Courses

CS2604: Data Structures and File Processing (Dr.Shaffer)
CS3204: Operating Systems (Dr.Henry)
CS4604: Introduction to Database Management Systems (Dr.Ramakrishnan)
CS5314: Concepts of Programming Languages (Dr.Edwards)
CS5516: Computer and Network Architecture (Dr.Mishra)
CS5984: Information Visualization (Dr.North)
CS5984: Algorithms in Bioinformatics (Dr.Heath)
CS6104: Computational Systems Biology (Dr.Murali)
CS6104: Computational Structural Biology (Dr.Onufriev)
STAT5615: Statistics in Research I (Dr.Holtzman)
STAT5616: Statistics in Research II (Dr.Starnes)
PPWS5984: Biological Paradigms in Bioinformatics (Dr.Grene)
BCHM5024: Computational Biochemistry in Bioinformatics (Dr.Bevan)
BCHM5064: Seminar in Molecular Cell Biology and Biotechnology

Thesis

GeneSieve: A Probe Selection Strategy for cDNA Microarrays (PDF)
Web Site: http://bioinformatics.cs.vt.edu/genesieve/
Adviser: Dr.Lenwood Heath
Committee Members: Dr.Naren Ramakrishnan, Dr.T. M. Murali, Dr.Ruth Grene

Publications

• Photosynthetic Acclimation is Reflected in Specific Patterns of Gene Expression in Drought-Stressed Loblolly Pine
  Jonathan I. Watkinson, Allan A. Sioson, Cecilia Vasquez-Robinet, Maulik Shukla, Deept Kumar, Margaret Ellis, Lenwood S. Heath, Naren Ramakrishnan, Boris Chevone, Layne T. Watson, Leonel van Zyl, Ulrika Egertsdotter, Ronald R. Sederoff, and Ruth Grene, Plant Physiology, 133(4), 2003, pp. 1702-1716.
  

• Expresso and Chips: Creating a Next Generation Microarray Experiment Management System
  Allan Sioson, Jonathan I. Watkinson, Cecilia Vasquez-Robinet, Margaret Ellis, Maulik Shukla, Deept Kumar, Naren Ramakrishnan, Lenwood S. Heath, Ruth Grene, Boris I. Chevone, Karen Kadafar, and Layne T. Watson, Proceedings of the Next Generation Software Systems Workshop, 17th International Parallel and Distributed Processing Symposium (IPDPS'02), Nice, France, April 2003: 209.
  

• An Evaluation of Information Visualization in Attention-Limited Environments
  Jacob Somervell, D. Scott McCrickard, Chris North, and Maulik Shukla, Proceedings of the IEEE TCVG Symposium on Visualization (VisSym 2002), Barcelona, Spain, pp. 211-216, May 2002.
  

• GeneSieve: Selecting Microarray Probes Using Genomic Sequence of a Model Organism
  Maulik Shukla, Lenwood Heath, Ruth Grene, Naren Ramakrishnan, and Amrita Pati,
  (Submitted to Bioinformatics)
  

• Discovering Active Networks in Saccharomyces cerevisiae using PPI, TF, and Mycroarray data
  (Manuscript under preparation)
  

• Finding Oxygen Uptake Path in Myoglobin using Molecular Dynamics and Grid-Based Approach
  (Manuscript under preparation)
  

Posters

• Photosynthetic Acclimation is Reflected in Specific Patterns of Gene Expression in Drought-Stressed Loblolly Pine
  7th International Congress of Plant Molecular Biology, ISPMB (The International Society of Plant Molecular Biology), Barcelona, June 2003.
  

• Photosynthetic Acclimation is Reflected in Specific Patterns of Gene Expression in Drought-Stressed Loblolly Pine
  Tree Biotechnology 2003, Umea, Sweden, June 2003.
  

• Identifying Changes in Gene Expression During Drought Stress Using Expresso
  ASPB (American Society of Plant Biologists) Plant Biology 2002, Denver, CO, August, 2002.
  

Useful Links

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Send comments to: mshukla@vt.edu