Resume

Animesh Sharma

Sex: Male

Date of Birth: 14th Jan 1977

Permanent Address: 86-B, Pocket-1, Mayur Vihar-1, Delhi-110091, India

Phone: +1-646-736-1345

Skype: sharma_animesh

E-mail: Sharma.Animesh@gmail.com , Animesh.Sharma@II.UiB.no , Animesh@Fuzzylife.Org

Web: http://sharma.animesh.googlepages.com/

EDUCATION

• Aug 2001 - May 2002, School of Information Technology, Jawaharlal Nehru University, India, A.P.G.D. Bioinformatics (Advanced Post Graduate Diploma in Bioinformatics).
• Aug 1995 - Feb 2001, Maulana Azad Medical College, Delhi University, India, M.B.B.S. (Bachelor of Medicine and Surgery).

EXPERIENCE

• Dec 2011 - April 2012: Research fellow, Bergen fMRI group (http://fmri.uib.no/), Department of Biological and Medical Psychology, University of Bergen.
  • fMRI data analysis
• Dec 2007 - Dec 2011: Teaching assistant and research fellow, Department of Informatics (http://ii.uib.no/) and Computational Biology Unit (http://www.bccs.uni.no/units/cbu), University of Bergen.
  • 454 Sequence assembly and annotation
  • Assisting in INF121 and INF380 courses
• Jan 2006 - March 2007, Consultant, Dimagi Inc., Cambridge, U.S.A., http://www.dimagi.com/
  • Machine learning based speech analysis
• Sep 2004 - May 2005, Visiting Scientist, Indian Statistical Institute, Kolkata, India, http://www.isical.ac.in
  • Gene expression classification, Promoter Prediction and Protein Folding analysis.
• April 2003 - June 2004, Associate Consultant, Infosys Technologies Limited, Bangalore, India, http://www.infosys.com
  • Consultation over Oracle Clinical ver. 4.5 for major Pharmaceutical and Clinical trial management companies; Installed and maintained 8 nodes Dell Cluster running Red Hat Linux 9.0 with MPI based namd-charmm++ and ClustalW; Design and implementation of 'Doctors database' streamlining process of doctor's enrolment in clinical trials; Data Integration & Knowledge Management for Life Sciences, GPCR as case study; ECG dashboard for a client which gives easy access to critical information such as status of the clinical trial pertaining to ECG of subjects enrolled in trial
• May 2002 - March 2003, Computational Biologist, Mascon Global Limited, Delhi, India, http://www.masconit.com
  • Member of designing and testing team for windows based application EXOME to do basic sequence analysis (DNA and protein) and OncoMaster, an Integrated Information Suite of Cancer Gene, designed to demonstrate the capability of Integrated Databases for Cancer Research and Development.

AWARDS

• National
  • Scholarship from Department of Biotechnology, India [2001-2002]
  • Mascon fellowship, India [2002]
  • Rank 13 in medical entrance examination (Delhi, overall India 114) [1995]
  • State Level (U.P.) Mathematics Olympiad, India [1993].
• International
  • Travel allowance from J. Craig Venter Institute, Rockville, MD, U.S.A. [2010]
  • Molecular and Computational Biology Fellowship, University of Bergen, Norway [2010]
  • Graduate research assistance-ship from University of Missouri - Kansas City, U.S.A. [2005]

SCIENTIFIC MEETINGS

• ESF-ENSN Bergen Neuroschool 2011, Lectured on fMRI pattern recognition using Machine Learning
• INFO381 2011, Lectured and provided hands on training for applying Support vector machine using polynomial kernel
• Celera Assembler 2010 meeting, Presented The Cod Genome Assembly
• Programmatic Access to Biological Databases 2010 Workshop, Successfully completed
• Lipari International Summer School on BioInformatics and Computational Biology on "Statistical and Machine Learning Methods in Computational Biology" 2010, Successfully completed with Grade A-
• BREW 2008 and 2009, Presented papers on High throughput de-novo genome assembly Genomes 2008, Observer
• JNU 2007, Project participation related to GroEL structure modelling and bioinformatics analysis
• IMSc 2004, Presentation on protein structure prediction
• ICONIP 2004, Member of the organizing committee

SKILLS

• High throughput sequence assembly and analysis
• Protein sequence and structure analysis
• fMRI data analysis,
• Machine learning

PATENT

1092/DEL/2007-Indian Patent- Insecticidal XnGroEL protein of Xenorhabdus nematophila

MEMBERSHIP

Registered medical practitioner, Delhi Medical Council (DMC/R/00534), India

TOOLS

PERL, Linux (BASH), Machine learning using WEKA, MATLAB (Bioinformatics toolbox, SPM, MVPA), R, Python (PyNEST)

PUBLICATIONS

• Tariku Markos Tadiso, Animesh Sharma, and Ivar Hordvik. “Analysis of Polymeric Immunoglobulin Receptor- and CD300-like Molecules from Atlantic Salmon.” Molecular Immunology 49, no. 3 (2011): 462–473.
• Bastiaan Star, Alexander J. Nederbragt, Sissel Jentoft, Unni Grimholt, Martin Malmstrom, Tone F. Gregers, Trine B. Rounge, Jonas Paulsen, Monica H. Solbakken, Animesh Sharma, et al. “The Genome Sequence of Atlantic Cod Reveals a Unique Immune System.” Nature 477, no. 7363 (2011): 207–210..
• Animesh Sharma, Kenneth Hugdahl, and Karsten Specht. “Meta Analysis of Language Data Using Machine Learning.” In 17th Annual Meeting. Québec City, Canada (2011). http://ww4.aievolution.com/hbm1101/index.cfm?do=abs.viewAbs&abs=2757.
• Atif Kamil, Knut Falk, Animesh Sharma, Arnt Raae, Frode Berven, Erling Olaf Koppang, and Ivar Hordvik. “A Monoclonal Antibody Distinguishes Between Two IgM Heavy Chain Isotypes in Atlantic Salmon and Brown Trout: Protein Characterization, 3D Modeling and Epitope Mapping.” Molecular Immunology 48, no. 15–16 (2011): 1859–1867.
• Susanne Balzer, Ketil Malde, Anders Lanzén, Animesh Sharma, and Inge Jonassen. “Characteristics of 454 Pyrosequencing Data enabling Realistic Simulation with Flowsim.” Bioinformatics 26, no. 18 (2010): i420 –i425.
• Animesh Sharma, and Inge Jonassen. “Comparing Different Versions of Newbler for 454-Pyrosequencing Data Assembly”. Helsinki, Finland, 2009. http://www.cs.helsinki.fi/u/prastas/BREW2009/travel.html (2009).
• Mohan Chandra Joshi, Animesh Sharma, Sashi Kant, Ajanta Birah, Gorakh Prasad Gupta, Sharik R. Khan, Rakesh Bhatnagar, and Nirupama Banerjee. “An Insecticidal GroEL Protein with Chitin Binding Activity from Xenorhabdus Nematophila.” Journal of Biological Chemistry 283, no. 42 (2008): 28287 –28296.
• Animesh Sharma. “Music from DNA String” (2008). http://www.uib.no/People/ash022/BYSR08_program_HR_GB.pdf.
• Nikhil Ranjan Pal, Animesh Sharma, and Somitra Kumar Sanadhya. “Deriving Meaningful Rules from Gene Expression Data for Classification.” J. Intell. Fuzzy Syst. 19, no. 3 (2008): 171–180.
• Animesh Sharma, and Jonassen Inge. “Comparing the Performance of Various Assemblers on a Genome Partially Sequenced with 454 Pyrosequencing”. Bielefeld, Germany (2008). http://www.techfak.uni-bielefeld.de/GK635/termine/workshops/brew2008/program.html.
• Nikhil Ranjan Pal, Kripamoy Aguan, Animesh Sharma, and Shun-ichi Amari. “Discovering Biomarkers from Gene Expression Data for Predicting Cancer Subgroups Using Neural Networks and Relational Fuzzy Clustering.” BMC Bioinformatics 8, no. 1 (2007): 5.
• Nikhil Ranjan Pal, Somitra Kumar Sanadhya, and Animesh Sharma. “Computation of Consensus Hydrophobicity Scales with Self-organizing Maps and Fuzzy Clustering Along with Applications to Protein Fold Prediction.” Neural, Parallel Sci. Comput. 15, no. 1 (2007): 75–90.
• Nikhil Ranjan Pal, Animesh Sharma, Somitra Kumar Sanadhya, and Karmeshu. “On Identifying Marker Genes from Gene Expression Data in a Neural Framework Through Online Feature Analysis: Research Articles.” Int. J. Intell. Syst. 21, no. 4 (2006): 453–467.
• Animesh Sharma. "Clustering genes on the basis of composite regulatory patterns." Thesis, Advanced post graduate diploma in Bioinformatics, Jawaharlal Nehru University (2002). http://sharma.animesh.googlepages.com/APGD_Thesis_Brief.pdf
• Animesh Sharma, Malde Ketil, and Inge Jonassen. “Comparing Genome Assemblies of Atlantic Cod.” Manuscript in Preparation.
• Settu Sridhar, Animesh Sharma, Heidi Kongshaug, Frank Nilsen, and Inge Jonassen. “Whole Genome Characterisation of Francisella Orientalis from Tilapia and Comparative Analysis of Francisella Subspecies Strains.” Manuscript in Preparation.
• Animesh Sharma, Malde Ketil, and Inge Jonassen. “Selecting 454 Pyrosequencing Reads and Assessing Performance of Assemblers.” Manuscript in Preparation.