**/**** – present
SCIENTIST, CLINICAL PROTEOMICS
•Coordinated support in setting up a CLIA lab to commercially run lab developed tests (LDTs)
•Successfully implemented revalidation of biomarkers and generated validation reports for use in the CLIA lab
•Currently implementing on bringing onsite a LIMS system to make the CLIA lab fully automated
•Experienced in Mass Spectrometric (MS) data analysis obtained from discovery and/or targeted workflows.
•Successfully implemented the company website redesign using HTML/CSS
02/2012 – 03/2015
ThermoFisher Scientific BRIMS Center
•Successfully performed quantitative differential expression analysis of multiple LC/MS datasets and applied it in Biomarker and Targeted Discovery.
•Performed Quality Analysis (QA) for various Thermo Scientific’s software’s such as Proteome Discoverer, Pinpoint and Crystal.
•Successfully designed application workflows and validated mass spectrometric application methods for use in translational research
•Developed and implemented MSIA (Mass Spec. Immuno Assay) sample enrichment technology and methods.
•Interacted and provided customer support for implementation of Thermo Scientific’s software’s in various collaborator labs
•Managed the thermo-brims.com web portal, initiated at BRIMS and temporarily managed the support team for the large registered user base using ThermoFisher Scientific’s software products.
09/2011 – 02/2012
BIOINFORMATICIAN – CONTRACTOR
Vast Scientific – Contractor for ThermoFisher Scientific BRIMS(Biomarkers Research Initiatives in Mass Spectrometry) Center
•Formulated automated tests to enhance Thermo Scientific’s SIEVE software for proteomic analysis
02/2011 – 08/2011
PROGRAMMER ANALYST - CONTRACTOR
Hebrew Senior Life, Institute for Aging Research
•Performed Genome Wide Association Meta-analysis (GWAS)
•Monitored the Foot Genetics Study using the Framingham cohort by applying Perl and Shell scripting and SOLAR (Sequential Oligogenic Linkage Analysis Routines) software on a Linux platform.
06/2010 – 08/2010
BIOINFORMATICS ANALYST INTERN
•Analyzed the expression data obtained from the Treg subsets using Perl scripting.
07/2009 – 12/2009
BIOINFORMATICS ANALYST INTERN
Dana Farber Cancer Institute @ Center for Computational Cancer Biology (CCCB)
•Monitored data curation of interacting partners of Myc proteins using SQL.
•Demonstrated the relationship between the cancer patterns in the germline Vs acquired cancer cells and also the relationship between deletions and Loss of Heterozygosity (LOH) using Perl and Shell scripting on a Linux system.
2008 – 2010
Masters in BIOINFORMATICS
Northeastern University, Boston, MA
Major Subjects:Biochemistry, Genome and Proteome Analysis, Biological Databases and Data Mining, Molecular Biology, Hidden Markov Models and Algorithms, Molecular Modeling, Bioethics, Database Design, Unix, Security & Management (Oracle/SQL), Bioinformatics Programming and Statistics for Bioinformatics
2004 – 2008
Bachelor of Technology in BIOINFORMATICS
Dr. DY Patil Institute for Biotechnology & Bioinformatics, Navi Mumbai, India
Major Subjects:Biochemistry, Programming in C/C++, SQL, Visual Basic, HTML, Genetic Engineering, Molecular Biology, Immunology, Biological Sequence Analysis, Microarray Analysis and Protein Structure Modeling
Python, R, Shell & Bash Scripting, Basic C#, Ubuntu-Linux, Windows 7/8/8.1, Oracle/SQL, MS Office, OpenOffice, HTML/CSS, NGS Tools
Communicative, Analytical, Initative, Interpersonal, Team Player, Detail-oriented, Motivated, Versatile
•Introduction to Computer Science and Programming using Python - MIT– edX
•Explore Statistics with R - Karolinska Institutet – edX
•Introduction to Linux - Linux Foundation – edX
•Introduction to R Programming – Microsoft - DAT204x - edX
•Genomic Data Science with Galaxy – Johns Hopkins University - Coursera
•Command Line Tools for Genomic Data Science – Johns Hopkins Univerisity - Coursera
•Served as the Vice-President for Programs & Administration for The Graduate and Professional Student Association (GPSA), the Graduate Student Governing Body at Northeastern University
•Edyta Marcon et al., "A method to characterize antibody selectivity and specificity for use in immunoprecipitation", Nature Methods. 2015 Jun 29. doi: 10.1038/nmeth.3472.
•Lopez et al.,"Proteomic signatures of serum albumin-bound proteins from stroke patients with and without endovascular closure of PFO are significantly different and suggest a novel mechanism for cholesterol efflux.", Clinical Proteomics 2015, 12:2 doi:10.1186/1559-0275-12-2
•Krastins, B et al., "Rapid development of sensitive, high-throughput, quantitative and highly selective mass spectrometric targeted immunoassays for clinically important proteins in human plasma and serum." Clin. Biochem. 2013, 46 (6), 399–410
•Amol Prakash et al., "Comprehensive Peptide Searching Workflow to Maximize Protein Identifications", Thermo Scientific Poster Note-PN HUPO13_POS-02-041_APrakash _E 09/13S
•Mary F Lopez et al., "Rapid discovery of differentially expressed proteins in T2D plasma samples using improved UHPLC chromatography and pSMART data acquisition", Thermo Scienti¬fic Poster Note - MSACL - PN64369-EN 0315S
•David Taylor et al., "MSIA-SRM assay for parathyroid hormone and vitamin D binding protein: Correlation with clinical immunoassay methods and application to clinical samples", Endocrine Abstracts (2013) 31 P41, DOI:10.1530/endoabs.31.P41
•Shadab Ahmad et al., "Improving Peptide Searching Workflow to Maximize Protein Identifications", Poster - ASMS 2013
•Maryann S Vogelsang et al., "Characterizing Qualitative and Quantitative Global Changes in the Aging Heart Using pSMART, a Novel Acquisition Method", Thermo Scientific Poster Note- PN-64144-ASMS-EN-0614S
•Scott M. Peterman et al., "Targeted Multiplexed Protein Quantitation using Serial Immunoaffinity Extraction Coupled to LC-MS", Thermo Scientific Poster Note - PN64039 HUPO14_E 04/14S
•Prakash, A et al., "Hybrid data acquisition and processing strategies with increased throughput and selectivity: pSMART analysis for global qualitative and quantitative analysis" J. Proteome Res., 2014, 13(12), 5415-5430
•Peterman, S et al., "An automated, high-throughput method for targeted quantification of intact insulin and its therapeutic analogs in human serum or plasma coupling mass spectrometric immunoassay with high resolution and accurate mass detection (MSIA-HR/AM)." Proteomics. 2014 Jun; 14(12):1445-56. doi: 10.1002/pmic.201300300
•Hannan, Marian T et al.; “Lesser Toe Deformities Are Highly Heritable in Older Men and Women: The Framingham Foot Study.” abstract - Arthritis Rheum 2011;63 Suppl 10:1555