Center for Computational Biology

Indraprastha Institute of Information Technology, New Delhi

Prof. Jalote, director of IIITD signs MOU with Prf. Ghokhale, director of CSIR-IGIB.

Human logo for IIITD . . . . . .

Center of excellence . . . . . .

Around the campus . . . . . .

How multi-domain transription factors bind DNA . . . . . .

Understanding protein-peptide interactions - crucial for drug designing . . . . . .

Night view of the campus . . . . . .

Apoptotic death signalling network . . . . . .

Dynamics of stress-initiated molecular events . . . . . .

IIITD encourages self learning . . . . . ..

Way to class rooms . . . . . .

Traces of the search path of Sap-1 on 100 bp circular DNA twisted to various extents around the double helix. . . .

Dynamics of receptor-lipid rafts during B cell activation. . . . . .

Regulatory network of cortisol in the HPA axis . . . . . .

Snapshots that correspond to the two very different peaks shown for 100 bp circular DNA. . . . . .

Selected Publications:

  • A distance constrained synaptic plasticity model of C. elegans neuronal network. Dr Ganesh Bagler, Mr. Rahul Bhadwar . Physica A: Statistical Mechanics and its Applications.
  • Landscape of warfarin and clopidogrel pharmacogenetic variants in Qatari population from whole exome datasets. Dr. Vinod Scaria, Ms. Parul Sharma and Ms. Ambily Sivadas. Pharmacogenomics. November 2016 ,Vol. 17, No. 17, Pages 1891-1901 , DOI 10.2217
  • Graph theoretical biomarkers for schizophrenic brain functional networks. Dr. Ganesh Bagler. Accepted. International Conference on Signal Processing and Communication (2016).
  • Controllability of human cancer signaling network- Signaling as a paradigm for disease control through drug-gene interactions. Dr. Ganesh Bagler. Accepted. International Conference on Signal Processing and Communication (2016).
  • Differential network analysis reveals evolutionary complexity in secondary metabolism of Rauvolfia serpentina over Catharanthus roseus Dr. Ganesh Bagler. Accepted. Frontiers in Plant Science. 8th August 2016.
  • In Silico Approach to Find an Optimal Strategy in Selective Targeting of Cancer Cells. Dr. Subhadip Raychaudhuri. Accepted. Journal of Computer Science & Systems Biology. 15th June 2016.
  • Searching Target Sites on DNA by Proteins: Role of DNA Dynamics under Confinement. Anupam Mondal and Arnab Bhattacherjee. Accepted. Nucleic Acids Research Journal. 8th September 2015.
  • Kinetic Monte Carlo study of type 1/type 2 choice in apoptosis elucidates selective killing of cancer cells under death ligand induction. Raychaudhuri S. Open Journal of Apoptosis 2015 4:22-39.
  • Identification of Major Signaling Pathways in Prion Disease Progression Using Network Analysis.Khalique Newaz, Sriram K., Debajyoti Bera. PLoS ONE 10(12): e0144389. doi: 10.1371/journal.pone.0144389(2015)

Other Publications:

  • Thermodynamic protein destabilization by GFP tagging: a case of inter-domain allostery. Miri Sokolovski, Arnab Bhattacherjee, Naama Kessler, Yaakov Levy, and Amnon Horovitz. Biophysical Journal. DOI: http://dx.doi.org/10.1016/j.bpj.2015.04.032, 2015.
  • Raychaudhuri S, Raychaudhuri SC. Death ligand concentration and the membrane proximal signaling module regulate the type 1/type 2 choice in apoptotic death signaling. Invited article for the special issue “Perspectives in Systems Biology”, Systems and Synthetic Biology 2014 8:83-97.
  • Search by proteins for their DNA target site: 2. The effect of DNA conformation on the dynamics of multidomain proteins. Arnab Bhattacherjee and Yaakov Levy. Nucleic Acid Research. 42(20), 12415-12424, 2014.
  • Search by proteins for their DNA target site: 1. The effect of DNA conformation on protein sliding. Arnab Bhattacherjee and Yaakov Levy. Nucleic Acid Research. 42(20), 12404-12414, 2014.
  • Conformational properties and aggregation of the 1-93 fragment of apolipoprotein A-I. Jitka Petrlova, Arnab Bhattacherjee, Wouter Boomssma, Stefan Wallin, Jens Lagerstedt and Anders Irback. Protein Science, 23(110), 1559-1571, 2014.
  • Hybrid Monte Carlo with Non-Uniform Step Size. Christian Holzgrafe, Arnab Bhattacherjee and Anders Irback. Journal of Chemical Physics, 140, 044105 (2014).
  • Yu-Yang P, Das SC, A Reddy S, Tsourkas PK, Sohn HW, Liu W, Pierce SK, Raychaudhuri S. Dynamic clustering of BCR-lipid rafts in antigen affinity discrimination by B cells. Invited article for the book titled “B cells: molecular biology, developmental origin and impact on the immune system”. (Nova Publishing 2013).
  • Raychaudhuri, S, Raychaudhuri S. C. Monte Carlo study elucidates the type 1/type 2 choice in apoptotic death signaling in normal and cancer cells. Invited article for the special issue “Apoptosis”, Cells 2013 2:361-392.
  • Raychaudhuri, S, Das S. C. Low probability activation of Bax / Bak can induce selective killing of cancer cells by generating heterogeneity in apoptosis. Invited article for the special issue “Engineering for Cancer”, Journal of Healthcare Engineering 2013 4:47-66.
  • Exploring protein-peptide binding specificity through computational peptide screening. Arnab Bhattacherjee and Stefan Wallin. Plos Computational Biology 9 (10), e1003277, 2013.
  • K Sriram, Maria Rodriguez-Fernandez, Francis J. Doyle III (2012 ) A detailed modular analysis of heat-shock protein dynamics under acute and chronic stress and its implication in anxiety disorders, PLoS one, 7(8): e42958.
  • K Sriram, Maria Rodriguez-Fernandez, Francis J. Doyle III (2012) Modeling cortisol dynamics in the Neuro-endocrine axis distinguishes normal, depression, and post-traumatic stress disorder (PTSD) in humans, PLoS Comput.Biol, 8(2): e1002379.
  • Monika Heiner and K. Sriram (2010) Structural analysis to determine the core of hypoxia response network, PLoS one, 5(1):e8600.