PERSONAL DATA

Name Deendayal Dinakarpandian (Dinakar)

Address 5110 Rockhill Road RHFH 550E, Kansas City, MO 64110-2499
Phone 816 235 5942
Fax 816 235 5159
E-mail dinakard@umkc.edu
OBJECTIVE
Career in research and teaching based on my dual training as a physician and a computational scientist
EDUCATION
M.B.B.S., Jawaharlal Institute of Post-Graduate Medical Education and Research (JIPMER), (A premier national
institution), Pondicherry, India, 1990
M.D., Clinical Biochemistry, JIPMER, Pondicherry, India, 1993
Ph.D., Biochemistry, Case Western Reserve University (CWRU), Cleveland, OH, 1999
M.S., Computer Science, University of Missouri at Kansas City, 2002
PRESENT POSITION
Associate Professor, Department of Computer Science and Electrical Engineering, School of Computing and
Engineering (SCE), University of Missouri-Kansas City (UMKC), Kansas City, Missouri. Since Fall 2008
PROFESSIONAL HISTORY
Assistant Professor, Department of Computer Science and Electrical Engineering, School of Computing and
Engineering (SCE), University of Missouri-Kansas City (UMKC), Kansas City, Missouri. 2002-2008
Visiting Scientist, Stowers Institute for Biomedical Research, Kansas City, Missouri. Summer 2002
Visiting Assistant Professor, Computer Science, SCE, University of Missouri-Kansas City (UMKC), Missouri. Spring
2002
Postdoctoral Fellow, Biochemistry & Molecular Biology, Kansas University Medical Center, Kansas City, Kansas.
1999-2001. Advisor: Dr. Hideaki Nagase
Graduate Research Assistant, Biochemistry, Case Western Reserve University, Cleveland, Ohio. 1994-1998. Advisor:
Dr. Paul Carey
Graduate Teaching Assistant, Biochemistry, Ohio State University, Columbus, Ohio. 1993-1994
Junior Resident, Biochemistry, JIPMER, India. 1990-1993
PROFESSIONAL MEMBERSHIPS
Member of ISCB (The International Society of Computational Biology)
Member of AMIA (American Medical Informatics Association)
AWARDS
Research grant from Childrens Mercy Hospital for the project Designing Software for Motion Compensated Digital
Tomosynthesis. Role: co-I. 2015-2017
Research grant from the University of Missouri-Board Grant for the project AMIPAL: Active Mobile Interfaces for
Promoting Active Lifestyles. Role: co-PI. 2013-2014
Research grant from the National Institute of Mental Health (NIMH/NIH R43) for the project An Intelligent Online
System for Enhanced Recruitment of Patients for Clinical Research Role: PI. 2009-2012
Research grant from University of Missouri-Kansas City Research Board for the project GO-DIVINE: Divining
answers to biological questions based on the Gene Ontology. Role: PI. 2008-2009
Research grant from the National Science Foundation (NSF) for the project SGER: ARTISAN - Art Inspired Service
Oriented Architecture Design. Role: Co-PI. 2007-2009
Research grant from University of Missouri-Kansas City Research Board for the project MachineProse Trove: A
Semantic Index of Knowledge. Role: PI. 2006
Research grant from UMRB (University of Missouri Research Board) for the project Tandem Machine Learning for
the Prediction of Gene Targets for Transcription Factors. Role: PI. 2004-2005
Teaching grant from the Center for Creative Studies at UMKC for the course Learning Metamodels in Biology from
the Nobel Prizes. Role: PI. 2004-2005
HONORS

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 Upsilon Pi Epsilon
Featured as Favorite Professor in UMKC Perspectives Magazine, Spring 2006
Nominated to UMKC Annual Faculty & Staff Appreciation Luncheon, 2005
University of Missouri New Faculty Teaching Scholar. 2003-2004
RESEARCH INTERESTS
Machine learning and Data mining approaches to problems in biology and medicine, Knowledge Representation,
Modeling biological systems, Sequence and structural analyses of biomolecules
TEACHING EXPERIENCE
Instructor:
CS191 (Discrete Mathematics)
CS394R (Applied Probability)
CS490MB (Learning Metamodels in Biology from the Nobel Prizes New Course)
CS5565 (Introduction to Statistical Learning)
CS5566 (Introduction to Bioinformatics New Course)
CS5567 (Machine Learning for Bioinformatics New Course)
CS470 (Introduction to Databases)
Instructor for clinical biochemistry for medical students at JIPMER
Instructor for general biology lab section at Ohio State University
Teaching assistant:
General Biochemistry course at Case Western Reserve University
Proteins and Enzymes course at Case Western Reserve University
JOURNAL PUBLICATIONS
1. Doherty, C.M., Visse, R., Dinakarpandian, D., Strickland, D.K., Nagase, H., Troeberg, L. Engineered Tissue Inhibitor
of Metalloproteinases-3 Variants Resistant to Endocytosis Have Prolonged Chondroprotective Activity. J. Biol. Chem.
doi:10.1074/jbc.M116.733741 (Accepted)
2. Polk, B.I., Dinakarpandian, D., Nanda, M., Barnes, C., Dinakar, C. 2016. Association of tree nut and coconut
sensitization. Annals of Allergy, Asthma & Immunology. S1081-1206(16): 30448-3
3. Twist,G.P., Gaedigk, A., Miller, N.A., Farrow, E.G., Willig, L.K., Dinwiddie, D.L., Petrikin, J.E., Soden, S.E., Herd,
S., Gibson, M., Cakici, J.A., Riffel, A.K., Leeder, J.S., Dinakarpandian, D., Kingsmore, S.F. 2016. Constellation: a
tool for rapid, automated phenotype assignment of a highly polymorphic pharmacogene, CYP2D6, from whole-
genome sequences. npj Genomic Medicine 1, Article No.: 15007
4. Lee, Y., Krishnamoorthy, S., Dinakarpandian, D. 2013. A semantic framework for intelligent matchmaking for
clinical trial eligibility criteria. ACM TIST. 4(4): 71
5. Mathur S, Dinakarpandian D. 2012. Finding disease similarity based on implicit semantic similarity. J Biomed Inform.
45(2): 363-71
6. Dinakarpandian D, Williams AR, Dinakar C. 2010. J Allergy Clin Immunol. Physician needs in health informatics:
just ask the docs. 125(6):1401-1403
7. Dinakarpandian, D., Lee, Y, Dinakar, C. 2007. Applications of Medical Informatics in Allergy/Immunology. Annals
of Allergy, Asthma & Immunology. 99(1): 2-9
8. Dinakarpandian, D., Tong, T., Lee, Y. 2007. A Pragmatic Approach to Mapping Open Biomedical Ontologies.
International Journal of Bioinformatics Research and Applications (IJBRA), Special Issue on Ontologies for
Bioinformatics. 3(3): 341-365
9. Dinakarpandian, D., Lee, Y., Vishwanath, K., Lingambhotla, R. MachineProse: An Ontological Framework for
Scientific Assertions. 2006. J Am Med Inform Assoc. 13(2): 220-232
10. Dinakarpandian, D., Raheja, V., Mehta, S., Rogan, P.K. 2005. Tandem Machine Learning for the Identification of
Genes Regulated by Transcription Factors. BMC Bioinformatics. 6: 204
11. Mehta, S., Dinakarpandian, D. 2005. ConsDiff: An Algorithm for the Detection of Conserved Differences between
Protein Sequences. Data & Knowledge Engineering. 53(1): 31-43
12. Dinakarpandian, D., Morrissette, V., Chaudhary, S., Amini, K. and Van Horn, J.D. 2004. An Informatics Search for
the Low-Molecular Weight Chromium-Binding Peptide. BMC Chemical Biology. 4(1):2
13. Linda C., Dinakarpandian, D., Yoshida, N., Visse, R., Nagase, H. 2004. Collagenase Unwinds Triple Helical Collagen
Prior to Peptide Bond Hydrolysis. EMBO J. 23(15): 3020-30
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14. Dinakarpandian, D., Dong, J., Carey, P. R. 2000. A Variable Temperature Mount for a Microliter-Raman Cell. Appl.
Spectrosc. 54(1): 153-154
15. Chung, L., Shimokawa, Ki., Dinakarpandian, D, Grams, F., Fields, G.B., Nagase, H. 2000. Identification of the
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RWTNNFREY191 Region as a Critical Segment of Matrix Metalloproteinase 1 for the Expression of Collagenolytic
Activity. J. Biol. Chem. 275(38): 29610-29617
16. Brew, K., Dinakarpandian, D., Nagase, H. 2000. Tissue Inhibitors of Metalloproteinases: Evolution, Structure and
Function. Biochim. Biophys. Acta. 1477(1-2): 267-283
17. Dinakarpandian, D., Carey, P. R. 1999. Molecular Structure of 5-Methyl Thiophene Acryloyl Ethyl Thiolester: A
Vibrational Spectroscopic and Density Functional Theory Study. Biospectroscopy. 5: 201-218
18. Dinakarpandian, D., Shenoy B. C., Hilvert, D., McRee, D. E., McTigue, M., Carey, P. R. 1999. Electric Fields in
Active Sites: Substrate Switching from Null to Strong Fields in Thiol- and Selenol-Subtilisins. Biochemistry. 38(20):
6659-6667
19. Dong, J., Dinakarpandian, D., Carey, P. R. 1998. Extending the Raman Analysis of Biological Samples to the 100
Micromolar Concentration Range. Appl. Spectrosc. 52(8): 1117-1122
20. Dinakarpandian, D., Shenoy, B., Pusztai-Carey, M., Malcolm, B. A., Carey, P. R. Active Site Properties of
the 3C Proteinase from Hepatitis A Virus (A Hybrid Cysteine/Serine Protease) Probed by Raman
Spectroscopy. 1997. Biochemistry. 36(16): 4943-4948
CONFERENCE PAPERS (PEER-REVIEWED)
1. Lee, Y., Jana, S., Mylavarapu, T., Dinakarpandian, D., Owens, D. 2012. MindFlow: Intelli-gent Workflow for
Clinical Trials in Mental Healthcare. Hawaii International Conference on System Sciences (HICSS). Mauii, USA
2. Mathur, S. and Dinakarpandian, D. 2011. Drug Repositioning using Disease Associated Biological Processes and
Network Analysis of Drug Targets. AMIA Annu Symp Proc. 305-11, Washington, DC, USA
3. Lee, Y., Katakam, N., Dinakarpandian, D., Owens, D. 2011. VirtualMindTrial: Virtual Clinical Trials for Mental
Healthcare. Proceedings of the 44th Hawaii International Conference on System Sciences, Koloa, USA
4. Lee, Y., Dinakarpandian, D., Nikhilesh Katakam, Owens, D. 2010. MindTrial: An Intelligent System for Clinical
Trials. American Medical Informatics Association (AMIA) Annual Symposium, Washington, DC, USA
5. Mathur, S. and Dinakarpandian, D. 2010. Automated Ontological Gene Annotation for Computing Disease Similarity.
American Medical Informatics Association (AMIA) Summit on Translational Bioinformatics. San Francisco, USA
6. Tong, T., Dinakarpandian, D. and Lee, Y. 2009. Literature Clustering using Citation Semantics. Proceedings of the
42nd Hawaii International Conference on System Sciences. Manoa, USA
7. Park, M., Sanghvi, J., Dinakarpandian, D. 2007. INDARE - An Indexed DAG of Regular Expressions for Selecting
Position Frequency Matrices. Proceedings of the 2007 IEEE International Conference on Bioinformatics &
Biomedicine, Workshop on High-Throughput Data Analysis for Proteomics and Genomics. Silicon Valley, USA
8. Dasgupta, S., Dinakarpandian, D., Lee, Y. 2007. A Panoramic Approach to Integrated Evaluation of Ontologies in the
Semantic Web. Proceedings of the 6th International Semantic Web Conference 5th International EON Workshop.
Busan, Korea
9. Mathur, S., Dinakarpandian, D. 2007. A New Metric to Measure Gene Product Similarity. (Proceedings of the 2007
IEEE International Conference on Bioinformatics & Biomedicine, Silicon Valley, USA)
10. Dinakarpandian, D., Tong, T. and Lee, Y. 2007. Modeling Biomedical Assertions in the Semantic Web. Proceedings
of the 22nd ACM Symposium on Applied Computing (SAC), Seoul, Korea
11. Viswanath, V., Tong, T., Dinakarpandian, D., Lee, Y. 2006. Transformation Modeling for Congenital Heart Defect
Diagrams. Proceedings of the American Medical Informatics Association (AMIA) Annual Symposium, Washington,
DC, USA
12. Mehta, S., Dinakarpandian, D. 2003. ConsDiff: Identification of Conserved Differences between Sets of Amino Acid
Sequences. Proceedings of the 14th International Conference on Database and Expert Systems Applications (DEXA),
Prague, Czech Republic
13. Dinakarpandian, D., Kumar, V. 2002. BIOMIND A System for Protein Property Prediction by Property Proximity
Profiles. Proceedings of the 17th ACM Symposium on Applied Computing Bioinformatics Track, Madrid, Spain
BOOK CHAPTERS
1. Dinakarpandian, D. Mitigating High Dimensionality in Big Data Analysis. 2015. Big Data Analyses for
Bioinformatics and Biomedical Discoveries. ISBN 9781498724524. CRC Press. Editor: Shui Qing Ye.
2. Dinakarpandian, D., Dinakar, C. 2010. Bioinformatics in Allergy: A Powerful Tool Joining Science and Clinical
Applications. Allergy Frontiers: Future Perspectives. ISBN 978-4-431-99364-3. Springer Japan KK. Editors:
Pawankar, R. Holgate, S. and Rosenwasser, L
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 INVITED TALKS
Intelligent imaging for radiology. Engineering in Medicine and Biology Society, KC IEEE. Sep 8th, 2016
In silico drug repurposing. Didactic Seminar, Department of Biomedical and Health Informatics, UMKC. Feb 24th,
2014
Inferring disease similarity from annotated data. Center of Excellence in Mineralized Tissues, UMKC. Feb 9th, 2011
When there are several actors in several roles: Morass or gold mine for informatics? Division of Biomedical
Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati. Jan 28th, 2010
MachineProse: Networking Molecules and Medicine. Scientific Session of the JIPMER Alumni Meeting.
Pondicherry, India. Aug 1, 2009
The Role of Informatics in Connecting Bench to Bedside in Allergy, Asthma & Immunology. NIH Bioinformatics
Summit. Division of Allergy, Immunology and Transplantation, National Institute of Allergy and Infectious Diseases,
NIH, Bethesda, MD. Oct 20th, 2008
MachineProse: An Ontological Framework for Scientific Research. School of Computer & Engineering Seminar
Series, University of Missouri-Kansas City. Feb 23rd, 2007
Bioinformatic Stratagems for Decoding Knowledge from Data and Encoding Knowledge as Data. MRRC Seminar
Series, Kansas University Medical Center, Kansa City, Kansas. Nov 18th, 2005
Towards Discernment in Proteins, Genes and Literature. Genome Sequencing Center, Washington University,
Missouri. April 29th, 2005
Bioinformatics of Asthma. Workshop on Practical Procedures in Allergy Testing, sponsored by Medical Council of
India. JIPMER, Pondicherry, India. Jan 1st, 2005
Finding Functional Residues and Domains in Proteins and Proteomes. Oral Biology Seminar Series, UMKC. Jun 9th,
2004
Machine Learning Approaches to Solving the Classical 2-class Problem in Bioinformatics. Computational Fluid
Dynamics Research Corporation, Huntsville, Alabama. March 19th, 2004
A Bioinformatics view of Proteomics. Proteomics group meeting, UMKC. Jan 13th, 2004
Meta models in biology: Matching experiment with theory. Department of Physics, UMKC. Sep 12th, 2003
Discovery of novel conserved protein domains by sequence partitioning using the libraries of known domains. 3M, St.
Paul, Minnesota. July 21st, 2003
An Introduction to Bioinformatics: A Peek behind the Hype. Student chapter of the ACM at UMKC. Feb 17th, 2003
Bioinformatics: What, When, Why? Invited presentation at JIPMER, Pondicherry, India. Jan 6th, 2003
SERVICE
Review of manuscripts for BMC Bioinformatics, Genomics, IBM Journal of Research & Development, Journal of
Allergy and Clinical Immunology Journal of the American Medical Informatics Association, Journal of Biological
Chemistry, Journal of Biomedical Informatics, Oncotarget, PLoS One
Computational Track Coordinator for the Graduate Program in Bionformatics, UMKC. Since 2009
Chair of BS CS Degree Program Committee, School of Computing & Engineering, UMKC. Since Fall 2008
Member of the Ethics Advisory Committee, Xenotech LLC. 2008-2009
Conference Program Committee Member for the IASTED International Conference on Computational and Systems
Biology (CASB 2006, 2008), International Workshop on Biological Data Management, International Conference on
Database and Expert Systems Applications (DEXA 2004, 2005), 1st International Conference on Distributed
Computing & Internet Technology (ICDCIT 2004)
Member of the Publications Committee of the International Society for Computational Biology (ISCB). Member of
the Public Affairs & Policies Committee, ISCB. Since 2007
Member of UMKC Committee on Bioinformatics: Major contribution to the development of a curriculum for a
graduate program in Bioinformatics at UMKC
Masters Thesis Supervision (Chair): Sunil Tadaka, Fall 2003; Arvind Krishnaswamy, Sachin Mathur, Summer 2004;
Brian Hare, Arpan Biswas, Fall 2004; Vikram Gollakota, Spring 2005; Jubin Sanghvi, Fall 2005; Sunil Wagh, Balaji
Jayaraman, Spring 2006; Venetia Raheja, Fall 2006; John Howard, Spring 2007; Pablo de Morais Andrade, Saranya
Krishnamoorthy, 2011; Greg Nichols, 2012; Sowmya Ginjupalli, Pratima Gorla, 2013; Rama Raghavan, Rajasekar
Rajendran, 2014; Kendall Bingham, 2015; Justin Baraboo, Anthony Shipman (current)
Ph.D Supervision (Chair): Sachin Mathur, 2012; Tejo Manchu, Khulud Alsultan, Ronald Ayoub (current)

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 CONFERENCES AND WORKSHOPS
th
16 International Conference on Intelligent Systems for Molecular Biology (ISMB) Oral presentation in
Bioontologies SIG, Toronto, Canada, 2008
15th International Conference on Intelligent Systems for Molecular Biology (ISMB) Oral presentation in
Highlights Track, Vienna, Austria, 2007
Gordon conference on Bioinformatics: From Prediction to Inference, Hanover, New Hampshire, 2007
12th International Conference on Intelligent Systems for Molecular Biology (ISMB) Oral & Poster presentations,
Glasgow, UK, 2004
14th International Conference on Database and Expert Systems Applications (DEXA) Oral Presentation, Prague,
Czech Republic, 2003
Gordon conference on Bioinformatics: From Prediction to Inference, Oxford, UK, 2003
10th International Conference on Intelligent Systems for Molecular Biology (ISMB) Poster presentation, Edmonton,
Canada, 2002
17th ACM Symposium on Applied Computing, Madrid, Spain-Oral presentation, 2002
Gordon conference on matrix metalloproteinases, New London-poster presentation, 1999
Ohio super computer workshop on computational chemistry, Cleveland, 1998
Ohio super computer workshop on the Cray T94, Columbus, 1998

XVth International conference on Raman spectroscopy, Pittsburgh-poster presentations, 1996

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