Education
2006 - 2010
Ph. D. Genetics, Bioinformatics & Computational Biology
Virginia Tech
Blacksburg, VA, USA
2002 - 2006
B. Tech. Industrial Biotechnology
Anna University
Chennai, India
Research Interests
Multicellular biology
Role of tissue/cell-type, sex and age on gene function, genetic perturbation and environmental/drug response.
Disease genetics & Precision medicine
Genetic heterogeneity of complex diseases; Genetic stratification; Mechanistically linking individual genomes to clinical phenotypes.
Regulatory genomics
Stress and developmental gene-expression; Inferring transcriptional/epigenetic regulation; Driving cell-type transformations.
Comparative genomics
Identifying animal models for human diseases; Relationship between sequence and functional evolution.
Methods for integrative genomics
Statistical and machine-learning methods for data integration, building gene network models, cross-species comparison, prioritization of experiments.
Conferences, Meetings
2010 Networks Biology Workshop
Mathematical Biosciences Institute, Ohio State University
2011 CSHL: Systems Biology, Networks Meeting
Cold-Spring Harbor Laboratories
2014 CIFAR: Genetic Networks Meeting
Dana-Farber Cancer Institute, Harvard Medical School
2014 CIFAR: Genetic Networks Meeting
University of Washington.
2014 ICSB-RECOMB Systems Genomics Conference
San Diego
2015 Sanofi Big Data Symposium
Genzyme, Boston
2015 Meeting on Leveraging Big Data and Predictive Knowledge to Fight Disease
New York Academy of Sciences
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2015 CSHL: Genome Informatics
Cold-Spring Harbor Laboratories
[Best Poster Award; out of 167 posters]
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2016 New York Area Genomics Meeting
Columbia University
Selected Talks
2013 Integrated Science Shorts
Princeton University
2014 Postdoctoral Seminar Series
Princeton University
2014 Systems Pharmacology and Translational Therapeutics Seminar
Smilow Center for Translational Research, University of Pennsylvania
2014 University of Hyderabad
Hyderabad, India
2014 Centre for Cell and Molecular Biology
Hyderabad, India
2014 National Center for Biological Sciences
Bangalore, India
2014 Indian Institute of Technology - Madras
Chennai, India
2014 Institute for Mathematical Sciences
Chennai, India
2014 ICSB-RECOMB Regulatory and Systems Genomics
San Diego
2015 Princeton Area Yeast Meeting
Princeton University
2015 Sanofi Big Data Symposium
Genzyme, Boston
2015 Leveraging Big Data and Predictive Knowledge to Fight Disease
New York Academy of Sciences
2015 Complex Systems Digital Campus 2015 World e-Conference.
2015 ICSB-RECOMB Regulatory and Systems Genomics Philadelphia
Research Experience
2013 - Present
Associate Research Scholar
Lewis-Sigler Institute for Integrative Genomics
Princeton University
Princeton, NJ, USA
2011 - 2013
Postdoctoral Research Associate
Lewis-Sigler Institute for Integrative Genomics
Princeton University
Princeton, NJ, USA
2010 - 2011
Postdoctoral Research Associate
Virginia Bioinformatics Institute
Virginia Tech
Blacksburg, VA, USA
2006 - 2010
Doctoral Student
Virginia Bioinformatics Institute
Virginia Tech
Blacksburg, VA, USA
2005 - 2006
Student Researcher
Bioinformatics Centre
Indian Institute of Science
Bangalore, India
Selected Publications
[* Joint Primary Author]
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Genome-wide characterization of genetic and functional dysregulation in autism spectrum disorder.
Krishnan A*, Zhang R*, Yao V, Theesfeld CL, Wong AK, Tadych A, Volfovsky N, Packer A, Lash A, Troyanskaya OG.
Nature Neuroscience (2016) doi:10.1038/nn.4353
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Understanding multi-cellular function and disease with human tissue-specific gene interaction networks.
Greene C*, Krishnan A*, Wong AK*, Ricciotti E, Zelaya R, Himmelstein D, Chasman D, Fitzgerald G, Dolinski K, Grosser T, Troyanskaya OG.
Nature Genetics (2015) 47:569-576.
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Tissue-aware data integration approach for the inference of pathway interactions in metazoan organisms.
Park C, Krishnan A, Zhu Q, Wong AK, Lee Y, Troyanskaya OG.
Bioinformatics (2015) 31:1093-1101.
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Coordinate regulation of photosynthetic carbon metabolism for yield and environmental stress response in rice.
Ambavaram MM, Basu S, Krishnan A, Venkategowda R, Batlang U, Rahman L, Baisakh N, Pereira A.
Nature Communications (2014) 5:5302.
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Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies.
Lee Y, Krishnan A, Zhu Q, Troyanskaya OG.
Bioinformatics (2013) 29:3036-3044.
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Coordinated activation of cellulose and repression of lignin biosynthesis pathways in rice.
Ambavaram MM*, Krishnan A*, Trijatmiko KR, Pereira A.
Plant Physiology (2011) 155:916-931.
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Molecular and physiological analysis of drought stress in Arabidopsis reveals early responses leading to acclimation in plant growth.
Harb A, Krishnan A, Pereira A.
Plant Physiology (2010) 154:1254-1271.
Professional Experience
Grant writing
Assisted in the development of over eight research project proposals for NSF, USDA, NIH.
NSF planning grant proposal (as PI).
Peer review
Bioinformatics; PLoS Computational Biology; BMC Bioinformatics; PLoS ONE; G3: Genes, Genomes, Genetics; Journal of Theoretical Biology; Pacific Symposium of Biocomputing; ACM-BCB; Circulation: Cardiovascular Genetics; Plant Physiology; Plant Molecular Biology; Molecular Breeding; F1000 Biology.
Teaching
Spring 2014:
Co-taught “COS557/MOL557: Analysis & Visualization of Large Scale Genomic Data Sets”
Spring 2015:
Co-taught “ISC 233/234: An Integrated, Quantitative Intro. to the Natural Sciences II”
Mentoring
Undergraduate and Graduate Research Students.
Outreach
Conducted hands-on education booths at Kid’s Tech University 2009, 2010, and USA Science & Engineering Festival 2010; Part of panel of judges for science and mathematics fairs at local schools.