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A TEAM OF Biotechnology Information System Network

Bioinformatics. A TEAM OF Biotechnology Information System Network. Bioinformatics Group - DBT. Dr. T. Madhan Mohan Dr. Gulshan Wadhwa Dr. Peyush Goyal Dr. Vaishali Punjabi Mrs. Mary Joseph Mr. M. Faruk Mrs. Reema Saxena Ms. Reetu Ms. Kavita Mr. Vijay. Bioinformatics Over view.

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A TEAM OF Biotechnology Information System Network

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  1. Bioinformatics A TEAM OF Biotechnology Information System Network

  2. Bioinformatics Group - DBT • Dr. T. Madhan Mohan • Dr. Gulshan Wadhwa • Dr. Peyush Goyal • Dr. Vaishali Punjabi • Mrs. Mary Joseph • Mr. M. Faruk • Mrs. Reema Saxena • Ms. Reetu • Ms. Kavita • Mr. Vijay

  3. Bioinformatics Over view • Department of Biotechnology created in 1986 • Bioinformatics programme started ever since • Biotechnology Information System Network (BTISnet) in 1987 • BTISnet today has 168 institutions and universities • Initial Emphasis was on infrastructure creation and human resource development • Biotechnology in India has greatly benefited from the capacity building in Bioinformatics • Dedicated network connecting the BTISnet centres • Connecting all DBT institutions through NKN 3

  4. Objectives • To provide a national information network in biotechnology • To build information resources, databases and information handling tools and techniques. • To create necessary bioinformatics infrastructure • To develop advanced methods of computer‑based information processing for analyzing the structure and function of biologically important molecules. • To take up education and training of users • To coordinate efforts to access Biotechnology information world‑wide • To promote international collaboration through appropriate networking

  5. Components of BTISnet • Total number of Centres - 168 • Centre of Excellences (CoEs) - 5 • Distributed Information Centres (DICs)- 11 • Distributed Information Sub Centres - 50 • Bioinformatics Infra. Facility - 101 • Apex BTIC - 1 • Graphics Facility - 6 • MSc/M.Tech/Diploma - 5 • R&D Projects - 97

  6. CoE Bose Instt. IISc. JNU MKU Uni. Of Pune SCF-IITD

  7. Bioinformatics Infrastructure Facilities (BIFs) • In the year 2006-07 DBT had launched a new scheme namely Bioinformatics Infrastructure Facilities (BIF) for Biology Teaching through Bioinformatics (BTBI). • So far 101 educational institutions were provided this facility. • The goal of this scheme is to expose teachers and students to real-world of science and the use of bioinformatics (Cyber bioscience) in solving hard core biological problems. • >168 institutions are as part of the BTISnet.

  8. NORTH EASTERN BIOINFORMATICS NETWORK (NEBInet)- • NEBINET has been established connecting institutions, Universities, Colleges of North Eastern States of India.  • 29 institutions have been supported so far through NEBInet • Teaching and R&D in Biology would be improved in Northern states through this support. • Out Reach of Science programs to these states has shown improvement • On-Line Access Facility for Schools has been established

  9. Bioinformatics R&D projects • 97 projects supported till date (29 ongoing, 10 in pipeline) • Agriculture Biotechnology: 10 • Medical Biotechnology: 17 • Drug designing: 33 • Tools for protein and Structural Biology: 11 • Tools for genome sequence analysis: 9

  10. National rice resource database Component A: NBPGR, New Delhi (NRCPB, New Delhi; CRRI, Cuttak; DRR, Hyderabad; CSSRI, Karnal; IGKV, Raipur and BHU, Varanasi) Characterization of rice germplasm based on agronomic traits to form a core/mini-core germplasm Molecular characterization of core/mini-core germplasm to generate passport data Component B: UDSC New Delhi Compiling data on whole genome sequence/proteome of rice and huge collection of experimental data generated over several decades

  11. National database on Tuberculosis • MANIT – creation of on online data warehouse for storage of biological data, development tools for data-mining etc. and providing technical support to participating institutions • NTI, Bangalore – provide data on epidemiological, sociological issues • IOB, Bangalore - development of TB-NET portal, web resource for proteomic, host-pathogen interaction and pathways • JNU, New Delhi - incepts through the MGDD database and its up gradation. • IISC, Bangalore- development of database from system level modelling and genome profiling of MTB; structural bioinformatics analysis and methodologies for genotype- phenotype mapping • TRC, Chennai - annotation of genomes of mycobacteriophages, and developing bioinformatics tools for analysis of database

  12. Databases developed by CoE • For protein structure analysis – Bose Inst. (ProFace, InteGeom, ConfPlot, ContPlot) • For structural bioinformatics – IISc, Bangalore (CSSP, MIPS, FAIR, SSMBS) • Genome comparison tools for TB strain identification – JNU, New Delhi • Database for viruses – Pune, Univ. (Viral protein Str. database, Viral genome resourse, Antigen – antibody interaction database)

  13. Services provided • Data retrieval, • Sequence analysis, • Microarray data analysis, • Gene network analysis, • protein structure analysis, • molecular modelling and drug design, • Ligand docking and virtual screening, • Computer simulations of molecular dynamics • Consultancy to the industry • Summer training to UG/PG students

  14. Mirror Sites@IMTECH, Chandigarh • Protein DataBank (PDB) through OCA browser • Computer Software in Biology • Software at EBI : Computer Software in Molecular Biology more than 300 programs. • Software at Indiana University: A huge collection of software in field of biology. • General Purpose Computer Software • GNU Web Server & ftp Site: Free software foundation (FSF) is promoting the development and use of free software in every field of computer science. • PostgreSQL Web & ftp Site: Object-Relational DBMS, supporting almost all SQL constructs, including subselects, transactions, and user-defined types and functions The user can download it from the site • SUN Freeware Web Server and ftp site

  15. Bioinformatics Initiatives for NSG • Buffalo Genome Information Resource • (NDRI, Karnal & IASRI, New Delhi) • Genomic resource and knowledge base of plant parasitic nematodes of wheat & rice • (IARI, New Delhi) • Discovery, annotation, validation & characterization of SNPs in Wheat using NGS data • (BTIS, Ranchi & CCSU, Meerut)

  16. INTERNATIONAL COLLABORATION INDO-JAPAN • Launched interdisciplinary research projects , comprising information science, computational chemistry and bioinformatics, focusingon biological molecules: membrane proteins, disorder proteins and glycoconjugates. • Utilizing bioinformatics, computationally analyze sequences and structures of target molecules with potential applications to create the artificial proteins from a viewpoint of “engineering”. • Four challenging themes have been implemented: • Designating Potential Targets in Membrane Proteins • Designing GPCRs Mimetics • Designing FIXER for Disorder • Designing Cyborg Lectins.

  17. Impact – Bioinformatics as a Research discipline • Genome Analysis, eg. Amoeba (Published in Nature) • Annotation of Genomes, eg. E-14 in E.coli (Publication in BMC Microbiology) • Annotation of Proteomes, eg. Human Kinase (Published in Nucleic Acid Research) • Systems Biology, eg. E-Cell Simulation (MTB Pathway Analysis published in BMC) • Data Mining, eg. Motif Identification - Snail Toxin motif identified ( prosite database) • EST – Database on ESTs (Collaborative work between MKU and AstraZeneca)

  18. Impact – Bioinformatics as a Service Discipline • Number of Users - 50,000 • Number of Databases - 168 • Number of Software - 227 • Number of Personnel trained - 10,000 • Number of Publication through the Bioinformatics Support - 40000 • The small institutions greatly benefited through the Bioinformatics Centres for access to wealth of information resources • The stronger institutions took up major R&D, HRD activities

  19. Bioinformatics & Computational Biology Publications No. of Publications from Bioinformatics Centers

  20. Bioinformatics & Computational Biology Publications Year-wise Average Impact Factors of the Papers Average Impact Factor

  21. Bioinformatics National Certification (BINC) Examination • DBT is conducting this unique exam since 2006 • The objective of this examination is to identify and promote quality bioinformatics professionals in the country. • In addition to the certificate, DBT also supports cash awards to the toppers as well as Research Fellowships for the BINC qualified candidates. • So far 80 young scientists have been certified through this exam.

  22. Educational Activities in Bioinformatics • Short-Term Training • Nationwide trainings • and workshops • Presently around 100 • organized per year in • seven defined areas • More than 10000 trained • so far • Long-Term Training • M.Sc., M.Tech., Ph.D. courses • in Bioinformatics

  23. Need of Tie ups between Wet & In-Silico Labs In-Silico technologies (Bioinformatics) Wet Lab Experiments(High throughput technologies) Knowledge Discoveries Products

  24. Forth Coming Priority Areas • Establishment of Indian Institute of Bioinformatics (IIB) • Establishment of Indian Data Centre in Biological Sciences • Call for proposals for the development of software tools on analyzing NGS data • Network project: Brainstorming on Identifying major network programs where the Bioinformatics could play to enhance and speed up of the R&D. • Human Resource Development in Bioinformatics should be given emphasis.

  25. DBT’s E-LIBRARY CONSORTIUM (NER-DeLCON) Website :--http://delcon.gov.in

  26. IMPORTANT WEBSITES OF DBT • DBT http://www.dbtindia.gov.in • BTISnet http://www.btisnet.gov.in • CTEP – Access at • http://www.dbtctep.gov.in • DeLCON – Access at • http://www.delcon.gov.in

  27. THANK YOU

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