Arjun (AJ) Bhutkar is a research scientist at the Koch Institute for Integrative Cancer Research at MIT. His focus is in the area of computational biology / bioinformatics related to cancer genomics.


Prior to this, he held a joint research appointment (2004-2008) at the Department of Molecular and Cellular Biology at Harvard University and BioMolecular Engineering Research Center at Boston University.


Previously, AJ worked for over 11 years in the semiconductor industry as Engineering Department Manager at Intel Corporation (1991-2002). Following that, he was part of a voice technology startup as VP of Business Development.


He holds a PhD in Bioinformatics from Boston University, an SM in Engineering and Management from MIT,  an MS in Computer Science from Texas A&M University, and a BE in Computer Engineering from the University of Poona, India.


Contact: arjun”at”mit.edu









Detained introns are a novel, widespread class of post-transcriptionally spliced introns (Boutz PL, Bhutkar A, Sharp PA ), Genes Dev., 2015 [Online]


Rapid modelling of cooperating genetic events in cancer through somatic genome editing (Sánchez-Rivera FJ, Papagiannakopoulos T, Romero R, Tammela T, Bauer MR, Bhutkar A, Joshi NS, Subbaraj L, Bronson RT, Xue W, Jacks T ), Nature, 2014 [Online]


KRAS and YAP1 Converge to Regulate EMT and Tumor Survival (Shao DD, Xue W, Krall EB, Bhutkar A, Piccioni F, Wang X, Schinzel AC, Sood S, Rosenbluh J, Kim JW, Zwang Y, Roberts TM, Root DE, Jacks T, Hahn WC ), Cell, 2014 [Online]


Global microRNA depletion suppresses tumor angiogenesis (Chen S, Xue Y, Wu X, Le C, Bhutkar A, Bell EL, Zhang F, Langer R, Sharp PA ), Genes Dev., 2014 [Online]


p53 constrains progression to anaplastic thyroid carcinoma in a Braf-mutant mouse model of papillary thyroid cancer (McFadden DG, Vernon A, Santiago PM, Martinez-McFaline R, Bhutkar A, Crowley DM, McMahon M, Sadow PM, Jacks T ), PNAS, 2014 [Online]


Genetic and clonal dissection of murine small cell lung carcinoma progression by genome sequencing (McFadden DG, Papagiannakopoulos T, Taylor-Weiner A, Stewart C, Carter SL, Cibulskis K, Bhutkar A, McKenna A, Dooley A, Vernon A, Sougnez C, Malstrom S, Heimann M, Park J, Chen F, Farago AF, Dayton T, Shefler E, Gabriel S, Getz G, Jacks T ), Cell, 2014 [Online]


Let-7 represses Nr6a1 and a mid-gestation developmental program in adult fibroblasts (Gurtan AM, Ravi A, Rahl PB, Bosson AD, JnBaptiste CK, Bhutkar A, Whittaker CA, Young RA, Sharp PA ), Genes & Dev., 2013 [Online]


Proliferation and Tumorigenesis of a Murine Sarcoma Cell Line in the Absence of Dicer (Arvind Ravi, Allan M. Gurtan, Madhu S. Kumar, Arjun Bhutkar, Christine Chin, Victoria Lu, Jacqueline A. Lees, Tyler Jacks, Phillip A. Sharp ), Cancer Cell, 2012 [Online]


In vivo structure-function analysis of human Dicer reveals directional processing of precursor miRNAs (Allan M. Gurtan, Victoria Lu, Arjun Bhutkar, and Phillip A. Sharp ), RNA, 2012 [Online]


Caspase-2-Mediated Cleavage of Mdm2 Creates a p53-Induced Positive Feedback Loop (Trudy G. Oliver, Etienne Meylan, Gregory P. Chang, Wen Xue, James R. Burke, Timothy J. Humpton, Diana Hubbard, Arjun Bhutkar, and Tyler Jacks ), Molecular Cell, 2011 [Online]


Poly(ADP-Ribose) Regulates Stress Responses and MicroRNA Activity in the Cytoplasm (Leung AK, Vyas S, Rood JE, Bhutkar A, Sharp PA, Chang P), Molecular Cell, 2011 [Online]


Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs (Leung AK, Young AG, Bhutkar A, Zheng GX, Bosson AD, Nielsen CB, Sharp PA), Nature Structural & Molecular Biology, 2011 [PDF]


Chronic cisplatin treatment promotes enhanced damage repair and tumor progression in a mouse model of lung cancer (Oliver TG, Mercer KL, et al.), Genes Dev.,24(8): 837 852, 2010 [PDF]

Chromosomal rearrangement inferred from comparisons of twelve Drosophila genomes (Arjun Bhutkar, Stephen W Schaeffer, Susan M Russo, Mu Xu, Temple F. Smith, William M. Gelbart), Genetics,179: 1657  1680, 2008 [PDF]

Polytene Chromosomal Maps of 11 Drosophila species: The order of genomic scaffolds inferred from genetic and physical maps
(Stephen W Schaeffer, Arjun Bhutkar, et al.), Genetics,179: 1601 1655, 2008 [PDF]

Evolution of genes and genomes on the Drosophila phylogeny (Drosophila 12 Genomes Consortium), Nature 450(7167):203-18, 2007 [PDF]

Genome-scale analysis of Positionally Relocated Genes (Arjun Bhutkar, Susan M. Russo, Temple F. Smith, William M. Gelbart), Genome Research 17(12):1880-7, 2007 [PDF]

Inferring genome-scale rearrangement phylogeny and ancestral gene order: A Drosophila case study (Arjun Bhutkar, Temple F. Smith, William M. Gelbart), Genome Biology 8(11):R236, 2007 [PDF]

Techniques for Multi-Genome Synteny Analysis to Overcome Assembly Limitations (Arjun Bhutkar, Susan Russo, Temple F. Smith, William M. Gelbart), Genome Informatics 17(2): 152-161, 2006 [PDF]

Constraining Ribosomal RNA Conformational Space (P. Favaretto, Arjun Bhutkar, and Temple F. Smith), Nucleic Acids Research, 33(16), 2005 [PDF]


Synthetic Biology:

Synthetic Biology: Navigating the Challenges Ahead J. BIOLAW & BUS. Vol. 8,  No. 2, 2005 [PDF]


Three Lenses on Synthetic Biology: Patentability, Ethics, Regulation Poster, Synthetic Biology 2.0 Conference, Berkeley CA, 2006 [PDF]


Synthetic Biology, Social Dimensions and Global Policy:  A co-evolutionary perspective Poster, Synthetic Biology 3.0 Conference, Zurich, 2007 [PDF]


Commentary on Synthetic Biology: Policy, Society & Systems The Royal Society Call for Views, 2007 [PDF]






2008-Present               Research Scientist, Koch Institute for Integrative Cancer Research, MIT
2006-2008                   Fellow, Dept. of Molecular & Cellular Biology, Harvard University
2004-2006                   Joint research appointment, Dept. of Molecular & Cellular Biology, Harvard University and BMERC, Boston University
2002-2003                   VP Business Development, Voice technology startup
Engineering Department Manager, Intel Corporation



PhD Bioinformatics, Boston University, Boston MA.
Engineering & Management, MIT Sloan School of Management & School of Engineering, Cambridge MA.
Computer Science, Texas A&M University, College Station TX.
Computer Engineering, University of Poona, India.