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Click here or scroll down to respond to this candidate Candidate's Name , PH.D
PHONE NUMBER AVAILABLE | EMAIL AVAILABLE | San Diego, CA
Waiting for Green Card
EAD approved
MOLECULAR BIOLOGY SCIENTIST | BIOCHEMISTRY | PHARMACEUTICAL SCIENTIST
Professional Research Scientist with over 10 years of direct research and lab experience in cellular and
molecular biology. Specializing in protein biochemistry and chromatin biology. History of next generation
sequencing, handling mammalian cell lines, T-cells, retroviral and lentiviral transduction, flow cytometry,
transcriptomics, chromosome conformation capture, ChIA PET technology, next generation sequencing,
complex protein purifications, protein chromatography, and chemical modulators screening. Able to
prioritize many projects at once and work well with in guided teams. Earned Ph.D in Biochemistry and
Epigenetic, Masters of Science (MS) in Botany; featured in four scientific peer reviewed publications and
awarded multiple Research Fellowships; basic understanding of Intellectual Property and Patent Law.
Next generation sequencing Protein chromatography
Genomics Chemical modulators screening
ChIP and RNA sequencing Mammalian cell lines
Transcriptomics Primary T cells
Chromosome conformation promoter interaction Retroviral and lentiviral transduction
(3C) Multi-color Flow cytometry analysis
ChIA PET method Immunocytochemistry
Protein biochemistry NGS data analysis
Multi-subunit protein complex purifications Software: Python, Excel, Prism
PROFESSIONAL EXPERIENCE
Postdoctoral Fellow, Dr. Vijayanand Pandurangan
La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA December 2015-Present
Involved in a project to profile various histone modification marks genome wide as part of Human
Immunology Project Consortium (HIPC) such as H3K27Ac, H3K4me1
Characterizing conditions for ChIPseq for low cell numbers input for more than 100 healthy individuals
Postdoctoral Fellow, Prof. Anjana Rao
La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA March 2010 December 2015
Worked with naturally occurring as well as induced regulatory T cells in mouse to understand genome-
wide distribution of Foxp3 and its role in determining lineage specificity.
Performed ChIPseq and RNAseq to analyze genome wide role of transcription factors expressed in
regulatory T cells.
Successfully carried out low resolution Chromosome Conformation Capture (3C) on one of the
transcription factor gene locus to determine the relative crosslinking of promoter with the distal regions.
Successfully developed a method called ChIAPET (Chromatin Interactions Analyses by Paired End Tag
Sequencing) followed by next generation sequencing to understand the role of enhancers and other
genomic regions mediated by Foxp3 in regulatory T cells.
Successfully purified human as well as mouse TET1, TET2 and TET3 proteins from baculovirus
expressing insect cell system with high specific activities
Successfully purified NgTET1 using Ionexchange, gelfiltration and affinity purification chromatography.
Familiarity with AKTA and Biorad purification system
Successfully developed platform for small molecule libraries screening for TET1 using ELISA based
method resulting into part of 2 publications in Nature.
Characterized specific activity of recombinant purified TET proteins with various combinations of methyl
cytosines (CpG) containing DNA templates
Preliminary validation of the ELISA based method using LOPAC screen.
Integrate ALPHA screen method for TET1 screening for small molecule libraries
Isolate metabolites for identification by LC/MS using organic solvent purification method in macrophage
cancer cell line THP1.
Extensive experience in molecular biology techniques such as cloning, lentiviral and retroviral
packaging, stable cell line generation, primary T cells isolation and culture from mouse, transfection,
transduction, overexpression of protein in mouse primary CD4 cells, immune staining, FACS, Neon
transfection
Basic programming knowledge in Python and R, and pyMOL software.
Document all work in laboratory notebook, study reports, summary reports, and presentations.
Postdoctoral Fellow, Dr. Jyotsna Dhawan
Center for Cellular and Molecular Biology, Hyderabad, India April 2009 March 2010
Trained and oversaw 2 research technicians in hands-on molecular biology techniques.
Taught radioactive labeling for EMSA, ChIP, PolIII and histone octamer reconstitution.
Lead organization responsible for conducting the ADNAT symposium in 2009; an annual event featuring
workshops and guest speakers from various fields in Biology.
Graduate Research Assistant, Dr. Purnima Bhargava
Center for Cellular and Molecular Biology, Hyderabad, India Aug 2002 April 2009
Discovered the involvement of the chromatin elongation factor FACT in the transcriptional regulation of a
Pol III transcribed gene.
Performed multi-protein complex purification of endogenous as well as over-expressed proteins in
bacteria (E.coli), yeast (P.pastoris), insect cells (Sf9), mammalian cell lines (HeLa and HEK cell lines).
Purified chromatin-remodeling complexes such as Histone Acetyl Transferases (HATs), Histone
Deacetylases (HDACs) and RNA polymerase III.
Successfully purified recombinant histones as well as native histone from Drosophila and reconstituted
chromatin using purified chromatin associated factors including FACT complex, ISWI, NAP1 and Acf1.
Characterized chromatin by DNase I and MNase digestion.
Performed DNA-protein interaction by foot printing and modified southern blotting methods
Established an in vitro system to understand the role of chromatin and other transcription factors in the
expression Pol III transcribed genes
Co-immunoprecipitation of FACT complex with over-expressed as well as endogenous H2A.Z-H2B
histone complex
Overexpression, purification and reconstitution of histone octamer from yeast
FEATURED PUBLICATIONS
Yeast H2A.Z, FACT complex and RSC regulate transcription of tRNA gene through differential dynamics of
flanking nucleosomes. Mahapatra S, Dewari PS, Bhardwaj A, Bhargava P.; Nucleic Acids Research. 2011 May;
39(10): 4023-34. Link
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Pastor WA, Pape UJ, Huang Y,
Henderson HR, Lister R, Ko M, McLoughlin EM, Brudno Y, Mahapatra S, Kapranov P, Tahiliani M, Daley GQ, Liu XS,
Ecker JR, Milos PM, Agarwal S, Rao A. Nature. 2011 May 19; 473(7347): 394-7. Link
Vitamin C induces Tet dependent DNA demethylation and blastocyst like state in ES cells. Blaschke K, Ebata
KT, Karimi MM, Zepeda-Martinez JA, Goyal P, Mahapatra S, Tam A, Laird DJ, Hirst M, Rao A, Lorincz MC, Ramalho-
Santos M.; Nature. 2013 Aug 8: 500 (7461): 222-6. Link
STIM1 triggers a gating rearrangement at the extracellular mouth of the ORAI1 channel. Gudlur A, Quintana A,
Zhou Y, Hirve N, Mahapatra S, Hogan P.; Nature Commun.2014 Oct 9; 5:5164. Link
Genomic landscape of NFAT1 and Foxp3 associated chromatin in CD4 T-cells. Mahapatra S, Gonsalves E,
Gudlur A, Hogan P, Rao A (manuscript submitted)
EDUCATION
Ph.D., Biochemistry and Epigenetic
Center for Cellular and Molecular Biology (CCMB), Hyderabad, India
Masters of Science (MS), Botany (with honors)
Berhampur University, Orissa, India
AWARDS
Senior Research Fellowship, Council for Scientific and Industrial Research, India, Aug 2004-July 2007
Junior Research Fellowship, Council for Scientific and Industrial Research, India, Aug 2002-July 2004
Junior Research Fellowship, Indian Council of Medical Research
OTHER ACHIEVEMENTS
Completed Intellectual Property Law courses at UCSD; gained deeper understanding of Patent and IP Laws
and how to implement it in the pharmaceutical and biotech industries.
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