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  • 1. Praveen Sethupathy sethupathyp@mail.nih.gov 12701 Found Stone Road, #302 Germantown, MD 20876 240-912-5183 Positions held National Human Genome Research Institute Bethesda, MD, USA Post-doctoral Research Fellow Summer 2008 - present Mentor: Dr. Francis S. Collins Education University of Pennsylvania Philadelphia, PA, USA PhD in Genomics and Computational Biology (3.9/4.0) Fall 2003 – Spring 2008 Advisors: Professors Sridhar Hannenhalli and Artemis G. Hatzigeorgiou Cornell University Ithaca, NY, USA B.A. in Computer Science with Distinction in All Subjects (3.7/4.0) June 2003 Mentor: Professor Thomas A. Cleland Research Experience University of Pennsylvania Department of Genetics Philadelphia, PA, USA Doctoral Student Fall 2003 – Spring 2008 • Analysis of the role of gene regulatory elements in human health and evolution Cornell University Department of Neurobiology and Behavior Ithaca, NY, USA Undergraduate Researcher Fall 2002 – Fall 2003 • Computational modeling of rodent olfactory system using NEURON Teaching Experience Cornell University Teaching Consultant/Assistant • CS 099 – Introduction to Matlab Summer 2003 • CS 130 – Web Design Summer 2002 • CS 100 – Introduction to Java Programming Spring 2001 – Spring 2003 Peer Reviewed Publications 1. L.A. Hindorff*, P. Sethupathy*, H.A. Junkins, E.A. Ramos, J.P. Mehta, F.S. Collins and T.A. Manolio (2009). Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc Natl Acad Sci USA, In submission. (* equal contribution) 2. G. Papadopoulos, M. Reczko, V. Simossis, P. Sethupathy and A.G. Hatzigeorgiou (2009). The database of experimentally supported targets: a functional update of TarBase 5.0. Nucleic Acids Research, 37:D155-158. 3. P. Sethupathy and F.S. Collins (2008). MicroRNA target site polymorphisms and human disease. Trends in Genetics, 24:489-497. 4. P. Sethupathy, H. Giang, J.B. Plotkin and S. Hannenhalli (2008). Genome-wide analysis of natural selection on human cis- elements. PLoS ONE, 10;3(9):e3137. 5. P. Sethupathy and S. Hannenhalli (2008). A tutorial of the Poisson Random Field model in population genetics. Advances in Bioinformatics, 2008:Article ID 257864 (also published as University of Pennsylvania Department of Computer and Information Science Technical Report No. MS-CIS-08-01).
  • 2. 6. L. Zhang, …, P. Sethupathy, …, A.G. Hatzigeorgiou, C.M. Croce and G. Coukos (2008). Genomic and epigenetic alterations deregulate microRNA expression in human epithelial ovarian cancer. Proc Natl Acad Sci USA, 105:7004-7009. 7. P. Sethupathy*, C. Borel*, M. Gagnebin, G.R. Grant, S. Deutsch, T.S. Elton, A.G. Hatzigeorgiou and S.E. Antonarakis (2007). Human miR-155 on chromosome 21 differentially interacts with its polymorphic target in the AGTR1 3’UTR – a mechanism for functional SNPs related to phenotypes. American Journal of Human Genetics, 81:405-413. (* equal contribution) Selected by Faculty of 1000 Biology 8. Y. Kawahara, B. Zinshteyn, P. Sethupathy, H. Iizasa, A.G. Hatzigeorgiou and K. Nishikura (2007). Redirection of silencing targets by adenosine-to-inosine editing of microRNAs. Science, 315:1137-1140. (Highlighted in Molecular Cell, 23:792- 793) 9. M. Megraw, P. Sethupathy, B. Corda and A.G. Hatzigeorgiou (2006). miRGen: a database for the study of microRNA genomic organization and function. Nucleic Acids Research, 35:D149-D155. 10. P. Sethupathy, M. Megraw and A.G. Hatzigeorgiou (2006). A guide through current computational approaches for the identification of mammalian microRNA targets. Nature Methods, 3:881-886. 11. P. Sethupathy, B. Corda and A.G. Hatzigeorgiou (2006). TarBase: A comprehensive database of experimentally supported animal microRNA targets. RNA, 12:192-197. (Highlighted in Nature Methods, 3:948) 12. P. Sethupathy*, M. Megraw*, M.I. Barrasa and A.G. Hatzigeorgiou (2005). Computational Identification of Regulatory Factors Involved in MicroRNA Transcription. Lecture Notes in Computer Science, 3746:457-468. (* equal contribution) 13. T.A. Cleland and P. Sethupathy (2006). Non-topographical contrast enhancement in the olfactory bulb. BMC Neuroscience, 7:7. (Highly Accessed) Book Chapters 1. P. Sethupathy, M. Megraw and A.G. Hatzigeorgiou (2008). A suite of resources for the study of microRNA ontology and function. In Regulation of Gene Expression by Small RNAs, eds. Rajesh Gaur and John Rossi, Taylor and Francis Group, LLC. 2. P. Sethupathy, M. Megraw and A.G. Hatzigeorgiou (2006). Computational approaches to elucidate microRNA biology. In microRNAs: From Basic Science to Disease Biology, ed. Krishnarao Appasani, Cambridge University Press. Peer Reviewed Conference Abstracts 1. P. Sethupathy and A.G. Hatzigeorgiou (2007). A functional SNP interferes with miR-155 targeting. Keystone Symposium 2007: MicroRNAs and siRNAs: Biological Functions and Mechanisms, Keystone, CO, USA. 2. P. Sethupathy, J. Hirel and A.G. Hatzigeorgiou (2006). The diversity of microRNA targets: A combined computational- experimental study. Cold Spring Harbor Annual Symposium 2006: Regulatory RNAs, Cold Spring Harbor, NY, USA. 3. P. Sethupathy, B. Corda and A.G. Hatzigeorgiou (2006). TarBase: a database of validated microRNA targets. Keystone Symposium 2006: RNAi and Related Pathways, Vancouver, British Columbia, Canada. Invited Talks 1. Exploring the role of microRNA deregulation and neo-functionalization in human disease. NIH Intramural Sequencing Center (NISC), National Human Genome Research Institute, Rockville, MD, USA (July 2008). 2. Analysis of the role of gene regulatory elements in human health and evolution. Department of Biostatistics, University of Michigan, Ann Arbor, MI, USA (March 2008). 3. Analysis of the role of gene regulatory elements in human health and evolution. National Human Genome Research Institute, Bethesda, MD, USA (February 2008).
  • 3. 4. Analysis of the role of gene regulatory elements in human health and evolution. Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA (February 2008). 5. Analysis of the role of gene regulatory elements in human health and evolution. Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA (February 2008). 6. Combined computational-experimental analysis of microRNA targeting. Department of Genetics, Yale University, New Haven, CT, USA (March 2007). 7. The role of computational science in biology and medicine. NSF Colloquium on Computational Science at Bennett College, Greensboro, NC, USA (September 2006). 8. Computational approaches to microRNAs: new players in the maintenance of life. International Conference on Computational Science and Education, Rochester, NY, USA (August 2006). 9. A combined computational-experimental approach to the discovery of microRNA targets. National Center for Biological Sciences, Bangalore, India (July 2006). 10. Computational identification of regulatory factors involved in microRNA transcription. Pan-hellenic Conference on Informatics, Volos, Greece (November 2005).