George Mason University
Department of Bioinformatics and Computational Biology
http://binf.gmu.edu/index.htmlThe Department of Bioinformatics and Computational Biology is dedicated to advancing the application of computational methods to cutting-edge problems in biology. The new field of Bioinformatics and Computational Biology is making critical contributions to diverse areas such as disease detection, drug design, forensics, agriculture and environmental sciences through the combination of biological analysis and high-performance computing.
Research in the Department of Bioinformatics and Computational Biology addresses the integration of genomic, gene expression and clinical databases, the analysis of protein structure and function, models of molecular, cellular and metabolic processes, and models of regulatory networks. Departmental research also addresses fundamental computational methods with applications in bioinformatics, including computational geometry, image processing, pattern recognition, and data mining. Departmental research is supported through grants from NIH, NSF, USDA and other agencies.
The Department offers a variety of academic programs that address the growing demand for computational biologists. The Ph.D. and M.S. degrees are based on a fully articulated set of specialized graduate courses in Bioinformatics. A Certificate in Bioinformatics is available for professionals who wish to advance their career goals, but who may not have adequate time available to undertake a graduate degree program. On the undergraduate level, starting in the fall of 2007 a Bioinformatics minor is available. Students also benefit from the Department's long-term relationships with the Washington capital region's many federal research labs and biotechnology companies, leading to numerous opportunities for employment.
The Department of Bioinformatics and Computational Biology is based on the Prince William Campus of George Mason University.
Research Activities
Research in the Department of Bioinformatics and Computational Biology addresses the integration of genomic, gene expression and clinical databases, the analysis of protein structure and function, models of molecular, cellular and metabolic processes, and models of regulatory networks. Departmental research also addresses fundamental computational methods with applications in bioinformatics, including computational geometry, image processing, pattern recognition, and data mining. Departmental research is supported through grants from NIH, NSF, USDA and other agencies.
Selected Research Projects
Molecular Environmental Sciences and Genomic Evolution (Dr. Patrick Gillevet): Development of a prototype database to integrate phenotypic, metabolic, and genotypic data; new capillary technology technology for high throughput genomic sequencing and environmental monitoring. Applications include the toxic dinoflagellate Pfiesteria piscicida, and monitoring soil ecosystems during bioremediation processes.
Cellular Modeling (Dr. Saleet Jafri): Improve understanding of heart disease through modeling of cardiac cells; models of cardiac excitation contraction coupling, cardiac energy metabolism; cellular signaling and biochemical reaction networks.
Image Processing Methods (Dr. Jason Kinser): Image registration, display, lane tracking, and base-calling from DNA sequencing machines. Development of new autowave approaches to phylogenetic tree construction. Optical computing application to DNA sequence analysis. New methods for pulse image processing with applications to biometrics: the measurement of humans using a myriad of data types (fingerprints, faces, DNA, shoe prints, speech, etc.)
Protein Aggregation and Unfolding (Dr. Dmitri Klimov) Computational models of protein aggregation with a focus on the assembly of Abeta amyloids, which cause Alzheimer's disease; computational models of forced (mechanical) unfolding of proteins. Methods include the all-atom molecular dynamics (MD) simulations of proteins or peptides in explicit solvent. These topics are critical to understanding the molecular aspects of Alzheimer's disease and mechanical functions of proteins in living organisms.
Genomics and bioinformatics of human adenoviruses (Dr. Donald Seto): Human adenoviruses are important infectious disease pathogens that are public health concerns globally, especially in the denser populations- particularly amongst otherwise healthy children and young adults. The now recognized 55 types are partitioned into seven species, based on their biology and pathology, with novel and emerging strains appearing. Cell tropism and disease are functions of species division and ultimately of their genomes. Defined sets of these viruses are responsible for respiratory disease, ocular disease, GI tract disease, urinary tract disease or metabolic disease. Recently the application of genome sequencing and computational analysis has provided a paradigm change in clinical virology- using whole genome data rather than limited serology data to characterize and name novel and emerging adenoviruses. Dr. Seto's lab and collaborators are at the forefront of this approach, providing 25 sequenced genomes to the original database of five, and adding another 30 in progress. The definition of adenoviruses by genomics and bioinformatics, particularly phylogenomics, by these collaborating labs have served to change the Gold Standard by which adenoviruses are recognized, defining one type solely by bioinformatics and one new species definition. Continuing research have demonstrated in fine molecular detail the role genome recombination plays in adenovirus and pathogen evolution. The available genomes will be analyzed using existing bioinformatic tools, some of which have been developed by these collaborators. The goal is to understand the pathoepidemiology as well as the mechanisms of molecular evolution of these human pathogens. Projects in the laboratory and collaborations include: 1. Genome sequencing; 2. Genome bioinformatics; 3. Computational and comparative genome tools development; and 4. Pathogen diagnostics and surveillance tools. Additionally, we are involved in establishing viral genome annotation standards (Third JCVI-NIH workshop; Apr 2010) and human adenovirus nomenclature standards (9th International Adenovirus Meeting; Apr 2009).I am also interested in molecular-based detection of adenovirus infections.
Protein Structural Analysis Through Computational Geometry (Dr. Iosif Vaisman): Development of new methods for protein structure compariosn and alignment based on topological substructure descriptors. Potential applications include ligand effect on protein topology in the inhibitor complexes with HIV and SIV proteases or topological changes in DNA polymerases in protein-DNA complexes.
Metabolic System Analysis (Dr. James Willett): Rapid assays for effectors using the nematode Caenorhabditis elegans. Recording responses of biochemical pathways to physiologic state modifiers with applications to elucidating the mechanisms of action of neurotoxicants, and dietary supplements purported to have life extending properties. Analysis of alterations in signaling arrays in nematodes as a function of age.
Exploratory Data Analysis on Bioinformatic Data Structures (Dr. Jeff Solka): Investigating the relationship between dimensionality reduction and discovery. The application of modern clustering methodologies to bioinformatices data. The discovery of relevant data structure in the face of extremely high dimensional data.The general exploitation of unstructured data.
Arnold, J., Janoska, M., Kajon, A.E., Metzgar, D., Hudson, N.R., Torres, S., Harrach, B., Seto, D., Chodosh, J. and Jones, M.S. (2010). Genomic characterization of human adenovirus 36, a putative obesity agent. Virus Research 149: 152-161. [Epub 01/28/10].
Brister, J.R., Bao, Y., Kuiken, C., Lefkowitz, E., Le Mercier, P., Leplae, R., Madupu, R., Scheuermann, R., Schobel, S., Seto, D., Shrivastava, S., Sterk, P., Zeng, Q., Klimke W. and T. Tatusova. (2010). Towards viral genome annotation standards, Report from the 2010 NCBI Annotation Workshop. Viruses 2(10): 2258-2268. (Editorial).
Chang, W. E., Takeda, T., Raman, E. P., & Klimov, D.K. (2010) Molecular dynamics simulations of anti-aggregation effect of ibuprofen. Biophys. J. (in press).
Liu GE, Hou Y, Zhu B, Cardone MF, Jiang L, Cellamare A, Mitra A, Alexander LJ, Coutinho LL, Dell'aquila ME, Gasbarre LC, Lacalandra G, Li RW, Matukumalli LK, Nonneman D, Regitano LC, Smith TP, Song J, Sonstegard TS, Van Tassell CP, Ventura M, Eichler EE, McDaneld TG, Keele JW. Analysis of copy number variations among diverse cattle breeds. Genome Res. 2010 Apr 5. [Epub ahead of print]
Mahadevan, P. and Seto, D. (2010). Rapid pair-wise synteny analysis of large bacterial genomes using web-based GeneOrder4.0. BMC Research Notes 3:41. [Epub 02/23/10]
Mahadevan, P. and D. Seto. (2010). In silico bioinformatic tools for determining core genes from sets of genomes. Drug Development Research 72: 1-6. (Review).
Mahadevan, P. and Seto, D. (2010). "Taxonomic parsing of bacteriophages using core genes and in silico proteome-based CGUG and applications to small bacterial genomes." Adv Exp Med Biol. 680: 379-385. in Advances in Experimental Medicine and Biology. Arabnia, H.R. (Ed.). ISBN 978-1-4419-5912-6. (Book chapter).
Mahadevan, P., Seto, J., Tibbetts, C. and D. Seto. (2010). Natural variants of human adenovirus type 3 provide evidence for relative genome stability across time and geographic space. Virology 397: 113-118. [Epub 11/23/09].
Masso M. Overcoming the Curse of Dimensionality in a Statistical Geometry Based Computational Protein Mutagenesis, Proc. IEEE ICDM BioDM Workshop (2010) 719-725.
Masso M. Improving Prediction Accuracy via Subspace Modeling in a Statistical Geometry Based Computational Protein Mutagenesis, Int J Knowl Disc Bioinformatics 1 (2010) 54-68.
Masso M. and Vaisman I.I. Structure-Based Machine Learning Models for Computational Mutagenesis, in Introduction to Protein Structure Prediction: Methods and Algorithms (eds: H. Rangwala and G. Karypis), Wiley Book Series on Bioinformatics, December 2010. ISBN: 9780470470596 (Textbook)
Masso M. and Vaisman I.I. Accurate and Efficient gp120 V3 Loop Structure Based Models for the Determination of HIV-1 Co-receptor Usage, BMC Bioinformatics 11 (2010) 494.
Masso M. and Vaisman I.I. Knowledge-Based Computational Mutagenesis for Predicting the Disease Potential of Human Non-Synonymous Single Nucleotide Polymorphisms, J Theor Biol 266 (2010) 560-568.
Masso M. and Vaisman I.I. AUTO-MUTE: Web-Based Tools for Predicting Stability Changes in Proteins Due to Single Amino Acid Replacements, Protein Eng Des Sel 23 (2010) 683-687.
Ramay, H. R., M. S. Jafri, W. J. Lederer, and E. A. Sobie. 2010. Predicting local SR Ca2+ dynamics during Ca2+ wave propagation in ventricular myocytes. Biophys. J. 98(11):(in press)
Robinson, C.M., Gurdeep, S., Henquell, C., Walsh, M.P., Peigue-Lafeuille, H., Seto, D., Jones, M.S., Dyer, D.W. and J. Chodosh. (2010). Computational analysis and identification of an emergent human adenovirus pathogen implicated in a respiratory fatality. In press, Virol. [Epub 11/05/10].
Seto, D. (2010). Viral genomics and bioinformatics. Viruses 2: 2587-2593. (Editorial).
Seto, J., Walsh, M.P., Mahadevan, P. , Zhang, Q. and D. Seto. (2010). Applying genomic and bionformatic resources to human adenovirus genomes for use in vaccine development and for applications in vector development for gene delivery. Viruses 2: 1-26.
Seto, J*., Walsh, M.P*., Metzgar, D. and Seto, D. (2010). Computational analysis of adenovirus serotype 5 (HAdV-C5) from a HAdV coinfection shows genome stability after 45 years of circulation. Virology 404: 180-186. [Epub 06/03/10]. *equal contributions.
Takeda, T., & Klimov, D.K. (2010) Computational backbone mutagenesis of Abeta peptides: Probing the role of backbone hydrogen bonds in aggregation. J. Phys. Chem. B 114, 4755-4762.
Takeda, T. & Klimov, D. K. (2010) Side chain interactions can impede amyloid fibril growth: Replica exchange simulations of Abeta peptide mutant. Biophys. J. 98, 649.
Torres, S., Chodosh, J., Seto, D. and M.S. Jones. (2010). The revolution in viral genomics as exemplified by the bioinformatic analysis of human adenoviruses. Viruses 2(7): 1367-1381. (Review).
Walsh, M.P., Seto, J., Jones, M.S., Chodosh, J., Xu, W.and D. Seto. (2010). Computational analysis identifies human adenovirus type 55 as a re-emergent acute respiratory disease pathogen. J Clin Microbiol. 48: 991-993. [Epub 12/30/09]
Walsh, M.P., Seto, J., Tirado, D., Chodosh, J., Seto, D*. and Jones, M.S. (2010). Computational analysis of human adenovirus type 18. Virology 404: 284-292. [Epub 06/07/10]. *corresponding author.
Williams, G. S., G. D. Smith, E. A. Sobie, and M. S. Jafri. 2010. Models of cardiac excitation-contraction coupling in ventricular myocytes. Math. Biosci. 226(1):1-15.
Alumni
Ph.D.
Akula, Nirmala (2009)
"A Network-Based Approach to Prioritize Results from Genome-Wide Association Studies (GWAS) in Multigenic Traits"
Advisor: Seto
Alkharouf, Nadim (2004)
"Functional Genomics of the Soybean-Cyst Nematode Interaction"
Advisor: Matthews
Current Position: Assistant Professor, Department of Computer and Information Sciences, Towson University
Alsheddi, Tariq (2007)
"A computational geometry approach to the analysis of structure-function relationship in Beta strand proteins"
Advisor: Vaisman
Al-Timimi, Ali (2005)
"Chaos and Complexity in Cancer"
Advisor: Jamison
Amundsen, Keenan (2009)
"Origin and Evolution of Cultivated Agrostis Spp"
Advisor: Seto
Current Position: Post-Doctoral position at USDA
Banerjee, Nilanjana (2004)
"Combinatorial transcription regulation: insights from integration of diverse genomic data"
Advisor: Grefenstette
Current Position: Joint Centers for Systems Biology, Irving Cancer Research Center
Barb, Jennifer (2009)
"Elucidating a splice variant list using the Affymetrix Human Exon 1.0 St Array: effective probeset filters are essential"
Advisor: Solka
Current Position: Systems Analyst, NIH Center for Information Technology
Barenboim, Maxim (2005)
"A Neuro-Fuzzy Approach to Classification of Human Non-Synonymous SNPs Based upon Computational Geometry"
Advisor: Jamison
Carr, David Andrew (2006)
"Site identification in proteins using a computational geometry approach and multi-body statistical potentials"
Advisor: Vaisman
Chikando, Aristide (2008)
"A Computational Study of Excitation-Contraction Coupling: Mechanisms of Sarcoplasmic Reticulum Calcium Leak and the Role of Mitochondria in Myoplasmic Calcium Regulation"
Advisor: Jafri
Deshmukh, Hrishikesh (2006)
"Probe-based data cleansing and unsupervised, supervised approaches for gene-level analyses"
Advisor: Weller
Diggans, James (2008)
"Biothreat Detection by Random Oligomer-Based Microarray"
Advisor: Weller
Current Position: MITRE Inc., Computational Biology group leader
Erb, Robert (1999)
"Analysis and Modeling of Gene Expression Circuits"
Advisor: Michaels
Current Position: Gene Logic, Inc.
Ding, Yan (2007)
"On the Complexity Measures of Protein Mutant Activity, Stability, and Evolution"
Advisor: Vaisman
Current Position: Principal Software Engineer, QuadraMed Corporation
Erwin, Harry (2000)
"A Computational Sensormotor Model of Bat Biosonar"
Advisor: Moss
Current Position: University of Sunderland, School of Computing and Technology
Garian, Robert (2000)
"Prediction of Dimeric Structure of Proteins from Amino Acid Sequences"
Advisor: Gillevet
Current Position: Library of Congress
Glanowski, Stephen (2004)
"Computational Analysis of Mitochondrial Sequence Diversity in Shotgun Sequence Data"
Advisor: McKenney
Current Position: Avalon Pharmaceuticals
Guo, Yongjian (2005)
"The Distribution of Human SNPs in Gene Promoter and Coding Regions"
Advisor: Jamison
Current Position: Virginia Bioinformatics Institute
Heiman, Thomas (2006)
"An Empirical Assessment of Aggregation and Asynchrony on the Inference of Gene Networks from Gene Expression Data"
Advisor: Grefenstette
Higgs, Brandon (2006)
"Deriving Meaningful Structure from Spectral Embedding"
Advisors: Weller and Solka
Current Position: Mitre Corporation
Johnson, Kory (2009)
"Genomic Profiling of Blood for Stroke Diagnosis"
Advisor: Solka
Current Position: Sr. Bioinformatics Scientist, National Institute for Neurological Disorders and Stroke
Kadoi, Ryosuke (2008)
"Calcineurin-NFAT Signaling Network: Microarray Meta-Analysis on Mouse Genome"
Advisor: Jafri
Current Position: SIOS Technology Inc.,Tokyo, software engineer
Kahn, Ari (2007)
"Biological and technological implications of gene splice variants"
Advisor: Jamison
Kim, Sohyoung (2004)
"Mechanisms and Models of Gene Regulation"
Advisor: Grefenstette
Current Position: Post-doc, NIH
Kritchmar, Jeff (1977)
"A Computational Model of Cerebellar Saccadic Control"
Advisor: Hunter
Current Position: The Neurosciences Institute
Leung, Elo (2007)
"Validating Gene Expression Results from Microarray Data"
Advisor: Weller/Solka
Lin, Ming-Kuan (2009)
"Gene association study of spatial working memory"
Advisor: Fryxell
Luo, Yong (2009)
"Computational Geometry Approach to the Analysis of Organism-Dependent Features in Protein Structures"
Advisor: Vaisman
Current Position: Research associate for nonprofit org
Mahadevon, Padmanabhan (2008)
"Data Mining Human Adenovirus Genomes Using Comparative Genomics and Bioinformatics Approaches"
Advisor: Seto
Current Position: Vanderbilt University, post-doc in comparative genomics and evolution
Masso, Majid (2006)
"Application of statistical geometry to the functional analysis of protein mutants"
Advisor: Vaisman
Mathe, Ewy (2006)
"Computational Approaches to Study Structural and Functional Effects of Single Point Mutations"
Advisor: Vaisman
Current Position: Bioinformatics Staff Scientist, NIH
Matukumalli, Lakshmi Kumar (2004)
"Development of Bioinformatics Applications for Prediction and Validation of Polymorphisms in Soybean (Glycine Max) Genome using EST Data"
Advisor: Grefenstette
Current Position: Post-doc, George Mason University, USDA
McGrath, Connor (2000)
"Homology Modeling of Retroviral Zinc Fingers"
Advisor: Michaels
Current Position: NCI
Moon, Won Jong (2006)
"Co-expressed gene clusters in the human and mouse genomes, mutational analysis of SNPS, and DNA microarray methods"
Advisor: Fryxell
Current Position: Research scientist, Duffy Lab, Malaria Program, Seattle Biomedical Research Institute
Nguyen, My-Hanh Thi (2006)
"A Computational model of the Regulation of Mitochondrial Respiration in Cardiac Ventricular Myocytes"
Advisor: Jafri
Current Position: The University of Texas Southwestern Medical Center at Dallas, Innovation Laboratory (
http://innovation.swmed.edu/), position title: Postdoctoral Fellow
Pierce, John (2006)
Two studies of anthrax. I. Altered gene expression in anthrax-infected mice. II. Mathematical modeling of the anthrax infection process"
Advisor: Jamison
Raman, Eshwar (2008)
"Exploring Protein Folding in-vivo Using Coarse Grained Models"
Advisor: Klimov
Current Position: Postdoctoral Fellow, Pharmaceutical Sciences, Univ. Maryland
Ramay, Hena (2007)
"A computational study of excitation contracrtion coupling in rat ventricular myocytes"
Advisor: Jafri
Current Position: Department of Pharmacology, The Mount Sinai School of Medicine
Ravich, Vadim (2006)
"Computational Studies of Structure and Function of Viral Reverse Transcriptase"
Advisor: Vaisman
Reck, Gregory (2007)
"Adaptation and use of four-body statistical potential to examine thermodynamic properties of proteins"
Advisor: Vaisman
Ryan, Michael (2009)
"SpliceCenter: a suite of web-based bioinformatics applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies"
Advisor: John Weinstein
Current Position: Partner, Tiger Team Consulting
Shah, Imran (1999)
"Predicting Enzyme Function From Sequence"
Advisor: Hunter
Current Position: Asst. Prof.,Department of Preventive Medicine and Biometrics, University of Colorado Health Sciences Center
Sudama, Gita (2008)
"Are There Observable Metabolic Signature Patterns in C. elegans: Specifically for Different Life Stages Grown with and without the Added Antioxidants Vitamin C and Vitamin E"
Advisor: Willett
Tanabe, Loraine (2003)
"Text Mining in the Biomedical Literature for Genetic Knowledge"
Advisor: Hunter
Current Position: Staff Scientist, Computational Biology Branch, National Center for BioTechnology Information, National Institute of Health
Taylor, Ronald (2003)
"Reconstruction of Metabolic and Genetic Networks form Gene Expression Perturbation Data Using a Boolean Model: Construction of a Simulation Testbed and an Empirical Exploration of Some of the Limits"
Advisor: Hunter
Current Position: Senior Research Scientist, Pacific Northwest National Laboratory, work phone: (509) 372-6568
Taylor, Todd (2006)
"Analysis of the structure and topology of real and model proteins using Delaunay tessellation"
Advisor: Vaisman
Thompson, Kevin (2008)
"An Adenocarcinoma case study of the BaFL Protocol: Biological Probe Filtering for Robust Microarray Analys"
Advisor: Weller
Current Position: UNCC, post-doc, Medical center
Tongvichit, Navachat (1997)
"Web Based Genographics used in Federated Information Manager for Genome Analysis"
Advisor: Michaels
Vandersluis, Patrick (1999)
"Detecting Silent Ischemia: Enhanced Visualization of Cardiac Electrophysiology Using Virtual Leads"
Advisor: Wegman
Current Position: Chairman and CEO, HealthRX Corp
Villa-Angulo, Rafael (2009)
"COMPUTATIONAL METHODS FOR HAPLOTYPE INFERENCE WITH APPLICATION TO HAPLOTYPE BLOCK CHARACTERIZATION IN CATTLE"
Advisor: Grefenstette
Current Position: Professor, Engineering Institute, University of Baja California (in Mexico)
Yang, Pei-Chi (2007)
"A computational analysis of signal transduction pathways and transcriptional factors in T lymphocytes"
Advisor: Jafri
Current Position: Department of Physiology and Biophysics, Institute for Computational Biomedicine, Weill Cornell Medical College
Zeeberg, Barry (1999)
"Whole Genome Information Analysis and Processing"
Advisors: Hunter and Michaels
Current Position: NIH/NCI/LMP
Zhan, Shili(2007)
"Computational Mutagenesis Models for Protein Activity and Stability Analysis"
Advisor: Vaisman
M.S.
Heiman, Thomas (2003)
Degree: MS in Computational Sciences and Infomatics
Advisor: Grefenstette
Current Position: SRA
Tibriwal, Aruna (2004)
Degree: MS in Bioinformatics
Advisor: Vaisman
Current Position: Software Engineer, NCICB/SAIC
Chilukuri, Jyothsna (2004)
degree: MS in Bioinformatics
Advisor: Grefenstette
Current Position: Knowledge Analyst, NCICB
Su, Jing (2004)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Research Assoc. Univ of Pittsburgh Medical Ctr
Samridhi, Goswami (2004)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Dept of Bioinformatics and Computational Biology, PhD candidate and GeneLogic.
Kumari, Sunita (2004)
Degree: MS in Bioinformatics
Advisor: Weller
Thornton, Jennifer (2004)
Degree: MS in Bioinformatics
Advisor: Seto
Position: Contractor/Bioinformatics Analyst/Programmer, Ft. Belvoir
Chapman, David (2004)
Degree: MS in Bioinformatics
Advisor: Seto
Position: Research Assoc/Bioinformatics Analyst, University of Texas
Xiang, Yan (2005)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: SuperArray Bioscience Corp.
Jahangeer, Muffarah (2005)
Degree: MS in Bioinformatics
Advisor: Summers
Current Position: Adjunct Faculty, George Mason University
Gan, Jai-Wei (2005)
Degree: MS in Bioinformatics
Advisor: Jamison
Chen, Huiru (2005)
Degree: MS in Bioinformatics
Advisor: Seto
Clark, James (2005)
Degree: MS in Bioinformatics
Advisor: Seto
Biostatistical Programmer Analyst, Immune Tolerance Network
Current Position: Software Engineer, Medical Informatics, at CodeRyte
Halavi, Maryam (2005)
Degree: MS in Bioinformatics
Advisor: Ascoli
Hanumanula, Madhuri (2005)
Degree: MS in Bioinformatics
Advisor: Seto
NIH Contractor/Data Analyst, NCI
Current Position: Systems Coordinator in medical studies at EMMES Corp.
Kambam, Narendra (2005)
Degree: MS in Bioinformatics
Advisor: Vaisman
Schwartz, Karen (2005)
Degree: MS in Bioinformatics
Advisor: Weller
Current Position: Quest Diagnostics Nichols Institute
Shen, Peng (2005)
Degree: MS in Bioinformatics
Advisor: Jamison
Current Position: Information Specialist, ATCC
Yin, Zhong (2005)
Degree: MS in Bioinformatics
Advisor: Vaisman
Winfrey, Sarah (2005)
Degree: MS in Bioinformatics
Advisor: Gillevet
Palanigobu, Vasuki (2005)
Degree: MS in Bioinformatics
Advisor: Weller
Bittenbender, Sarah (2005)
Degree: MS in Bioinformatics
Advisor: Weller
Current Position: SAIC
Muthuluru, Aruna (2005)
Degree: MS in Bioinformatics
Advisor: Vaisman
Current Position: Statistical Programming Analyst, Quintiles Inc.
Sims, Jason (2005)
Degree: MS in Bioinformatics
Advisor: Jafri
Alam, Farhana (2006)
Degree: MS in Bioinformatics
Advisor: Weller
Barker, Jessica (2006)
Degree: MS in Bioinformatics
Advisor: Gillevet
Diaz, Maricar (2006)
Degree: MS in Bioinformatics
Advisor: Kinser
Dinh, Lan Chi (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Quest Diagnostics Inc., Nichols Institute
Dommaraju, Kalpana (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Bioinformatics Analyst NIH/NCI
Nathan, Shyam (2006)
Degree: MS in Bioinformatics
Advisor: Gillevet
Rajamani, Saraswathi (2006)
Degree: MS in Bioinformatics
Advisor: Vaisman
Mehari, Yonas (2006)
Degree: MS in Bioinformatics
Advisor: Vaisman
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Rainey, Timothy (2006)
Degree: MS in Bioinformatics
Advisor: Jafri
Current Position: Symmetron, LLC
Annavarapu, Swapna (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Bioinformatics Analyst. TIGR
Banskota, Nirad (2006)
Degree: MS in Bioinformatics
Advisor: Vaisman
Brower, Rachel (2006)
Degree: MS in Bioinformatics
Advisor: Weller
Ko, Chi-hung (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Bioinformatics Analyst. SAIC-Frederick/NIH-NIAID
Mathuria, Jyothi (2006)
Degree: MS in Bioinformatics
Advisor: Klimov
Rabah, Shaun (2006)
Degree: MS in Bioinformatics
Advisor: Weller
Ryan, Michael (2006)
Degree: MS in Bioinformatics
Advisor: Jamison
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Tavakoli, Tahereh (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: ATCC
Walsh, Michael (2006)
Degree: MS in Bioinformatics
Advisor: Jamison
Acharya, Mekhala (2006)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Dept. of Bioinformatics and Computational Biology, Phd candidate
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Liu, Elizabeth (2006)
Degree: MS in Bioinformatics
Advisor: Kinser
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Adini, Pratyusha (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Bhimidi, Tashfeen (2007)
Degree: MS in Bioinformatics
Advisor: Kinser
Horton, Anita (2007)
Degree: MS in Bioinformatics
Research topic: Evolution and variation of the human adenovirus
Advisor: Seto
Current Position: Cell Biology Information Specialist, ATCC
Johnson, Seth (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Tappita, Kishor (2007)
Degree: MS in Bioinformatics
Advisor: Gillevet
White, John (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Bioinformatics Applications Analyst, TerpSys/NCICB
Al-Razgan, Othman (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Gangiredla, Jayanthi (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Bioinformatics Applications Specialist, CFSAN/FDA
He, Jun (2007)
Degree: MS in Bioinformatics
Advisor: Jafri
Kumar, Rashmi (2007)
Degree: MS in Bioinformatics
Advisor: Jafri
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Narala, Manaswini (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Yeboah, Spencer (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Inova Fairfax Hospital
Zukas, Anthony (2007)
Degree: MS in Bioinformatics
Advisor: Solka/Weller
Current Position: SAIC
Agarwal, Ankur (2007)
Degree: MS in Bioinformatics
Advisor: Kinser
Tanksale, Kavita (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Alpert, Meredith (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Khoshnevis, Saeed (2007)
Degree: MS in Bioinformatics
Advisor: Weller
King, John (2007)
Degree: MS in Bioinformatics
Advisor: Seto
Current Position: Founder and Principal, King Domain Corp., LLC
Mistry, Minal (2007)
Degree: MS in Bioinformatics
Advisor: Kinser
Nadella, Kasturi (2007)
Degree: MS in Bioinformatics
Advisor: Klimov
Wisittipanit, Nuttachat (2007)
Degree: MS in Bioinformatics
Advisor: Kinser
Current Position: PhD Student, Dept. Bioinformatics and Computational Biology
Downs, Robert (2008)
Degree: MS in Bioinformatics
Research Topic: DNA to Protein Patenting Issues
Advisor: Gillevet
Current Position: Patent Law, Birch Stewart Kolasch & Birch LLP
Joshi, Natasha (2008)
Degree: MS in Bioinformatics
Research Topic: Computational modeling of the Cofilin Pathway
Advisor: Jafri
Kanchinadam, Krishna M. (2008)
Degree: MS in Bioinformatics
Research Topic: DataMapX: A tool for cross-mapping entities and attributes between bioinformatics databases.
Advisor: Weller, Jennifer
Current Position: 5AM Solutions Inc. (
http://www.5amsolutions.com)/National Cancer Institute, NIH
Shetty, Ahana (2008)
Degree: MS in Bioinformatics
Research Topic: Comparison of two genome sequences representing Ad5 and a recent isolate Ad5FS for recombination
Advisor: Seto
Ullagaddi, Anita (2008)
Degree: MS in Bioinformatics
Research Topic: Study of recombinant adenoviruses in humans
Advisor: Seto
Vemana, Haritha (2008)
Degree: MS in Bioinformatics
Research Topic: Annotation of Mariprofundus Ferroxydans bacterial genome
Advisor: Seto
Cole, Steven (2008)
Degree: MS in Bioinformatics
Kanaparthi, Sri Krishna (2008)
Degree: MS in Bioinformatics
Krishnamoorthy, Venkat (2008)
Degree: MS in Bioinformatics
Seifuddin, Fayaz (2008)
Degree: MS in Bioinformatics
Current Position: Johns Hopkins bioinformatics analyst
Sharma, Shalabh (2008)
Degree: MS in Bioinformatics
Current Position: Scientific Computing professional,Bioinformatics Specialist (University of Georgia)
Advisor: Seto
Enugala, Sravanthy (2008)
Degree: MS in Bioinformatics
Advisor: Vaisman
Kruthiventi, Krishna (2008)
Degree: MS in Bioinformatics
Advisor: Vaisman
Mishra, Pamela (2008)
Degree: MS in Bioinformatics
Research Topic: Unbinding of A-beta peptides from amyloid fibrils: Explicit solvent molecular dynamics study
Current Position: Naval Medical Research Center
Advisor: Klimov
O'Connor, Mark (2008)
Degree: MS in Bioinformatics
Research Topic: Development of a Relational Database for Studying the Content and Differential miRNA Expression within and across the Mammmalian Species
Advisor: Matukumalli
Current Position: Medical lab technologist, Quest Diagnostics
Pachika, Preethi (2008)
Degree: MS in Bioinformatics
Advisor: Seto
Srininvasan, Lakshmi (2008)
Degree: MS in Bioinformatics
Advisor: Grefenstette
Tatavarty, Nagaswetha (2008)
Degree: MS in Bioinformatics
Advisor: Seto
Kakkar, Nipun (2009)
Degree: MS in Bioinformatics
Advisor: Grefenstette
Kammila, Gopy (2009)
Degree: MS in Bioinformatics
Advisor: Seto
Loke, Sanyukta (2009)
Degree: MS in Bioinformatics
Advisor: Seto
M.S. New Professional Studies
Armistead, David (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: Clearant
Brown, Robert (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: Director of IT, Clearant
Buchanan, Janelle (2002)
Degree: MNPS in Forensic Biosciences
Advisor: McKenney
Current Position: Office of Science and Technology, National Institute of Justice
Carrera, Ana (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: Applied Biosystems
Drainey, Zachary (2002)
Degree: MNPS in Forensic Biosciences,
Advisor: McKenney
Current Position: Federal Bureau of Investigation DNA Unit 2
Enokpa, Emmanuel (2002)
Degree: MNPS in Bioinformatics,
Advisor: Gillevet
Gandreti, Vijaya (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: George Mason University Centre for Biomedical Genomics and Informatics
Hedges, Robyn (2002)
Degree: MNPS in Forensic Biosciences
Advisor: McKenney Current Position: Federal Bureau of Investigation DNA Unit 2
Hutson-Black, Janinne (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: Pharmaceutical Sales Representative, Pfizer Inc.
Johnson, Thomas (2002)
Degree: MNPS in BioTechnology
Advisor: Gillevet
Current Position: Laboratory of Receptor Biology and Gene Expression, National Cancer Institute
Kebede, Solomon (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: IOMAI Corporation
Kifle, Gizachew (2002)
Degree: MNPS in BioTechnology
Advisor: Gillevet
Medicherla, Satyavathi (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: University of Maryland
Pineda, Marbin (2002)
Degree: MNPS in BioTechnology
Advisor: Gillevet
Current Position: Geneticist, Laboratory or Population Genetics, National Cancer Institute
Satcher, Ryan (2002)
Degree: MNPS in Forensic Biosciences
Advisor: Dr. Keith McKenney
Current Position: Cellmark
Seeke, Swathi (2002)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Abrahle, Tesfom (2003)
Degree: MNPS in BioTechnology
Advisor: McKenney
Bradshaw, Dawn (2003)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: General Dynamics-Advanced Information Systems
Brinkac, Lauren (2003)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: Bioinformatics Analyst, Institute for Genomic Research
Wilson, Glenda (2003)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: George Mason University
Jamison, Debra (2003)
Degree: MNPS in Forensic Biosciences
Advisor: McKenney
Current Position: BioReliance
Ryan, Christopher (2003)
Degree: MNPS in Bioinformatics
Advisor: Gillevet
Current Position: George Mason University
Wilson, Stacey (2003)
Degree: MNPS in Forensic Biosciences
Advisor: McKenney
Current Position: Maryland State Police Crime Lab
Hasychak, Bryony (2004)
Degree: MNPS in Forensic Biosciences
Advisor: McKenney
Current Position: Bode Technology Group
Holloway, Linda (2005)
Degree: MNPS in BioTechnology
Advisor: Gillevet