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
Mazumder R, Vasudevan S, Nikolskaya AN. Protein functional annotation by homology. Methods Mol Biol. 2008;484:465-90.
Mazumder R, Hu ZZ, Vinayaka CR, Sagripanti JL, Frost SD, Kosakovsky Pond SL and Wu CH. 2007. Computational analysis and identification of amino acid sites in dengue E proteins relevant to development of diagnostics and vaccines. Virus Genes [EPub ahead of print].
Suzek BE, Huang H, McGarvey P, Mazumder R and Wu CH. 2007. UniRef: Comprehensive and Non-Redundant UniProt Reference Clusters. Bioinformatics. BMC Bioinformatics 23;6(1):279.
Mazumder R, Natale DA, Murthy S, Thiagarajan R and Wu CH. 2005. CUPID: computational identification of strain-, species- and genus-specific proteins. BMC Bioinformatics 23;6(1):279.
Celamkoti S, Kundeti S, Purkayastha A, Mazumder R, Buck C, Seto D. 2004. GeneOrder3.0: Software for comparing the order of genes in pairs of small bacterial genomes. BMC Bioinformatics 5:52.
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. 2004. A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes. Genome Biol. 5(2):R7.
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. 2003. Evolution of eukaryotic gene repertoire and gene structure: discovering the unexpected dynamics of genome evolution. Cold Spring Harb Symp Quant Biol. 68:293-301.
Daye KJ, Groff JC, Kirpekar AC and Mazumder R. 2003. 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. Journal of Industrial Microbiology Biotechnology 30(12):705-714.
Aravind L, Mazumder R, Vasudevan S and Koonin EV. 2002. Trends in protein evolution inferred from sequence and structure analysis. Current Opinion in Structural Biology 12:392-399.
Mazumder R, Iyer LM, Vasudevan S, Aravind L. 2002. Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily. Nucleic Acids Research 30(23):1-15.
Zafar N, Mazumder R, Seto D. 2002. CoreGenes: computational tool for identifying and cataloging orthologous genes in a set of small genomes. BMC Bioinformatics 3(1):12.
N. Zafar, Mazumder R and Seto D. 2002. Application of global computational tools GeneOrder and CoreGenes to the comparative analysis of chordopoxvirus genomes. Information Sciences 146:127-135.
Zafar N, Mazumder R, Seto D. 2001. Comparisons of gene colinearity in genomes using GeneOrder2.0. Trends in Biochem Sciences 26:514-516.
Mazumder R, Kolaskar A, Seto D. 2001. GeneOrder: comparing the order of genes in small genomes. Bioinformatics 17:162-166.
Mazumder R, N Zafar, D Seto. Finding Order. 2001. Science 292:749 (Reviewed by RL Bernstein and JB Spalding for the New Products section of Science).
Mazumder R, Pinkart H, Alban PS, Phelps TJ and Benoit RE. 2000. Low-Substrate regulated microaerophilic behavior as a stress response of aquatic and soil bacteria. Current Microbiology 41:79-83.
Mazumder R, Phelps TJ, Krieg NR and Benoit RE. 1999. Determining chemotactic responses by two subsurface microaerophiles using a simplified capillary assay method. Journal of Microbiological Methods 37:255-263.
Mazumder, R, Mikell A, Logan JR and Hooper SW. 1999. Characteristics and purification of an oxygen-insensitive azoreductase from Caulobacter subvibrioides strain C7-D. Journal of Industrial Microbiology and Biotechnology 23:476-483.
Zang C, Liu S, Logan JR, Mazumder R, and Phelps TJ. 1996. Enhancement of Fe (III), and Cr (VI) reduction at elevated temperatures and by a thermophilic bacterium. Applied Biochemistry and Biotechnology 57/58, 923-932.

Database Publications
The UniProt Consortium (Joint First Author). The universal protein resource (UniProt). Nucleic Acids Res. 2008 Jan;36(Database issue):D190-5. Epub 2007 Nov 27.
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. An emerging cyberinfrastructure for biodefense pathogen and pathogen-host data. Nucleic Acids Res. 2008 Jan;36(Database issue):D884-91. Epub 2007 Nov 4.
McGarvey PB, Huang H, Zhang J, Mazumder R, Wu C. Data and bioinformatics tools at the NIAID biodefense Proteomics Administrative Resource Center Molecular & Cellular Proteomics Volume: 5 Issue: 10 Pages: S68-S68 Supplement: S, OCT 2006 Article Number: 299.
The UniProt Consortium (Joint First Author). 2007. The Universal Protein Resource (UniProt). Nucleic Acids Res. 2007 Jan;35(Database issue):D193-7. Epub 2006 Nov 16.
Wu C, Bairoch A, Apweiler R, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Mazumder R, Natale DA, O'Donovan C, Redaschi N. 2006. The Universal Protein Resource (UniProt): an expanding universe of protein information. Nucleic Acids Res. 34(Database issue):D187-91.
Barker WC, Mazumder R, Nikolskaya A and Wu CH. 2005. The PIR superfamily (PIRSF) classification system. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. Proteomics Volume, Dunn, M. J. (Ed.) John Wiley & Sons, Ltd. (in press).
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. PIRSF: family classification system at the Protein Information Resource. Nucleic Acids Res. 2004 Jan 1;32 Database issue:D112-4.
Tatusov RL, Fedorova ND, Jackson JJ, 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. 2003. The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4:41.
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. MMDB: Entrez's 3D-structure database. Nucleic Acids Res. 2003 Jan 1;31(1):474-7.
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. CDD: a curated Entrez database of conserved domain alignments. Nucleic Acids Res. 2003 Jan 1;31(1):383-7.

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

Revised 07/7/08