Honors
1998	Sigma Xi Research Award
1998	Virginia Tech. Grants-in Aid of Research Award
1995	Post Masters Fellowship, Oak Ridge Associated Universities, ORNL
1996-1997	Doctoral Research Grant ORNL
1993-1994	Honors Fellowship, Graduate School, University of Mississippi

Education
	B.S. Zoology, Calcutta University, Calcutta, India, 1988
	M.S., Zoology (Parasitology), Calcutta University, Calcutta, India, 1991
	M.S., Microbiology, University of Mississippi, Mississippi, 1994
	Ph.D., Microbiology, Virginia Tech. Virginia, 1999
	Postdoc., Computational Biology, George Mason University, Virginia, 2000

Selected Teaching/Workshops
Workshop in Molecular Phylogenetics and Evolution. Howard Huges Scholar Program. Department of Biology, Georgetown University Mason University. June 04-05, 2007.
Comparative analysis of protein structures: Principles, tools, and applications for establishing evolutionary relationship and predicting function. Tutorial ISMB 2007. Vienna, Austria. July 21, 2007.
Genomics. Graduate Course. Course Title: Comparative Genomics. George Mason University. 2006.
PIRSF Protein Classification System (PCS). Software demo at ISMB 2006. Fortaleza, Brazil. August 2, 2006.
Medical Bioinformatics. Course Title: Medical Biochemistry. Medical School Course at Georgetown University Medical Center. 2004-present.
From sequence to structure to function. Course Title: Proteomics and Biomarkers. Graduate/undergraduate level course at Georgetown University Medical Center. 2004-present.
Literature mining. Course Title: Medical Biochemistry. Medical School course at Georgetown University Medical Center. February 16, 2005.
Medical Informatics. Graduate/Undergraduate Course: Department of Biochemistry and Molecular Biology. Georgetown University Medical Center. January 18, 2005.
Protein Sequence Analysis. Graduate/Undergraduate Course: Fundamentals of Proteomics. Department of Biochemistry and Molecular Biology. George Washington University, Washington, DC. March 9, 2004.
Demo: Protein Information Resource. NIH Proteomics Workshop. Foundation for Advanced Education in the Sciences, National Institute of Health. March 26, 2004.
Protein Sequence Analysis. . Graduate/Undergraduate Course: Bioinformatics. Department of Biochemistry. Georgetown University, Washington, DC. February 4, 2004.
UniProt (Universal Protein Resource): A Comprehensive Catalog of Information on Proteins. 12th. International Conference on Intelligent Systems for Molecular Biology and 3rd European Conference on Computational Biology, 2004. Glasgow, Scotland.

Selected Invited Talks
Mazumder R. Discovery of Diagnostic Probes Unique for Salmonella enterica. Target identification based on CUPID and PNNL data and confirmed by PCR. Biodefense Proteomics Research Centers Fifth Programmatic Meeting. Washington DC/Rockville June 9 - 10, 2008
Enhancing the Understanding of Biological Systems Through Annotation and Integration of Genomic and Proteomic Data. Applied Biosystems, Foster City, California. July 14, 2006.
Applications of Evolutionary Analysis of Proteins and DNA in Protein Function and Feature Prediction. The Institute for Genomic Research. April 27, 2006.
Identification of diagnostic targets in water-borne pathogens. District of Columbia Water Authority. Washington DC. September 29, 2005.
Identification of diagnostic targets using computational biology tools. Department of Biology, Georgetown University. September 9, 2005.
Extracting information from protein sequences and structures. Lombardi Cancer Research Institute. Graduate Course in Bioformatics. Guest Speaker. August 2004.
Protein Bioinformatics and Protein Sequence analysis. Bioinformatics Career Seminar for Post-Docs, National Institute of Health. April 12 2004.
Detection of remote homologs, structure-function analysis and evolutionary classification of proteins. Departmental Seminar Series. Biometry and Epidemiology Dept. of the Medical University of South Carolina, Charleston, SC. September 8 2003.
Understanding the emergence and functional diversification of proteins through comparison of protein sequences and structures. Departmental Seminar Series. Department of Biochemistry and Molecular Biology. George Washington University, Washington, DC. November 7 2003.

Selected Publications
A comprehensive protein-centric ID mapping service for molecular data integration. Huang H, McGarvey PB, Suzek BE, Mazumder R, Zhang J, Chen Y, Wu CH. Bioinformatics. Apr 15;27(8):1190-1.. 2011.
Ongoing and future developments at the Universal Protein Resource. UniProt Consortium. Nucleic Acids Res. 39(Database issue):D214-9. 2011.
From protein sequences to 3D-structures and beyond: the example of the UniProt knowledgebase. Hinz U; UniProt Consortium. Cell Mol Life Sci. 67(7):1049-64. 2010.
Community annotation in biology. Mazumder R, Natale DA, Julio JA, Yeh LS, Wu CH. Biol Direct. 5:12. 2010.
The Universal Protein Resource (UniProt) in 2010. UniProt Consortium. Nucleic Acids Res. 38(Database issue):D142-8. 2010.
Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets. McGarvey PB, Huang H, Mazumder R, Zhang J, Chen Y, Zhang C, Cammer S, Will R, Odle M, Sobral B, Moore M, Wu CH. PLoS One. 4(9):e7162. 2009.
Sequence signatures in envelope protein may determine whether flaviviruses produce hemorrhagic or encephalitic syndromes. Barker WC, Mazumder R, Vasudevan S, Sagripanti JL, Wu CH. Virus Genes. 39(1):1-9. 2009.
The Universal Protein Resource (UniProt) 2009. UniProt Consortium. Nucleic Acids Res. 37(Database issue):D169-74. 2009.
Structure-guided comparative analysis of proteins: principles, tools, and applications for predicting function. Mazumder R, Vasudevan S. PLoS Comput Biol. 4(9):e1000151. 2008.
Protein functional annotation by homology. Mazumder R, Vasudevan S, Nikolskaya AN. Methods Mol Biol. 484:465-90. 2008.
An emerging cyberinfrastructure for biodefense pathogen and pathogen-host data. Zhang C, Crasta O, Cammer S, Will R, Kenyon R, Sullivan D, Yu Q, Sun W, Jha R, Liu D, Xue T, Zhang Y, Moore M, McGarvey P, Huang H, Chen Y, Zhang J, Mazumder R, Wu C, Sobral B. Nucleic Acids Res. 36(Database issue):D884-91. 2008.
Computational analysis and identification of amino acid sites in dengue E proteins relevant to development of diagnostics and vaccines. Mazumder R, Hu ZZ, Vinayaka CR, Sagripanti JL, Frost SD, Kosakovsky Pond SL, Wu CH. Virus Genes. 35(2):175-86. 2007.
UniRef: comprehensive and non-redundant UniProt reference clusters. Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH. Bioinformatics. 23(10):1282-8. 2007.
The Universal Protein Resource (UniProt). UniProt Consortium. Nucleic Acids Res. 35(Database issue):D193-7. 2007.
The Universal Protein Resource (UniProt): an expanding universe of protein information. Wu CH, Apweiler R, Bairoch A, Natale DA, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Mazumder R, O'Donovan C, Redaschi N, Suzek B. Nucleic Acids Res. 34(Database issue):D187-91. 2006.
Computational identification of strain-, species- and genus-specific proteins. Mazumder R, Natale DA, Murthy S, Thiagarajan R, Wu CH. BMC Bioinformatics. 6:279. 2005.
The PIR superfamily (PIRSF) classification system. Barker WC, Mazumder R, Nikolskaya A, Wu CH. in: Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics, Part 3 Proteomics, Section 6 Proteome Families, Chapter 87. MJ Dunn (Ed.), John Wiley & Sons, Ltd. 2005.
GeneOrder3.0: software for comparing the order of genes in pairs of small bacterial genomes. Celamkoti S, Kundeti S, Purkayastha A, Mazumder R, Buck C, Seto D. BMC Bioinformatics. 5:52. 2004.
A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes. Koonin EV, Fedorova ND, Jackson JD, Jacobs AR, Krylov DM, Makarova KS, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Rogozin IB, Smirnov S, Sorokin AV, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA. Genome Biol. 5(2):R7. 2004.
PIRSF: family classification system at the Protein Information Resource. Wu CH, Nikolskaya A, Huang H, Yeh LS, Natale DA, Vinayaka CR, Hu ZZ, Mazumder R, Kumar S, Kourtesis P, Ledley RS, Suzek BE, Arminski L, Chen Y, Zhang J, Cardenas JL, Chung S, Castro-Alvear J, Dinkov G, Barker WC. Nucleic Acids Res. 32(Database issue):D112-4. 2004.
High efficiency degradation of tetrahydrofuran (THF) using a membrane bioreactor: identification of THF-degrading cultures of Pseudonocardia sp. strain M1 and Rhodococcus ruber isolate M2. Daye KJ, Groff JC, Kirpekar AC, Mazumder R. J Ind Microbiol Biotechnol. 30(12):705-14. 2003.
The COG database: an updated version includes eukaryotes. Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA. BMC Bioinformatics. 4:41. 2003.
Evolution of eukaryotic gene repertoire and gene structure: discovering the unexpected dynamics of genome evolution. Rogozin IB, Babenko VN, Fedorova ND, Jackson JD, Jacobs AR, Krylov DM, Makarova KS, Mazumder R, Mekhedov SL, Mirkin BG, Nikolskaya AN, Rao BS, Smirnov S, Sorokin AV, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA, Koonin EV. Cold Spring Harb Symp Quant Biol. 68:293-301. 2003.
MMDB: Entrez's 3D-structure database. Chen J, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler-Bauer A, Marchler GH, Mazumder R, Nikolskaya AN, Rao BS, Panchenko AR, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH. Nucleic Acids Res. 31(1):474-7. 2003.
CDD: a curated Entrez database of conserved domain alignments. Marchler-Bauer A, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler GH, Mazumder R, Nikolskaya AN, Panchenko AR, Rao BS, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH. Nucleic Acids Res. 31(1):383-7. 2003.
Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily. Mazumder R, Iyer LM, Vasudevan S, Aravind L. Nucleic Acids Res. 30(23):5229-43. 2002.
Trends in protein evolution inferred from sequence and structure analysis. Aravind L, Mazumder R, Vasudevan S, Koonin EV. Curr Opin Struct Biol. 12(3):392-9. 2002.
CoreGenes: a computational tool for identifying and cataloging core genes in a set of small genomes. Zafar N, Mazumder R, Seto D. BMC Bioinformatics. 3:12. 2002.
Comparisons of gene colinearity in genomes using GeneOrder2.0. Zafar N, Mazumder R, Seto D. Trends Biochem Sci. 26(8):514-6. 2001.
GeneOrder: comparing the order of genes in small genomes. Mazumder R, Kolaskar A, Seto D. Bioinformatics. 17(2):162-6. 2001.
Low-substrate regulated microaerophilic behavior as a stress response of aquatic and soil bacteria. Mazumder R, Pinkart HC, Alban PS, Phelps TJ, Benoit RE. Curr Microbiol. 41(2):79-83. 2000.
Determining chemotactic responses by two subsurface microaerophiles using a simplified capillary assay method. Mazumder R, Phelps TJ, Krieg NR, Benoit RE. J Microbiol Methods. 37(3):255-63. 1999.

Patent
Molecular targets for diagnostics and vaccines against Dengue virus. Filed 2008.

Revised 04/05/2011