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Ashish V Tendulkar

Ph. D.
Research Scholar Wing,
KReSIT, IIT Bombay,
Powai, Mumbai-400 076
Email: ashish[AT]it.iitb.ac.in
More recent page Ashish Tendulkar @TIFR
Photo of Ashish V. Tendulkar - Member 
				Bioinformatics Research IIT Bombay India, Premier Bioinformatics Research India
Research Topic
Analysis of Protein Structure using Geometric and Machine learning techniques
Research Summary
Understanding protein sequence, structure and function relationship has been of considerable interest to the community of biological scientists. The sequence-structure correlations enables computational protein structure prediction from its sequence, thus bridging the sequence-structure barrier. On the other hand, structure-function relationship enables elucidation of protein function, which is the most important task in the post-genomics era. In my Ph D thesis, I have analyzed protein structures using geometric and machine learning techniques with specific goals of protein structure prediction and functional classification of the protein structures. More specifically, we represented geometries of substructures in proteins with unilateral structure descriptors in form of Geometric Invariants and applied clustering to form groups of similar geometries. This approach enables efficient and scalable all-against-all comparison between substructures and application of standard data mining techniques. It, thus, overcomes the limitations caused by inherent nature of pairwise comparison step employed in the state of art techniques. We constructed a library of functionally important constellations of small number of amino acids in protein and a library of structurally similar local conformations in proteins. Further, we constructed a visual map of protein local conformational space and modelled it as a mixture of Gaussians. The component in the mixture corresponds to a class of local conformations. We found total of 46 classes of local conformations with varying mixing proportion. The sequence-structure relationship learnt for these classes is exploited to predict protein structure using state of art sequence mining techniques.

For detailed information about my research activities, publications, programs and results, visit Research Activities page.
List of Journal/Conference Publications
  1. PLAN2L: a web tool for integrated text mining and literature-based bioentity relation extraction, Martin Krallinger, Carlos Rodriguez-Penagos, Ashish Tendulkar, Alfonso Valencia Nucleic Acids Research, 2009, Vol. 37 (2):W160-W165
  2. Protein Local Conformation arise from a Mixture of Gaussian Distributions, Ashish V. Tendulkar, Babatunde A. Ogunnike, Pramod P. Wangikar, J Biosci. 2007 Aug ;32 (5):899-908
  3. Gaussian Mixture Modeling of alpha-helix subclasses: Structure and Sequence variations , Ashish V Tendulkar, Babatunde Ogunnaike, Pramod Wangikar, Pacific symposium of Biocomputing(PSB), 2006, Maui, Hawaii, USA, Jan 3-7.
  4. Geometric Invariant based Framework for Analysis of Protein Conformational Space , Ashish V Tendulkar, Babatunde Ogunnaike, Milind Sohoni, Pramod Wangikar, Bioinformatics. Volume 21, Issue 18, Sept. 2005, Pages 3622-3628
    Journal Impact Factor: 6.7
  5. Clustering of protein structural fragments reveals modular building block approach of nature , Ashish V Tendulkar, Anand Joshi, Milind Sohoni, Pramod Wangikar J. Mol. Biol., Volume 338, Issue 3, 30 April 2004, Pages 611-629
    Journal Impact Factor: 5.2
  6. Parameterization and Classification of Protein Universe via Geometric Technique , Ashish V Tendulkar, Milind Sohoni, Vivekanand Samant, Chetan Mone, Pramod Wangikar, Journal of Molecular Biology, Volume 334, Issue 1, 14 November 2003, Pages 157-172
    Journal Impact Factor: 5.2
  7. *****[IITB IRCC 2007 Best Research Paper]
    Functional Sites in Protein Families Uncovered via an Objective and Automated Graph Theoretic Approach , Pramod Wangikar, Ashish V Tendulkar, S. Ramya, Deepali Mali, Sunita Sarawagi, Journal of Molecular Biology, Volume 326, Issue 3, 21 February 2003, Pages 955-978
    Journal Impact Factor: 5.2
Awards
  1. IITB IRCC 2007 Best Research paper award based on # of citations
  2. Juan de la Cierva CONVOCATORIA 2009 from Spanish Ministry of Science and Innovation
  3. Innovative Young Biotechnologist Award (IYBA) 2008 from Dept. of Biotechnology (Research Grant for three years)
  4. Finalist Lane Center Postdoctoral Fellowship of Carnegie Mellon University USA
  5. Best Research Scholar Award 2007 from Research Scholar Forum, IIT Bombay
  6. Infosys Research Fellowship from Infosys (Research Grant for Ph D program 2003-07)
Career Outline
Year Position Supervisor
Since Oct. 2011 Visiting Fellow, STCS, TIFR, Mumbai -
Sept 2009 - Sept 2011 Visiting Assistant Professor, CSE, IIT Madras -
May 2009 - Aug 2009 Post Doctoral Visitor, CNIO, Madrid, Spain Dr. Alfonso Valencia
Mar 2008 - May 2009 Technical Leader, PSPL, India Dr. Mukund Deshpande
Jan. 2003 - Sept 2007 Research Scholar, KReSIT, IIT Bombay, India Dr P Wangikar/S Sarawagi
Jul. 2001 - Jan 2003 M Tech, KReSIT, IIT Bombay, India Dr P Wangikar/S Sarawagi
Nov. 1999 - Jul 2001 Member of Technical Staff, PSPL, India Dr. Shridhar Shukla