Georgia Institute of TechnologyCenter for the study of systems biology
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Dr. Shashi B. Pandit

Postdoctoral Fellow

shashi
Shashi B. Pandit

    Contact information:
  • Center for the Study of Systems Biology
  • Skolnick Lab
  • Tel:(404) 407-8985
  • Fax:(404) 385-7478
  • Email:spandit3@mail.gatech.edu

Research Interests

  • Protein structure prediction (METATASSER).
  • Protein comparative modeling using TASSER.
  • Understanding protein evolution using protein tertiary structures

List of publications:

[20] S. B. Pandit, H. Zhou and J. Skolnick. TASSER-based protein structure prediction, in Protein Structure Prediction: Methods and Algorithms (submitted).
[19] S. Mohanty, S. B. Pandit and N. Srinivasan. Dynamics of Protein-Protein Interaction Network in Plasmodium Falciparum (Chapter in Biological Data Mining in Protein Interaction Networks, edited by Dr. Li and Dr. Ng).
[18] S.B Pandit and J. Skolnick. Fr-TM-align: A new protein structural alignment method based on fragment alignments and the TM-score. BMC Bioinformatics:9:531 (Highly accessed)
[17] H. Zhou, S. B. Pandit, S. Lee, J. Borreguerro, H. Chen, L. Wroblewska and J. Skolnick. Analysis of TASSER based CASP7 protein structure prediction results. Proteins 2007:69(S8): 90-97.
[16] Z. Ding, H. Wang, X. Liang, E. Morris, F. Gallazzi, S. B. Pandit, J. Skolnick, J. C. Walker, and S. R. Van Doren. Phosphoprotein and Phosphopeptide Interactions with the FHA Domain from Kinase-Associated Protein Phosphatase. Biochemistry. 2007:46(10): 2684-2696.
[15] S. B. Pandit, Y. Zhang and J. Skolnick. TASSER-Lite: An automated tool for protein comparative modeling. Biophysical Journal 2006:91: 4180-4190.
[14] R. Bhadra., N. Srinivasan., and S. B. Pandit (2005) A new domain family in the superfamily of alkaline phosphatase. In Silico Biol. 5, 0034.
[13] O., Krishnadev, N. Rekha, , S. B. Pandit, S. Abhiman, S. Mohanty, L. Swapna, S., Gore, and N. Srinivasan, (2005) PRODOC: a resource for the comparison of tethered protein domain architectures with in-built information on remotely related domain families. Nucleic Acids Res., 33 (Web Server issue):W126-129.
[12] O. Krishnadev, V. S. Gowri, S. Balaji, N. Srinivasan and S. B. Pandit (2005) SUPFAM. Nucleic Acids Res. (On-line web publication http://www3.oup.co.uk/nar/database/summary/219).
[11] S. Balaji, S. B. Pandit and N. Srinivasan (2004) Structural and functional characterization of gene products encoded in human genome by homology detection. (Review) IUBMB Life. 56, 317-331.
[10] S. B. Pandit and N. Srinivasan (2004) Identification and analysis of a new family of bacterial serine proteinases. In Silico Biol. 4, 563-572.
[9] S. Namboori, N. Srinivasan and S. B. Pandit (2004) Recognition of remotely related structural homologues using sequence profiles of aligned homologous protein structures. In Silico Biol. 4, 445-460.
[8] S. Namboori, N. Mhatre, S. Sujatha, N. Srinivasan and S. B. Pandit (2004) Enhanced functional and structural domain assignments using remote similarity detection procedures for proteins encoded in the genome of Mycobacterium tuberculosis H37Rv J Biosci. 29, 245-259
[7] S. B. Pandit, R. Bhadra, V.S. Gowri, S. Balaji, B. Anand & N. Srinivasan (2004) SUPFAM: A database of sequence superfamilies of protein domains. BMC Bioinformatics. 5: 28.
[6] S. B. Pandit & N. Srinivasan. (2003) Survey for G-proteins in the prokaryotic genomes: prediction of functional roles based on classification. Proteins: Structure function and genetics Proteins Str. Fn. Gen. 52, 585-597.
[5] V.S. Gowri, S. B. Pandit., B. Anand., N. Srinivasan & S. Balaji (2003) PALI. Nucl. Acids Res. http://www3.oup.co.uk/nar/database/summary/274 (on-line publication).
[4] S. B. Pandit, S. Balaji, V.S. Gowri, K.R. Abhinandan, R. Vaishnavi & N. Srinivasan (2003) SUPFAM - Release 1.2. Nucleic Acids Res. (On-line web publication http://www3.oup.co.uk/nar/database/summary/219).
[3] V.S. Gowri, S. B. Pandit, P.S. Karthik, N. Srinivasan & S. Balaji (2003) Integration of related sequences with protein three-dimensional structural families in an updated version of PALI database Nucleic Acids Res. 31, 486-488.
[2] S. Gupta, S. B. Pandit, N. Srinivasan & D. Chatterji (2002) Proteomics analysis of carbon starved Mycobacterium smegmatis: Induction of Dps like protein. Prot. Eng. 15, 503-511.
[1] S. B. Pandit, D. Gosar, S. Abhiman, S. Sujatha, S.S. Dixit, N.S. Mhatre, R. Sowdhamini& N. Srinivasan (2002) SUPFAM - Database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: Implications for structural genomics and function annotation in genomes. Nucl. Acids Res. 30, 289-293.