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Dr.V.UMASHANKAR
Present Address
Chennai, Tamil Nadu,
India, 600 040.
Mobile: 91- 98400 54575
E-mail: uma_sci@yahoo.com
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Objective:
To work in a professionally managed Institution where I can utilize my capabilities for the achievement of the institutional goals and update myself. I will endeavour to be always ready for challenges, at the same time remain steady to accomplish my objective.
Education:
Ph.D., in Zoology (Specialized in Genomics & Bioinformatics)
PG Diploma in Bioinformatics
S-Star Certification in Bionformatics (S-star alliance-National university of Singapore)
M.Phil in Genetics
SLET (State Level Educational Test) qualified
M.Sc in Zoology
Skills:
Mastermind the design, development and implementation of various
automated Bioinformatics tools for application in sequence analysis
and protein modeling studies.
Mastermind systems and processes for Effective Administration.
Team Management & Organizing Capabilities.
Bioinformatics teaching, Expertise in curriculum design, consultancy support for Biological Education.
Technical expertise in molecular biology techniques like Protein Isolation and Purification, tissue culture methods, PCR, Western Blot, Southern Blot, Gel electrophoresis, Thin Layer Chromatography, Plasmid Isolation, Bacterial Cloning and Cytogenetics Techniques, Codon usage Genomics and Drug Target Identification.
Laboratory animal handling and genotoxicity analysis.
Hands on experience in Bioinformatics Softwares like Emboss, GCG, Autodock, Modeller, BuildQsar, Gromacs LIMS etc., and all suites of NCBI and EMBL.
Knowledgeable in Windows, Linux, C, C++ & perl.
Experience:
Details: May 2008 to till date: Working as Head, Department of Bioinformatics, SRM University, Ramapuram, Chennai, 600089.
President – Alumni Association – SRM University, Ramapuram, Chennai, 600089.
Member – Board of Studies in Bioinformatics, University of Madras
Jul 2003 to Apr 2008: Worked as Head, Department of Bioinformatics, Vel’s College of Science, Pallavaram, Chennai, 600117 and also serving as Scientific advisor in Bioinformatics for Biosciences Research Institute, Chennai. & Official guide for M.phil Biotechnology & Bioinformatics - Bharathidasan University (Produced 14 M.phils),
Jan 2003 to Jun 2003: Worked as Senior Research Analyst in Biosciences Research Institute (Amityindia Group) and also served as a Senior faculty member for Bioinformatics Institute of India, Chennai.
Also Worked as Assistant Research Consultant in Gemeiosys Research Labs Pvt. Ltd. Chennai. Worked in the team coordinating various projects and acted as a crucial domain person in solving the problem in-silico.
June 1999 to Aug 2000: Gained research experience for 1 year as a M.Phil scholar in Dr.A.L.M.Postgraduate institute of Basic Medical Sciences, University of Madras, Chennai, by submitting a dissertation on "Studies on Antimutagenic effects of Spirulina".
Honours:
Sep 2007 to till date: Appointed as Member, Board of studies in Bioinformatics, University of Madras.
'Vitamins and Hormones' was first published in 1943,and is the longest-running serial book published by Elsevier Academic/Press.'Theoretical model of human ghrelin precursor'(PDB ID: 1p7x) predicted by me is printed and cited on the coverpage of 77th volume of the above mentioned prestigious book.
March 2009 to till date: Serving as Ph.D thesis evaluation examiner for Jadhavpur University
Jul 2004 to till date: Serving as external examiner for the following courses:
B.Tech & M.Tech in Bioinformatics, B.Tech in Biomedical Engineering at Sathyabama University, Chennai.
M.Sc., Bioinformatics at Sri Ramachandra Medical University,Chennai,
B.Tech Biotechnology at Dr.MGR, University,Chennai
List of Publications:
Theoretical Protein Models:
3D model of Cyclophilin of S.pombe in Protein Data Bank (Accession No: 1WVS)
3D model of Acyl Carrier Protein of Pseudomonas aeruginosa in Protein Data Bank (Accession No: 1OP7).
3D model of Ghrelin precursor of Homo sapiens is published in Protein Data Bank (Accession No:1P7X).
3D model of phosphomethyl pyrimidine kinase from Leptospira interrogans serovar lai strain 56601 (Accession No: 2G53).
Articles:
Physical parameter optimization by Response Surface Methodology for lipase production by Aspergillus niger and its partial purification, N.Shanmugavalli , Y.Rajalakshmi , V.Umashankar , L.Anburajan ,C.Greety Sunitha, Int. J. Biol. Chem. Sci. 3(1): 81-84, (2009).
Hepatoprotective effects of Cassia tora on CCl4 induced liver damage in albino rats, Vetrivel Rajan, N. Shanmugavalli, C. Greety Sunitha, V. Umashankar, Indian J.Sci.Technol, ISee Publications, Vol.2 No 3. 41 – 44. (2009).
Antimicrobial Activity of Vanilla Planifolia N. Shanmugavalli, V. Umashankar and Raheem, Indian J.Sci.Technol, ISee Publications, Vol.2 No 3, 37 - 40 (2009).
Open discovery: An integrated live Linux Bioinformatics platformUmashankar & Kalabharath Pilla, Bioinformatics, BMI Publications, 3(4), 144-146 (2008).
ACUA: A software tool for automated codon usage analysis Umashankar et al., Bioinformation, BMI
publications 2(2): 62-63 (2007).
Modeling of phosphomethyl pyrimidine kinase from Leptospira interrogans serovar lai strain 56601,Umashankar et al., Bioinformation, BMI publications 1(5): 158-160 (2006).
Toxicoinformatics –Review- An Informatics talk on Toxicology, V.Umashankar et al., Toxicology international, Society of Toxicology, Vol. 13 (2), 2006.
Codon Usage Analysis of Leptospira interrogans serovar lai strain 56601 House Keeping Genes Umashankar et al., Bioinformatics trends, BII publications,Vol 1, issue 1, (28-48) 2006.
Nitrosoft– a Comprehensive Environment for sequence analysis, Stalin.N, V.Umashankar, Radha Mahendran, Bioinformatics India, Vol.3, Issue2. BII Publications, ( 85 – 87) 2004.
Article entitled "Readmol - a Java based molecular visualization tool " is published in, Gnanendra.T.S, Stalin N, Umashankar V, Bioinformatics India journal. BII publications Vol 2. Issue. 2. (25-27) 2004.
Article entitled "Pharmacogenomics: an appraisal "is published in Bioinformatics India journal. Vol 2. (27 - 32) 2003.
Physico-chemical characterization of fish Antifreeze Proteins using Bioinformatics Tools, K.Sivakumar, V.Umashankar, and D.Sudarsanam: Proceedings of National Seminar on “Zoology and Human Welfare”. 2004.
Projects:
Project I OpenDiscovery
This project was conceptualized and guided by me towards creation of high performance Live Linux for Molecular Modelling applications accessible via Flash Drive. This Live distribution can be downloaded from www.opendiscovery.org.in
Project II Toxin Database
This project is done for the Singapore Client at Gemeiosys Research Labs. I was involved in the design, 3D modelling, identification of novel ligands and Functional annotation of different toxins protein sequences.
Project III Bioweave
This project involved the development of comprehensive sequence Annotation tool. I was involved in schema designing, paramaterical analysis and software testing.
Project IV PL-Database
This project involves the identification and depositon of proteins involved in autoimmune diseases and the ligands interacting with it. It also comprises of various physical and chemical properties of the proteins and ligands. I am involved in sequence annotation and macromolecular interaction studies using different molecular modeling softwares.
Project V
Carried out project entitled "Sequence analysis and Homology Modelling of Pseudomonas aeruginosa acyl carrier protein" as a partial fulfillment of Postgraduate Diploma in Bioinformatics. 3D model predicted is published in Protein Data Bank (Accession No: 1OP7)
Project VI Carried out project entitled "studies on food and feeding habits of marine fish Caranx Kurra "as a partial fulfillment of M.sc. Degree course.
Other projects Guided many student projects for PG diploma and M.Sc Students.
Educational Profile:
Ph.D., in Zoology (Specialized in Bioinformatics)
Institution: Department of Advance Zoology and Biotechnology,
School of Genomics Division, Loyola College, Chennai, India.
Year: August 2008.
Thesis Title: “Automation of Codon Usage Genomics and Identification
Of Drug Targets in Few Human Bacterial Pathogens”
Theme: This study was attempted to develop automated and highly interactive software for high-throughput codon usage analysis. Furthermore, to utilize the software for analyzing codon usage patterns in essential genes of few pathogens, and to evolve a novel drug target identification approach by coupling codon usage with subtractive genomics. August: 2008
S-star certification in Bioinformatics
Institution: National University of Singapore- s-star alliance (Alliance of 7 international universities-Karolinska University, University of Uppsala, University of Sydney, Stanford University, Macquarie University, National University of Singapore, University of Western Cape)
Year: August 2004.
Subjects: Comparative genomics, Transcript analysis, Algorithms for Computational Biology, Nucleic acid structure, Dynamics and Engineering, Protein structure Prediction, Protein-Ligand Modeling, Perl and Bioperl, Computational analysis of Biological Sequences, Problem-Based Learning
Grade Obtained: B+
Post Graduate Diploma in Bioinformatics
Institution: Electronics Corporation of India (Dept. of Atomic Energy) Chennai and Centre for Information Science and Technology, University of Mysore.
Year: Feb 2003.
Subjects: C, C++, Databases, Bioinformatics, Biological Databases, Numerical and Statistical analysis, Bioinformatics tools, Web and Internet technologies, Modelling and simulation, Project viva-voce.
Marks obtained: 81 %
Master of philosophy in Genetics
Institution: Dr. A.L.Mudaliar Post Graduate Institute of Basic Medical sciences, Taramani, Chennai-113. University of Madras.
Year: Aug 2000.
Subjects: Principles in Genetics, Research Methodology, Project viva-voce.
Marks obtained: 72.67 %
Master of Science in Zoology
Institution: Pachaiyappa's College, Chennai, University of Madras.
Year: mar 1999. Subjects: Zoology, Cell and Molecular Biology, Genetics and Biostatistics, Animal Physiology and Biochemistry, Developmental Biology and Immunology Aquaculture and Fishery Biology, Ecology and Evolution Project viva-voce.
Marks obtained: 58%
Bachelor of Science in zoology
Institution: Sir Theagaraya College, Chennai,University of Madras.
Year: Mar 1997.
Subjects: Zoology, Biochemistry, Microbiology, Pest Management,
Cell biology, Genetics, Ecology, Evolution.
Marks obtained: 54 %
Certifications:
Qualified State level Educational Testing for Lectureship (SLET) conducted by Bharathidasan University.
Certificate of training obtained for handling Accelrys Commercial Bioinformatics softwares (Discovery Studio gene, Omiga, Genetool, Peptool ) from University of Mysore.
EnableIT certificate in Basic Computer Applications , certified by edutech technologies
Invited Lectures: Presented a paper on Protein fold recognition in Bioinformatica 2003(National level seminar sponsored by DST) in Stella Marys college Chennai.
Trends in Bioinformatics, Vitalabs Biosys Academy and Research.
Introduction to Bioinformatics, SISI, Chennai.
Events Chaired: Invited as Judge for paper presentation event for National Level Conference “National Conference on Recent Trends in Environmental Biotechnology 16th to 18th October 2008”
Conferences organized:
National Level Symposium on Career prospects for lifescience students- METAMORPH – Head & Convener of the event, held at SRM University, Ramapuram Campus, Chennai – 600 089.
One Day Seminar cum Demonstration on Microarray Analysis – Head & Convener of the event, held at SRM University, Ramapuram Campus, Chennai – 600089.
GENOMICS,PROTEOMICS AND COMPUTATIONAL BIOLOGY- Served as a resource person for conducting National Level Symposium cum workshop funded by DST,CSIRAND TNSCST, on 15th-17th Febraury 2006.
DNA-DRUG DESIGN – Organized a National Level Symposium funded by CSIR, TNSCST, on 7th and 8th of sep 2004.
BIOINFORMATICA 2003 - Served as a resource person for conducting National Level Seminar on Bioinformatics jointly conducted by Bioinsilico Research Team and Dept. of Bioinformatics, Stella Marys college, Chennai.
VIBS 2003 - Served as one of the core Organiser for the Inter-collegiate symposium conducted by Vels institute of Biological sciences.
Conferences & workshops Attended:
BIO-GEOINFORMATICS 2005 – National Level Symposium, School of Genomics, Department of Zoology, Loyola College, Chennai -34. Date: 28thFebruary to March 1st 2005.
STATE LEVEL SYMPOSIUM ON HI-TECH AND INSTRUMENTATION IN MEDICAL LABORATORY TECHNOLOGY FOR DIAGNOSIS OF HUMAN DISEASES
– Loyola College, Chennai -600034.
FACULTY IMPROVEMENT PROGRAMME 2005 – Vel’s College of Science, Chennai – 600117.Date: 15th to 17th June 2005.
Awards:
CERTIFICATE OF MERIT – awarded by Vel’s College of science for having produced 100%
result in Proteomics Paper of Ist M.Sc., Bioinformatics in University of Madras Examination. 2003-2004. Batch.
AWARDED WITH AN MEMENTO for publications of the Academic Year 2006 to 2008 by Vel’s College of Science, Pallavaram, Chennai – 600 117.
Personal profile:
Age: 31 Yrs.
Sex: Male
Nationality: Indian
Languages Known: English, Hindi & Tamil
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