Centre for Bioinformatics  

In view of rapidly growing importance of Information Technology in Biotechnology teaching and research, communication etc., Centre for Bioinformatics (a sub-DIC under BTIS programme) at Banasthali University was sanctioned by Department of Biotechnology, Govt. of India in November, 1998. Over the last fifteen years, this centre has acquired many databases and software’s and has round the clock Internet connectivity. The Centre has 3 servers, 42 PCs, 2 scanner, 13 printers, 1 LCD projector, 2 IBM & 2 HP Laptops, 4 Web Camera, 2 Digital Camera, 3 External CD/DVD Writers, 2 Photocopier machines, several software and databases. All computers are connected to Internet through 2 MBPS lease line under campus networking. Centre is providing services to the PG students in Biotechnology, Bioscience and Bioinformatics, Ph.D. students and the teaching faculty in the following ways:

  • Searching literature/databases of their own research interest
  • Computational work
  • Application of available software in the centre
  • The services of the Centre for Bioinformatics include analysis of   biological data, bibliographic references to published literature in Science and Technology.


Further, the Centre is actively involved in research work in bioinformatics. Various research papers have been published in several reputed national and international journals. Since its inception 7 workshops and training programs have been held in the centre. Around 500 participants from several institutions have been trained including faculty members, research scholars and PG students.
 

 

Coordinator, Bioinformatics Centre: Prof. Vinay Sharma, Dean, Faculty of Science

The staff members working in the centre are:

S.No Name of the Staff

Designation

Educational Qualification/ Specialization
1. Ms. Aarushi Gupta Information Officer MCA
. Mr. Amit Goyal
Data Entry Operator  
M.A., MCSE, CCNA, ‘O’ Level
3. Mrs. Kiran Shanti
Technical Assistant
M.Sc. Botany, P.G.D.C.A.
4. Mr. S. R. Choudhary
Technical Staff
M.C.A., A.D.C.A., P.G.D.C.T.A., M.Sc. Bioinformatics

 Major research activities in Biotechnology

The Ph.D. students carry out research in various disciplines of Biotechnology, Bioscience and Bioinformatics.  There are sponsored research projects with teaching faculty of the department. Some of the Agricultural Biotechnology related research topics are: Phytoalexins; Immobilization of enzymes; Fluoride toxicity; Reclamation of desert soils using plants; Tissue culture of arid zone species etc.    

A  research collaboration in the area of Crop Biotechnology (on stress adaptation of plants of local region) was carried out between Prof. Vinay Sharma’s laboratory at this Department and Prof. U. Luettge’s laboratory at Institute of Botany, Technical University, Darmstadt. From this department, on invitation of DAAD, Prof. Vinay Sharma visited Germany (May- June, 2000 for 2 months) and then thrice later in 2001, 2002 and 2003 under DST-DAAD project. Dr. Nilima Kumari, Sr. Lecturer visited Germany in 2001, 2002 and 2003 for 3 months each under DST-DAAD project.

Prof. Vinay Sharma has been a Visiting Professor at the Department of Molecular Biology and Microbiology, University of Florida, USA (January to June, 2006).

Dr. Bhumi Nath Tripathi, Senior Lecturer was awarded the prestigious DBT Young Scientist Overseas Associateship and visited University of Bielefeld, Germany (July to November, 2006). 


Dr. Bhumi Nath Tripathi, Senior Lecturer was a Visiting Scientist at the Research Institute of Bioresources, Okayama University, Japan (October 2007-March 2008).  

Prof. Vinay Sharma has been a Visiting Professor at the Research Institute of Bioresources, Okayama University, Japan (August, 2008).

Dr. Nilima Kumari, Associate Professor was a Visiting Scientist at the Department of Biology, University of Turku, Finland for a few months beginning February, 2010.

Prof. Vinay Sharma has been a Visiting Professor at the Department of Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, Germany (May to June, 2010).

Prof. Vinay Sharma has been a Visiting Professor at the Department of Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, Germany (October to November, 2010).

  • Some of the important databases in Biological Sciences that are currently available are: Medline Standard, Agris, Agricola, Chrome Circle Application, Biotechnology Abstracts and Indian Forester Information System.
     

  • To cater to the regional and national needs, the Centre has also developed database on "Biotechnological Industries of Rajasthan", “SSR Database of Citrus sinensis,”, “Database for Simple Sequence Repeats of Takifugu rubripus”, “Database of Diterpene Synthase Gene”and "Flora of Indian Desert". “Database of Plant Host-Pathogen Interaction” is in progress.


S.No Name of Database        Broad Subject Area Broad Functional Area Developed/ Acquired Completion Status
1.

Biotechnological Industries of Rajasthan

Bioinformatics /Biotechnology

Biotechnology Developed Completed
2.

SSR Database of Citrus sinensis

Bioinformatics

Bioinformatics Developed Completed  
3.

Database for Simple Sequence Repeats of Takifugu rubripus

Bioinformatics

Bioinformatics Developed Completed
4.

Database of Diterpene Synthase Gene

Bioinformatics

Bioinformatics Developed Completed
5.

Database of Flora of Indian Desert  

Bioinformatics/ Plant Science

Biodiversity Developed Completed
6.

Database of Plant Host-Pathogen Interaction

Bioinformatics/ Plant Science

Biodiversity Developed In Progress


Manpower Training:

To generate trained manpower in Bioinformatics, National Workshops with participation of University level teaching faculty/ Scientists are regularly organized by the Centre. The following workshops were organized in past:  

      Table:
      The following workshops were organized by the Centre for Bioinformatics, Dept. of Bioscience &
       Biotechnology during  the last few years:
  
  

Year Name of the Seminar/ symposia Duration Participation details
2001

“Application of Internet in Advanced Teaching and Research in Biological Sciences”

3 days

41 Participants of Reader / Lecturer / Research Scientists and Research Scholars rank from Univ. and College from various States
2002

“Application of Information Technology in Biotechnology based research”

2 days 39 Participants of Prof./ Reader/ Lecturer / Research Scientists and Research Scholars rank from Univ. and Colleges from various States
2004

“Trends in Bioinformatics”

2 days 51 Participants of  Reader/ Lecturer / Research Scientists and Research Scholars rank from Univ. and Colleges from various States
2005

“Bioinformatics Basics- Application in Biological Sciences”

2 days 63 Participants of Reader/ Lecturer / Research Scientists and Research Scholars rank from Univ. and Colleges from various States
2007

“Biological Databases and Data  Mining” 

3 days 66 Participants of Reader/ Lecturer / Research Scientists and Research Scholars rank from Univ. and Colleges from various States
2010 "Biological Databases and Data Mining Approaches " 3 days

 

Total 118 (excluding PG Students number of participants is 72 and excluding research scholars the number of participants is 42) Participants of Associate Professor/ Assistant Professor/ Research Scientists and Research
Scholars rank from Univ. and Colleges from various States
2012

“Applications of Bioinformatics with special focus on Genomics”

3 days Around 130 participants from several institutions including faculty members, research scholars and PG students
    

List of Publications:

Bioinformatics research papers published in peer reviewed journal by our centre:

1.    Raghav, D., Sharma, V., and Agarwal, S.M., 2013. Structural investigation of deleterious non-synonymous SNPs of EGFR gene. Interdisciplinary Sciences: Computational Life Sciences, 5(1): 60-68. {9, DOI: 10.1007/s12539-013-0149-x.

2.    Raghav, D., and Sharma, V., 2013. An in-silico evaluation of deleterious non-synonymous SNPs in ErbB3 oncogene. BioResearch Open Access. 2(3): 206–211.

3.    Kuntal, H., and Sharma, V., 2013. SNP analysis in core mitochondrial genes of Chlorophytes. International Journal of Computational Bioinformatics and In Silico Modeling, 2(5): 234-238.

4.    Sekhwal, M.K., Sharma, V., and Sarin, R., 2013. Annotation of glycoside hydrolases in Sorghum bicolor using proteins interaction approach. Journal of Proteome Science Computational Biology, 2(1): 1-8. doi: 10.7243/2050-2273-2-2.

5.    Shanker, A., 2013. Paraphyly of bryophytes inferred using chloroplast sequences. Archive for Bryology 163: 1-5.

6.    Shanker, A., 2013.Inference of bryophytes paraphyly using mitochondrial genomes. Archive for Bryology 165: 1-5.

7.    Shanker, A., 2013. Combined data from chloroplast and mitochondrial genome sequences showed paraphyly of bryophytes. Archive for Bryology 171: 1-9.

8.    Sharma, V., Sekhwal, M.K., Swami, A.K. and Sarin, R. 2012. Identification of drought responsive proteins using gene ontology hierarchy. Bioinformation, 8(13): 595-599.

9.    Sharma V, Kuntal H, Katara P, Sharma S. Identification of SSRs in EST sequences of  Lolium and Agrostis species. International Journal of Integrative Research, 13(2): 80-87.

10. Shanker, A.  and Sharma, V. 2012. Efficacy of maximum likelihood method and longer sequences in phylogenetic analysis. Res. J. Biotech. 7: 114-118.

11. Shanker A and Sharma V. 2012. Chloroplast genome analysis to detect transition link between bryophytes and pteridophytes: A Bioinformatics Approach. Archive for Bryology. 121: 1-8.

12. Katara P and Sharma V. 2012. In Silico Approaches to Predict Gene Distribution Patterns. International Journal of Biomedical Research. 5 (2): 71-74.

13. Katara P, Grover A and Sharma V. 2012. In Silico Prediction of Drug Targets in Phytopathogenic Pseudomonas syringae pv. phaseolicola: Charting a Course for Agrigenomics Translation Research. OMICS: A Journal of Integrative Biology. 16(12): 700-706.

14. Kuntal H, Sharma V and Daniell H. 2012. Microsatellite analysis in organelle genomes of Chlorophyta. Bioinformation. 8(6): 255-259.

15. Sekhwal, M.K., Swami, A.K., Sarin, R. and Sharma, V. 2012. Identification of salt treated proteins in sorghum using gene ontology linkage. Physiology and Molecular Biology of Plants, 18: 209-216.

16. Sekhwal, M.K., Sharma, V. and Sarin, R. 2012. Identification of MFS Proteins in Sorghum Using Semantic Similarity. Theory in Biosciences, DOI: 10.1007/s12064-012-0174-z

17. Katara P, Grover A, Sharma V. 2011. Phylogenetic footprinting: a boost for microbial regulatory genomics. Protoplasma.  Nov 24.

18. Shanker, A., Sharma, V. and Daniell, H. 2011. Phylogenomic evidence of bryophytes’ monophyly using complete and incomplete data sets from chloroplast proteomes. J. Plant Biochem. & Biotechnol. 20: 288-292.

19. Kuntal H. and Sharma V. 2011. In silico analysis of SSRs in mitochondrial genomes of plants. OMICS: A Journal of Integrative Biology 15(11): 783-789.

20.Gautam, B., Katara, P., Singh, S. and Farmer, R. 2010. Drug target identification using gene expression microarray data of Toxoplasma gondii. International J. Biometric & Bioinformatics, 4(3): 113-124.

21.Katara, P., Sharma, N., Sharma, S., Khatri, I., Kaushik, A., Kaushal, L. and Sharma, V. 2010. Comparative microarray data analysis for the expression of genes in the pathway of glioma. Bioinformation, 5(1): 31-34.

22.Katara, P., Singh, A., Raghav, D. and Sharma, V. 2010. Analysis of regulatory genomics and gene expression pattern of medicinal importance genes of Helicobacter pylori. J. Computer Science and Systems Biology, 3(1): 010-015.

23. Katara, P., Grover, A., Kuntal, H. and Sharma, V. 2010. In silico prediction of drug targets in Vibrio cholerae. Protoplasma (In Press).

24.Katara, P., Sanghi, N. and Sharma, V. 2010. In Silico analysis of regulatory elements of antibiotic producing genes in Streptomyces species. International J. Pharmaceutical Sci. Review and Res., 4: 099-103.

25.Katara, P., Gautam, B., Kuntal, H. and Sharma, V. 2010. Prediction of miRNA targets affected proteins and their homologs in Glycine max. Bioinformation, 5(4): 162-165.

26.Katara, P., Agarwal, M., Jeena, G., Karkra, S., Sharma, I. and Sharma, V. 2009. In- silico prediction of the regulatory element patterns of human pathogen Mycobacterium tuberculosis. Int. J Biotechnology and Biochemistry 5(1): 7-13.

27.Singh, A., Katara, P. and Sharma, V. 2009. Drug Discovery Process: An Overview. Biobytes, 4: 40-43.

28.Shanker, A. and Sharma, V. 2009. Annotation Jargon- It’s not too late to correct it. Current Science, 97: 983-984.

29.Shanker, A., Sharma, V. and Daniell, H. 2009. A novel index to identify unbiased conservation between proteomes. IJIB, 7: 32-38.

30.Singh, A., Mishra, S., Raghav, D., Shanker, A. and Sharma, V. 2008. In-silico method for the identification of Mycobacterial sp. Potential drug targets. ICCES, 174: 1-5.

31.Katara, P. and Sharma, V. 2008. In-silico prediction of the essentiality of osmoprotectant genes of Pseudomonas aeruginosa. J. Computational Intelligence in Bioinformatics, 1(2-3): 143-148.

32.Shanker, A., Bhargava, A., Bajpai, R., Singh, S., Srivastava, S. and Sharma, V. (2007). Bioinformatically mined simple sequence repeats in unigene of Citrus sinensis. Sci. Horti. 113: 353-361.

33.Shanker, A., Kumar, A., Sangwan, C., Chowdhary, N., Gupta, S., Sonica and Sharma, V. 2007. Orthologous and essential genes identification in Cryptococcus neoformans and Neurospora crassa. In joint Indo Korean Symposium on Biochemical Engineering & Biotechnology, 22nd -24th February, New Delhi, India.

34.Shanker, A., Tripathi, D., Khandelwal, G., Sharma, G., Agrawal, S., Singh, A. and Sharma, V. 2006. Data mining and database development for simple sequence repeats of Takifugu rubripes (Japanese Pufferfish). Biochem. Cell. Arch., 6: 1-12.

35.Shanker, A., Singh, A. and Sharma, V. 2006. In silico mining in expressed sequences of Neurospora crassa for identification and abundance of microsatellites. Microbiological Research, 162: 250-256.

  •   Book Published:

    1. Sharma, V., Munjal, A. and Shanker, A. 2008.Textbook of Bioinformatics.Rastogi Publications,Meerut.


Notified Under Section (3) of University Grants Commission Act.
@ 2007 Banasthali Vidyapith.