Bioinformatician

SRINIVAS J. PATKAR

Cellular 908-***-**** **** Valley Street, Apt # 222

Jackson, MS 39204

***************@*******.***

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Career Objective

With balanced exposure and experience in the analytical as well as developmental environment seeking a full time position as a Bioinformatician in your research organization to explore the Bioinformatics / Biopharmaceutical industry through continued development of my professional skills

Summary of Profile

 Strong concepts in key courses like Genomics, Proteomics and Microarray Technology and Structural Bioinformatics

 Proficient with GENESPRING 10.0 for studying the Gene expression profiles

 Proficient with the UNIX command line

 Bioinformatics proficiency includes sequence analysis and protein structure prediction.

 Programming skills comprises scientific programming in Perl

 Proficient with MySQL

 Outlined project timelines and schematics using Microsoft Project

 Amicable demeanor and ability to work in a team oriented environment or independently

 Strong interpersonal, communication and leadership skills

 Goal oriented and positive attitude

Relevant Research Experience

RTRN Data Technology Coordinating Center, Jackson, MS Jan, 2010 - Current

Bioinformatics Research Associate

• Working on the T1/T2 large dataset NIH/NCRR funded project

• Inputting data into the Tranche repository

• Currently working on implementing Talend (ETL) software for performing various data modifications like extraction, transformation and loading data from various sources

• Simultaneously working towards implementing/installing (Informatics for Integrating Biology and the Bedside) i2b2 (Client/Server) on VMware server to build ontology over the transformed data using the ontology mapper

University of the Sciences in Philadelphia, Philadelphia Jun, 2008 – Mar, 2009

Research Assistant

• Analyzed the experimental microarray data generated for specific targets of interest and compared them with the yeast genome (wild type) under the guidance of Dr. James Pierce

• Acquired proficiency with the GENE SPRING 10.0 software and interpreted the data using statistical principles

• Performed cluster analysis to predict genes with similar expression profiles

• Analyzed the Gene expression data in various biological pathways to evaluate the "Gene biological function"

Rishi Biotech Pvt. Ltd., Mumbai Mar, 2005 – May, 2006

Research Assistant

• Conducted research on Tumor suppressor Proteins p53 and p21 and Protein Kinasis over a duration of a year under the guidance of Dr.Karthik Khambhampati

• Determined the locations of mutations occurred in p53 protein

• Studied the Protein-Protein, Protein-Ligand, Protein - DNA and Target Proteins and Protein Kinases interactions

• Identified a potential and suitable drug target so as to inhibit the production of p21 which manifests from mutations in p53 protein

Educational Background

M.S., Bioinformatics May, 2009

University of the Sciences in Philadelphia, Philadelphia

Relevant coursework: Genomics, Molecular Evolution and Phylogeny, Advanced Probability and Advanced Algorithms for Bioinformatics, Proteomics, Microarray technology, Bio-computing, Advanced Systems Analysis and Design, Statistics

M.Tech, Bioinformatics Oct, 2006

Dr. D.Y.Patil Institute of Biotechnology, Bioinformatics and Biomedical Sciences, Mumbai

Relevant coursework: Biochemistry, Genetics, Statistics, Recombinant DNA technology, Structural Bioinformatics, Bio-Markup languages, Transcriptomics

Thesis: "Tumor Suppressor Proteins and Protein Kinases"

B.S., Physics (Electronics Instrumentation) May, 2004

University of Mumbai, Mumbai

Bioinformatics Lab Skills

 Successfully undertook a project on "Ribosome Binding Sites Scanner" in which I performed tasks such as filtering the flat file (bacterial sequences), generated positive and negative examples of RBS binding sites, translated these examples in a format usable for training a neural network in JOONE (created training and validation sets), constructed a neural network, finally designed a graphical user interface which was used to generate RBS reports. Programming language used for project: PERL script

 Extensively used TreeView, PHYLIP 3.67 and TREE-PUZZLE softwares for tree reconstruction and visualization for predicting the molecular evolution and phylogeny to study both the Distance and the Maximum Likelihood methods

 Undertook a project using the Bioinformatics assembly softwares: HMMER to identify bacterial promoters

 Analyzed the Protein Expression pattern, Protein Structure analysis by Homology and Threading, Protein Sequence analysis, Protein Function analysis

Bioinformatics Proficiency / Technical Skills

 Nucleotide: GenBank, EMBL, DDBJ, Ensembl, Contig, dbSNP

 Protein: SwissProt, PIR, Pfam, PROSITE, BLOCKS, PRINTS, Interpro, DSSP, SCOP, CATH

 Others: COG, KEGG, BRENDA, OMIM, Entrez (NCBI)

 Molecular Docking: MOE,Chemsketch,HEX,Argus Lab,ME Dock,pDraw32,VectarNTI,Rasmol, SwissPDB, Patch Dock, CHEMERA, CLUS PRO

 Softwares used for analyzing: Post-Translational modifications - NetPhos, Structural Proteomics - TLS motion determination, Pharmacogenomics - DisEMBL, Molecular Modeling - EsyPred3D, MacVector

 Sequence Analysis Software: BLAST suite, FASTA, CLUSTALW

 Operating System / Medium: Windows 98/XP/NT/2000/Vista, UNIX, Mac OS-X

 Scripting Languages: C, PERL, HTML

 RDBMS: MySQL

 Statistical Package: Learning R script

 Tranche Repository

 Talend (Extract, Transform, Load) data integration workbench

 i2b2 workbench (Informatics for Integrating Biology & the bedside)

Professional Affiliations

Biotech & Pharma Professionals Network, Genomics: Next Gen Sequencing and Microarrays, GPBA

Professional Certifications

 Protecting Human Subject Research Participants certificate (PHRP)

 Health Insurance Portability and Accountability Act (HIPAA) compliance certificate

Other Work Experience

Teaching Assistant 2007 - 2008

Bio-Physics department at USP

Graduate Student Instructor 2007 - 2009

Physics department at USP

Graded papers, Proctored exams, Interacted with the undergraduate students to clarify their queries during lab sessions

Student Assistant Supervisor 2007 - 2008

Worked with the Safety department for the chemical inventory at USP

Data Administrator - Alumni Relations 2007 - 2009

Worked in the Institutional Advances Department reporting to the Director, Alumni Relations at USP

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