Research

Ongoing Research work

Computational Genomics approaches on Drug Target Identification in Ocular

 
Pathogens
  Establishment of GPU computing for Distributed Molecular Dynamics Studies
Insilico analysis of Natural compounds and its Molecular interactions with Ocular
 
Disease Targets

As a Core Facility serving other Departments:

Ongoing Research work

Structure prediction of Lysyl oxidase using Insilico modeling techniques

 
(Biochemistry)
  Comparative study of LOX and other amine oxidases (Biochemistry)
Insilico method of analyzing mutation in UL54 gene of hCMV using structure
 
biology approach (Microbiology)
  DRP Microarray Analysis Project ( Genetics)
  Glaucoma Genomewide Association Studies (GWAS) (Genetics)

Completed Research work

Design of SiRNA for copper binding proteins using Bioinformatics tools

 
(Biochemistry)
  Preliminary data analysis of 88KDa protein (Biochemistry)
  Pilot study on adiponectin, obesity and diabetes (Biochemistry)
  Characterization of Hypothetical proteins present in tear (Biochemistry)
Docking studies of Lysyl oxidase with BAPN, HCTL, Hcys, Aspirin, Simvastatin,
 
DAP and Vit B6 (Biochemistry)
  Insilico modeling and docking studies of Glutamate cysteine ligase (Biochemistry)
Identification of various binding regions/ residues in Osteonectin, PEDF and Decorin
 
(Biochemistry)
Structural and functional analysis of Serum paraoxonase 2 using Insilico strategies
 
(Biochemistry)
Identification of anti-angiogenic peptides in small Leucine rich repeats
 
(Biochemistry)
  Identification of Transcription factor Binding sites (CellBiology)
  Domain analysis of RIM protein (Genetics)
  Mutation analysis of RPE 65 (Genetics)
  A bioinformatics approach in unraveling the structure of Retinoschisin- 1 (Genetics)
Publications
Ab initio model of HIV-1’s Vif and simulation studies of APOBEC3G-Vif complex,
  Kalabharath Pilla, Nanditha Subramanian, Umashankar Vetrivel, International Journal
of Integrative Biology,(2010) Vol.10 (1) 29-34.
  Two Chapters in Hand Book of Systems Toxicology, John Wiley & Sons (in press):
  Cheminformatics & its applications
    Insilico Tools for Molecular Modelling
  Authors: V.Umashankar & S.Gurunathan

High end computing facility enabling following applications :

  Genome wide association studies (GWAS)

  Micro array analysis (Expression profiling of Affymetrix Chips)
  Sequence Analysis Suites
  Insilico proteome analysis
  Molecular modeling, Dynamics and simulation
  Cheminformatics and Drug design

nternship projects

S. No. Project title Student details Guided by

1. Elucidation of structure function N. Sudarshana J. Mathangi Dr. KNS

relationship in families of copper IV year B.Tech,
binding proteins in Homo sapiens - Bioinformatics, Sastra
A study based on Bioinformatics. University, Thanjavur
(2008-2009)

2. Structural analysis of five isoforms Ms. Charanya M Dr. KNS

of Lysyl Oxidase (LOX) using IV year B.Tech,
Bioinformatics tools. (2008-2009) Bioinformatics Sastra
University, Thanjavur

3. Characterization and localization ofMr.Sricharan.A Dr. KNS &

LOX and its isoforms using IV year B.Tech Dr.VUS
Bioinformatics tools (2009-2010) Bioinformatics, Sathyabama
University

4. Design of novel carrier peptide to Mr.A.Deepak kumar Dr. KNS &

deliver drugs to extracellular IV year B.Tech Dr.VUS
matrix (2009-2010) Bioinformatics, SASTRA
 University

5. Structural and functional studies of Ms. C. Anuradha Dr.AK &

proteoglycan- “Versican” (2009- IV year B.Tech Dr.VUS
2010) Bioinformatics, SASTRA
University

6. Classification of Iron Binding Ms.Amrutha Shyam Dr. KNS &

Proteins in Homo sapiens (2009- IV year B.Tech Dr.VUS
2010) Bioinformatics, SASTRA
University

7. Identifying new interacting Ms.S.R.Sathyabaarathi Dr. KNS &

partners for PEDF associated with IV year B.Tech Dr.VUS
anti- angiogenic activity using Bioinformatics, SASTRA
bioinformatics tools. (2009-2010) University

8. Identification of Regulatory motifs Ms.G.Anusha Dr. KNS &

present in Adiponectin, using IV year B.Tech Dr.VUS
bioinformatics softwares. Bioinformatics, SASTRA
(2009-2010) University

BITS-Summer school projects

S. No. Project title Student details Guided by

1. Identification of novel inhibitor for Mr. Raghavan R Dr.VUS

emphysema (Jun-July ’10) II yr, BITS Goa.