or property as a matter of products liability, negligence or otherwise, or
from any use or operation of any methods, products, instructions, or ideas contained in the material herein.
ISBN: 978-0-323-99864-2
Contributors xi
About the Editors xv
Preface xix
1. Introduction 1
2. Role of deep learning techniques in epileptic seizure
detection 3
3. Proposed method of seizure detection 5
4. Results and discussion 12
5. Conclusions 16
References 16
1. Introduction 21
2. A brief literature survey 23
3. Dataset and modus operandi 24
4. Data visualization 30
5. Feature selection and dimensionality reduction 33
6. Experimental results and discussions 39
7. Conclusions 45
References 46
v
vi Contents
1. Introduction 49
2. Medical decision support system: A review 50
3. Ontological representation of MDSS 53
4. Integrated medical decision support system 57
5. Conclusion and future enhancement 62
References 63
1. Introduction 65
2. Modalities 66
3. Fusion process 67
4. AI based fusion 70
5. Evaluation 73
6. Experimental results 75
7. Conclusion and future scope 79
Acknowledgment 79
References 79
1. Introduction 83
2. Methods: Related work and dataset 86
3. Backpropagation neural network and training optimizers 88
4. BPNN implementation 92
Contents vii
1. Introduction 105
2. Related works 108
3. Methodology 109
4. Results 115
5. Conclusion 119
References 120
1. Introduction 123
2. Research background 125
3. Methods 126
4. Results and discussions 132
5. Conclusions 135
Conflicts of interest 135
References 135
1. Introduction 137
viii Contents
1. Introduction 157
2. Related work 158
3. Methodology 160
4. Results 163
5. Conclusion 167
References 167
1. Introduction 171
2. Related work 174
3. Methodology 175
4. Experimental results 178
5. Conclusion 184
References 184
Contents ix
1. Introduction 187
2. Architectural design and circuit modeling 189
3. Implementation and experimental verification 193
4. Results and discussions 201
5. Conclusion and future directions 202
References 204
1. Introduction 207
2. Dataset collection 209
3. LSTM neural network model 209
4. Implementation of LSTM neural network 215
5. Results and discussions 217
6. Conclusions 221
References 221
1. Introduction 295
2. Machine learning in healthcare 296
3. Proposed framework 302
4. Results and discussion 303
5. Conclusion and future scope 306
References 309
Index 313
Contributors
xi
xii Contributors
Dr. Sudipta Roy is working as an assistant professor in the Artificial Intelligence and Data
Science Department at JIO Institute, Navi Mumbai, Maharashtra, India. Prior to that, he
was a postdoctoral research associate at Washington University in St. Louis, MO, United
States. He has received his PhD in Computer Science and Engineering from the Depart-
ment of Computer Science and Engineering, University of Calcutta, Kolkata, West Bengal,
India. He is the author of more than 50 publications in refereed international journals and
conference proceedings published by IEEE, Springer, Elsevier, and many other publishers.
He has authored/edited four books and many book chapters. He holds a US patent in
medical image processing and has filed an Indian patent in the field of smart agricultural
systems. He has served as a regular reviewer for many international journals including
those published by IEEE, Springer, Elsevier, IET, and many other publishers, and interna-
tional conferences. He has served as an international advisory committee member and
program committee member of INDIAcom-2020, AICAE-2019, INDIACom-2019, CAAI
2018, ICAITA-2018, ICSESS-2018, INDIACom-2018, ISICO-2017, AICE-2017, and many
other conferences. Currently, he is serving as associate editor of IEEE Access (IEEE) and
International Journal of Computer Vision and Image Processing (IJCVIP; IGI Global) and
topic editor of Journal of Imaging (MDPI). In recognition of his exceptional contributions
to the IEEE Access journal as associate editor, the IEEE Access Editorial Board and Editorial
Office honored him as an Outstanding Associate Editor of 2020. He has more than 5 years
of experience in teaching and research. His fields of research interests are biomedical
image analysis, image processing, steganography, artificial intelligence, big data analysis,
machine learning, and big data technologies.
Dr. Lalit Mohan Goyal has completed PhD in Computer Engineering from Jamia Millia
Islamia, New Delhi, India, MTech (Honors) in Information Technology from Guru Gobind
Singh Indraprastha University, New Delhi, India, and BTech (Honors) in Computer Engi-
neering from Kurukshetra University, Kurukshetra, India. He has 17 years of teaching
experience in the areas of theory of computation, parallel and random algorithms, distrib-
uted data mining, and cloud computing. He has completed a project sponsored by the
Indian Council of Medical Research, Delhi. He has published and communicated more
than 40 research papers in SCI, SCIE, and Scopus-indexed journals and attended many
workshops, Faculty Development Programs, and seminars. He has filed nine patents in
the area of artificial intelligence and deep learning, out of which four have been granted
and others are published online. He is a reviewer of many reputed journals and confer-
ences. He is a series editor for CRC Press, Taylor & Francis, and has edited many books
xv
xvi About the Editors
for Elsevier and Springer. Presently, he is working in the Department of Computer Engi-
neering, J.C. Bose University of Science and Technology, YMCA, Faridabad, India.
Prof. Valentina E. Balas is currently full professor in the Department of Automatics and
Applied Software at the Faculty of Engineering, Aurel Vlaicu University of Arad, Romania.
She holds a PhD cum laude in Applied Electronics and Telecommunications from Poly-
technic University of Timisoara. Dr. Balas is the author of more than 400 research papers
in refereed journals and international conferences. Her research interests are in intelligent
systems, fuzzy control, soft computing, smart sensors, information fusion, and modeling
and simulation. She is the editor-in-chief of the International Journal of Advanced Intel-
ligence Paradigms (IJAIP) and International Journal of Computational Systems Engineer-
ing (IJCSysE), editorial board member of several national and international journals, and
expert evaluator for national/international projects and PhD theses. Dr. Balas is the direc-
tor of Intelligent Systems Research Centre in Aurel Vlaicu University of Arad and director
of the Department of International Relations, Programs and Projects in the same univer-
sity. She served as the general chair for nine editions of the International Workshop on Soft
Computing and Applications (SOFA) organized during the period 2005–2020 and held in
Romania and Hungary. Dr. Balas participated in many international conferences as orga-
nizer; honorary chair; session chair; member of the steering, advisory, or international
program committees; and keynote speaker. Recently, she was working on a national pro-
ject with EU funding support “BioCell-NanoART ¼ Novel Bio-inspired Cellular Nano-
Architectures—For Digital Integrated Circuits,” 3M Euro from the National Authority
for Scientific Research and Innovation. She is a member of the European Society for Fuzzy
Logic and Technology (EUSFLAT), member of the Society for Industrial and Applied
Mathematics (SIAM), a senior member of IEEE, member of Technical Committee—Fuzzy
Systems (IEEE Computational Intelligence Society), chair of the Task Force 14 in Technical
Committee—Emergent Technologies (IEEE CIS), and member of Technical Committee—
Soft Computing (IEEE SMCS). Dr. Balas was past vice president of the International Fuzzy
Systems Association (IFSA) Council (2013–2015), is a joint secretary of the governing
council of the Forum for Interdisciplinary Mathematics (FIM, a multidisciplinary aca-
demic body based in India), and is a recipient of the “Tudor Tanasescu” Prize from the
Romanian Academy for contributions in the field of soft computing methods (2019).
Dr. Basant Agarwal is working as an assistant professor at the Indian Institute of Informa-
tion Technology Kota (IIIT-Kota), India, which is an institute of national importance. He
holds a PhD and MTech from the Department of Computer Science and Engineering,
Malaviya National Institute of Technology Jaipur, India. He has more than nine years of
experience in research and teaching. He has worked as a postdoc research fellow at the
Norwegian University of Science and Technology (NTNU), Norway, under the prestigious
European Research Consortium for Informatics and Mathematics (ERCIM) fellowship in
2016. He has also worked as a research scientist at Temasek Laboratories, National
About the Editors xvii
University of Singapore (NUS), Singapore. His research interests are in artificial intelli-
gence, cyber-physical systems, text mining, natural language processing, machine learn-
ing, deep learning, intelligent systems, expert systems, and related areas.
Dr. Mamta Mittal is working as program head and associate professor (Data Analytics and
Data Science) in Delhi Skill and Entrepreneurship University (under the Government of
NCT Delhi), New Delhi, India. She received her PhD in Computer Science and Engineering
from Thapar University, Patiala; MTech (Honors) in Computer Science and Engineering
from YMCA, Faridabad; and BTech in Computer Science and Engineering from Kurukshe-
tra University, Kurukshetra, in 2001. She has been teaching for the last 18 years and spe-
cializes in data mining, machine learning, DBMS, and data structure. Dr. Mittal is a
lifetime member of CSI and has published more than 80 research papers in SCI, SCIE,
and Scopus-indexed journals. She holds five patents, two copyrights granted, and three
more published patents in the areas of artificial intelligence, IoT, and deep learning. Dr.
Mittal has edited/authored many books with reputed publishers like Springer, IOS Press,
Elsevier, and CRC Press and is working on a DST-approved project “Development of
IoT-Based Hybrid Navigation Module for Mid-sized Autonomous Vehicles” with a research
grant of 25 lakhs. Currently, she is guiding PhD scholars in the areas of machine learning,
computer vision, and deep learning. Dr. Mittal is an editorial board member for publishers
like Inderscience, Bentham Science, Springer, and Elsevier, and has handled special issues
and chaired a number of conferences. She is book series editor of Innovations in Health
Informatics and Healthcare: Using Artificial Intelligence and Smart Computing and
another series Edge AI in Future Computing for CRC Press, Taylor & Francis, United States.
She is associate editor, advisory member, and editor for Springer journals, Dyna (Spain),
and Elsevier journals, respectively.
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Preface
Machine learning (ML) techniques are used as predictive models for many applications
including those in the field of biomedicine. These techniques have shown impressive
results across a variety of domains in biomedical engineering research. Biology and med-
icine are data-rich disciplines, but the data are complex and often not properly under-
stood. Most biomedical data are categorized into structured, semi-structured, and
unstructured types with very high volume. The volume and complexity of these data pre-
sent new opportunities, but also pose new challenges. Automated algorithms that extract
meaningful patterns could lead to actionable knowledge and change how we develop
treatments, categorize patients, or study diseases, all within privacy-critical environ-
ments. This book addresses the issues described to predict and model biomedical data
mining and analysis. The book has been organized into 15 chapters.
Chapter 1 titled “Data Mining with Deep Learning in Biomedical Data” presents a time-
domain study of EEG signals to detect various neurological disorders with a specific focus
on epilepsy. The presented convolutional neural network (CNN), long short-term memory
network (LSTM), and CNN-LSTM hybrid models were used to detect seizure activities in
precisely filtered EEG segments. The experimental results reveal the suitability of the
CNN-LSTM hybrid model for accurate and prompt detection of epileptic seizures with
an accuracy of 98%, sensitivity of 98.48%, and specificity of 99.19%, so that patients could
be saved from major injuries or sudden expected deaths. These models can be useful in
the detection of various diseases or disorders such as schizophrenia, Parkinson’s disease,
and the identification of breast cancer and bone- or skin-related diseases.
Chapter 2 titled “Applications of Supervised Machine Learning Techniques with the
Goal of Medical Analysis and Prediction: A Case Study of Breast Cancer” analyzes the Wis-
consin Breast Cancer Diagnosis dataset for identifying essential features and assessing the
performance of some popular machine learning (ML) classifiers in breast cancer predic-
tion. The dataset is first cleaned by eliminating non-numerical values and normalizing the
data. The processed data are then visualized to grasp the hidden patterns and non-
essential attributes are trimmed. Eight different ML models are trained and tested over
the refined data for prediction of the two tumor classes. The presented study identified
vital features that were must-haves for the analysis, and the empirical results investigated
the superiority of particular ML classifiers over the others.
Chapter 3 titled “Medical Decision Support System Using Data Mining” describes how
a medical decision support system can support the medical decision-making processes at
both clinical and diagnostic levels. To provide an error-free and accurate service, clinicians
xix
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The Project Gutenberg eBook of The Loss of
His Majesty's Frigate Anson
This ebook is for the use of anyone anywhere in the United
States and most other parts of the world at no cost and with
almost no restrictions whatsoever. You may copy it, give it away
or re-use it under the terms of the Project Gutenberg License
included with this ebook or online at www.gutenberg.org. If you
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laws of the country where you are located before using this
eBook.
Author: Unknown
Language: English
LOSS
ANSON,
Which was Wrecked
AND ABOUT
FIFTY PERSONS LOST.
ALSO AN
AUTHENTIC NARRATIVE OF THE LOSS
OF
The Sidney,
WHICH RAN UPON A DANGEROUS ROCK OR SHOAL,
LONDON:
Printed for THOMAS TEGG, 111, CHEAPSIDE.
OF HIS
MAJESTY’S FRIGATE
ANSON,
Which was wrecked near Helston,
OF THE
SIDNEY,
BOUND TO BENGAL,
FAMINES AT SEA,
AND THEIR
Melancholy Consequences.
Letters received from St. Helena, in 1802, give a most singular and
affecting narrative respecting six deserters from the artillery of the
island. Their extraordinary adventures produced a course of inquiry
on the 12th of December last, when John Brown, one of the
survivors, delivered the following account upon oath, before Captain
Desfontaine, president, Lieutenant B. Hodson, and Ensign Young.
“In June, 1799, I belonged to the first company of artillery, in the
service of this garrison, and on the 10th of that month, about half an
hour before parade time, M’Kinnon, gunner, and orderly of the 2d
company, asked me if I was willing to go with him on board an
American ship, called the Columbia, Captain Henry Lelar, the only
ship then in the Roads. After some conversation, I agreed, and met
him about seven o’clock at the play-house, where I found one
M’Quinn, of Major Searle’s Company, another man called Brighouse,
another called Parr, and the sixth, Matthew Conway.
“Parr was a good seaman, and said he would take us to the island
of Ascension, or lay off the harbour till the Columbia could weigh
anchor and come out. We went down about eight o’clock to the
West Rocks, where the American boat was waiting for us, manned
with three American seamen, which took us alongside the Columbia.
We went on board. Parr went down into the cabin; and we changed
our clothes after having been on board half an hour.
“Brighouse and Conway proposed to cut out a whale-boat from
out of the harbour, to prevent the Columbia from being suspected;
which they effected, having therein a coil of rope and five oars, with
a large stone she was moored by. This happened about eleven
o’clock at night.
“We observed lanterns passing on the line towards the Sea-gate,
and hearing a great noise, thought we were missed, and searched
for. We immediately embarked in the whale-boat, with twenty-five
pounds of bread in a bag, and a small keg of water, supposed to
contain about thirteen gallons, one compass, and one quadrant,
given to us by the commanding officer of the Columbia; but in our
great hurry the quadrant was either left behind or dropped over-
board.
“We then left the ship, pulling with two oars only, to get a-head of
her. The boat was half full of water, and nothing to bale her out. In
this condition we rowed out to sea, and lay off the island a great
distance, expecting the American ship hourly.
“About twelve o’clock the second day, no ship appearing, by Parr’s
advice, we bore away, steering N. by W. and then N.N.W. for the
island of Ascension, using our handkerchie as substitutes for sails.
We met with a gale of wind, which continued two days. The weather
then became very fine, and we supposed we had run ten miles an
hour. M’Kinnon kept a reckoning, with pen, ink, and paper, supplied
by the Columbia, as also charts and maps.
“We continued our course till about the 18th in the morning, when
we saw a number of birds, but no land. About twelve that day Parr
said he was sure we must be past the island, accounting it to be
eight hundred miles from St. Helena. We then each of us took our
shirt, and with them made a small sprit-sail, and laced our jackets
and trowsers together at the waistband, to keep us warm; and then
altered our course to W. by N. thinking to make Rio de Janeiro, on
the American coast. Provisions running very short, we allowanced
ourselves only one ounce of bread for twenty-four hours, and two
mouthfuls of water.
“We continued until the 20th, when all our provisions were
expended. On the 27th, M’Quinn took a piece of bamboo in his
mouth to chew, and we all followed his example. On that night, it
being my turn to steer the boat, and remembering to have read of
persons eating their shoes, I cut a piece off one of mine; but it being
soaked with salt water, I was obliged to spit it out, and take the
inside sole, which I ate part of, and distributed to the rest, but found
no benefit from it.
“On the 1st of July, Parr caught a dolphin with a graff, that had
been left in the boat. We all fell on our knees, and thanked God for
his goodness to us. We tore up the fish, and hung it to dry: about
four we ate part of it, which agreed with us pretty well. On this fish
we subsisted till the 4th, about eleven o’clock, when, finding the
whole expended, bones and all, Parr, myself, Brighouse, and
Conway, proposed to scuttle the boat, and let her go down, to put us
out of our misery. The other two objected, observing, that God who
had made man, always found him something to eat.
“On the 5th, about eleven, M’Kinnon proposed, that it would be
better to cast lots for one of us to die, in order to save the rest; to
which we consented. William Parr, being sick two days before with
the spotted fever, was excluded. He wrote the numbers out, and put
them in a hat, which we drew out blindfolded, and put them in our
pockets. Parr then asked whose lot it was to die—none of us
knowing what numbers we had in our pockets—each one praying to
God that it might be his lot. It was agreed that No. 5 should die, and
the lots being unfolded, M’Kinnon’s was No. 5.
“We had agreed, that he whose lot it was should bleed himself to
death; for which purpose we had provided ourselves with nails
sharpened, which we got from the boat. M’Kinnon with one of them
cut himself in three places, in his hand, foot, and wrist, and praying
God to forgive him, died in about a quarter of an hour.
“Before he was quite cold, Brighouse, with one of those nails, cut
a piece of flesh off his thigh, and hung it up, leaving the body in the
boat. About three hours after we ate of it—only a very small bit. This
piece lasted us until the 7th. We dipped the body every two hours
into the sea, to preserve it. Parr having found a piece of slate in the
bottom of the boat, he sharpened it on the other large stone, and
with it cut another piece of the thigh, which lasted us until the 8th;
when, it being my watch, and observing the water about break of
day to change colour, I called the rest, thinking we were near shore;
but saw no land, it not being quite day-light.
“As soon as day appeared, we discovered land right a-head, and
steered towards it. About eight in the morning we were close to the
shore. There being a very heavy surf, we endeavoured to turn the
boat’s head to it: but being very weak, we were unable. Soon after
the boat upset! Myself, Conway, and Parr, got on shore, M’Quinn and
Brighouse were drowned.
“We discovered a small hut on the beach, in which were an Indian
and his mother, who spoke Portuguese; and I understanding that
language, learnt that there was a village about three miles distant,
called Belmont. This Indian went to the village, and gave information
that the French had landed, and in about two hours the governor of
the village, (a clergyman), with several armed men, took Conway
and Parr prisoners, tying them by their hands and feet, and slinging
them on a bamboo stick; and in this manner took them to the
village. I being very weak, remained in the hut some time, but was
afterwards taken.
“On our telling them we were English, we were immediately
released, and three hammocks provided. We were taken in them to
the governor’s house, who let us lie on his own bed, and gave us
milk and rice; but not having eaten any thing for a considerable
time, we were lock-jawed, and continued so till the 23d, during
which time the governor wrote to the governor of St. Salvador, who
sent a small schooner to a place called Porto Seguro, to take us to
St. Salvador. We were then conducted to Porto Seguro on horseback,
passing through Santa Croix, where we remained about ten days.
Afterwards we embarked; and, on our arrival at St. Salvador, Parr, on
being questioned by the governor, answered, “that our ship had
foundered at sea, and we had saved ourselves in the boat; that the
ship’s name was the Sally, of Liverpool, and belonged to his father,
and was last from Cape Coast Castle, on the coast of Africa, to touch
at the Ascension for turtle, and then bound for Jamaica.” Parr said
he was the captain.
“We continued at St. Salvador about 13 days, during which time
the inhabitants made up a subscription of 200£. each man. We then
embarked in the Maria, a Portuguese ship, for Lisbon; Parr as mate,
Conway boatswain’s-mate, myself being sickly as passenger. In
thirteen days we arrived at Rio de Janeiro. Parr and Conway sailed
for Lisbon, and I was left in the hospital. In about three months
Captain Elphinstone, of the Diomede, pressed me into his majesty’s
service, giving me the choice of remaining on that station or to
proceed to the admiral at the Cape. I chose the latter, and was put,
with seven suspected deserters, on board the Ann, a Botany Bay
ship, in irons, with the convicts. When I arrived at the Cape I was
put on board the Lancaster, of 64 guns. I never entered. I at length
received my discharge; since which I engaged in the Duke of
Clarence as a seaman. I was determined to give myself up the first
opportunity, in order to relate my sufferings to the men at this
garrison, to deter them from attempting so mad a scheme again.”
“In attending to the above narrative, as simple as it is affecting,
we cannot help noticing the justice of Providence, so strikingly
exemplified in the melancholy fate of M’Kinnon, the deluder of these
unhappy men, and the victim of his own illegal and disgraceful
scheme. May his fate prove a memento to soldiers and sailors, and a
useful though awful lesson to the encouragers and abettors of
desertion.”
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