Research

The Centre for Computational Biology and Bioinformatics at Jawaharlal Nehru University is currently involved in various research Topics/Areas. They can be broadly classified into

I. Computational Genomics

        1. Identification of Regulatory RNA or Riboswitches
        2. Segmentation studies of Human chromosome X
        3. Functional Annotation and motif finding in p53
        4. Study of biologically significant patterns
        5. Comparative Genomics in Plant genome
        6. Gene regulatory network
        7. Development of GeneScan with splice site detection using Hidden Markov models.
        8. Automated genome annotation.
        9. Development of novel algorithms for motif and signal identification.
        10. Statistical methods in sequence analysis - 
  1. Genome Fragmentation
  2. Correlation
  3. Entropy applied to full genomes and regulatory sites


II. Development of Tools for Bioinformatics

  1. Core Algorithms - The coding of reusable libraries of core techniques not available in the open source and required for our research. (Markov models and Genetic Algorithms).
  2. System Biology - Correlation analysis of the components of whole genomes and inter-genome systems analysis will be important tools for comparative genomics. We have developed tools for the identification of co-regulated genes from an analysis of their upstream sequences.
  3. Distributed Computing - The large scale of data requires the parallel implementation of Bioinformatics code. We have implemented commonly available code on Linux clusters using PVM.
  4. Drug Target and Drug Design - HMM profiles of the genetic complement of parasitic v/s host genomes have proved useful in drug target identification. Genetic algorithms developed in-house will be used for configuration and conformation analysis of potential targets.


III. Structure based Bioinformatics and In silico Drug Discovery

  1. Finding new molecules as potential drugs for Entamoeba histolytica
  2. Development and application of computer simulation techniques
  3. MD Simulation on Viral Proteins and inhibitor designing
  4. Simulation of Proton Pumps in Biology
  5. Virtual Screening and Drug Design
  6. Prediction of ligand binding sites in proteins.
  7. Active site design and functional re-engineering of enzymes.
  8. The design of drugs and employ computational drug design techniques on identified drug targets.


IV. Database Management

  1. Development of a system for integrated access to heterogeneous sources of biological data.
  2. Provide access to annotated and raw data through BioGRID.
  3. Development of Database on plant and infectious disease.

IV. Microarray Analysis and Datamining

  1. Prediction of miRNAs

IV. Systems Biology

  1. Dynamics of intracellular oscillators
  2. Computational modeling and analysis of the septation process in E.coli
  3. MCA and FBA in infectious disease genome.