Bioinformatics Infrastructure Facility (BIF)
This centre, sponsored by DBT, Govt. of India, situated in the Department of Microbiology is functional since August 2007.
The aim of establishing this center was to disseminate the idea and knowledge about bioinformatics in the southern parts of the state.
In biological research, now a day’s bioinformatics has become an integral part.
Considering this, our centre regularly contacts workshops and seminars for students (UG and PG), scholars and teachers.
The centre is well equipped for conducting such trainings and also to pursue research works.
Area of Specialization :
- Structure-Function analysis of different industrially important enzymes
- Structure prediction, docking, energy minimization &molecular dynamics
- Evolutionary biology and Comparative genomics
- Machine learning techniques
- Protein-protein interaction and biological networks
- Use of R statistical environment
Details about staff members working in the center:
The faculties and staffs of the department of microbiology manage this center.
Prof. (Dr.) BikasRanjanPati - Coordinator
Dr. Keshab Chandra Mondal -Co-coordinator
The following research fellows are engaged in the department
Partha S. Das is working as RA. His main areas of interest include Phylogenetic analysis,
Evolutionary study, Protein-protein interaction, Machine learning and Biostatistics.
Amrita Banerjee is working as Research Fellow.
Her major areas of interest include Protein structure prediction, docking and molecular simulation and dynamics.
Shilpee Pal is working as Trainee. Her major areas of interest include Comparative genomics,
Evolutionary study, Genetic variation analysis and Phylogenetic analysis.
Collaborative works/initiatives in R&D activities :
- With Prof. Tapash C Ghosh, Scientist, Bioinformatics Department, Bose Institute, Kolkata on Machine learning.
- With Dr. Arnab Sen, Coordinator BIF center, University of North Bengal for studies in protein structure based phylogenetic analysis, protein-protein interaction, nucleotide expression, etc.
- With Dr.Indraneel Mukherjee, ISI Kolkata also have been collaborating with us for studies in machine learning and biostatistics (specially solving problems through R) respectively.
- With Prof. CsabaVágvölgyi,Department of Microbiology Faculty of Sciences and informatics University of Szeged Hungaryon HGT based detection of emerging human mycoses.
Infrastructure facilities :
Computer Hardware :
- Servers; IBM X3650, IBM X3400
- Workstation: Lenovo quad core think centre
- Apple iMac
- 55 inch LCD Monitor
- Desktop PCs: 27 no.s, Laptop
- Thin client PC: 5 no.s
- Printers-4 no.s, Photocopier, Scanner,
- Public address system, etc.
Communication facility :
Twenty four hours leased line internet facility is available in this center. The Department is also connected through WiFi provided by the Centre.
Scientific software packages:
Gromacs, Haddock, Discovery studio (Visualiser), Modeller, PAML, Autodock, Design Expert, Bio-ID, Genius Pro, MEME Suite,
BlockMaker, ActivePerl, Codon W, Clustal, PHYLIP, MEGA 4.0, Linux OS, R, Sigma plot 11.0 with enzyme kinetics, Rapidminer,
Vector NTI (Invitrogen) 11, etc.
Contact Us :
Name of Contact Persons
||Prof. (Dr.) Bikas Ranjan Pati
Ph. No. 09531506687
|Dr. Keshab Chandra Mondal
Ph. No. 09434196483
|Mr. ParthaSarathi Das
Ph. No. 09831323232
Papers published, accepted and presented in the conferences :
- Banerjee A, Jana A, Pati BR, Mondal KC, Das Mohapatra PK. “Characterization of Tannase Protein Sequences of Bacteria and Fungi: An In Silico Study”.Protein Journal.Vol 31, p. 306–327, 2012.
- Banerjee A, Pal S, Paul T, Mondal KC, Pati BR, Sen A and Das Mohapatra PK. “Characterization of Bacillus anthracis protease through protein-protein interaction: an in silico study of anthrax pathogenicity”. TANG Humanitas Traditional Medicine.Vol 4 (1), p. 1-12, 2013.
- Das PS, Chakraborty S, GhoshTC,Mondal KC, Pati BR. “Neural network based prediction of essential genes of S. cerevisae”(presented).
- Pal S, Banerjee A, Das Mohapatra PK, Das PS, Pati BR, Mandal KC, Sen A. “Evolutionary Study of Dengue Viral Genomes through Bioinformatics. Communicated to Virus Genes”. Indian Journal of Biotechnology (accepted).
Poster Presentation :
- Das P, Chakraborty S, Ghosh T, Mondal K and Pati B (2013). A neural network based prediction of essential genes of S. cerevisiae using genetic, gene expression, proteomic and protein-protein interaction data, BTISNet Bioinformatics National Symposium, pp. 50-51.
- Das Mohapatra P.K, Pal S, Banerjee A, Chakraborty B, Das P.S, Pati B.R, Sen A, Mondal K.C(2013). Dengue Virus Type 4 Evolution & Genomics: A Bioinformatics Approach. ICABB-SBB-02. pp. C3.
- Das P S,Paul T, Ghosh TC, Mondal K.C and Pati B.R An analysis of sequence similarities and motif analysis of microbial keratinases; Poster presentation in DBT-sponsored sponsored symposium “25 years of Bioinformatics in India” held at Center for Bioinformatics, Pondicherry University in February,2011