Anindya Dutta2020WEBProfessor
Chair, Department of Genetics





Education

MBBS, Medicine
Christian Medical College, Vellore, India
Ph.D.
Viral Oncology, The Rockefeller University, New York, NY
Postdoc
Cell Cycle, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
Resident
Pathology, Brigham & Women's Hospital, Harvard Medical School

Research

Lab Site

Research Disciplines

Bioinformatics and Genomics, Biotechnology, Cancer Biology, Epigenetics, Molecular Biology

Research Interests

Genomic Instability in Cancer Cells; Noncoding RNAs in differentiation and cancer; Bioinformatics of cancer outcome

Research Description

The current rotation projects in the lab relate to:

(1) Novel extrachromosomal circles of DNA in normal cells and cancer: https://www.nytimes.com/2019/11/20/science/dna-genetics-cancer.html

(2) Long noncoding RNAs that regulate cancer, e.g. DRAIC, or skeletal muscle differentiation, e.g. MUNC

(3) Novel short noncoding RNAs related to microRNAs: tRFs in the context of cancer.

(4) Bioinformatics for cancer: https://wina.com/podcasts/uva-discovers-how-genetic-testing-could-improve-patient-outcomes/

http://www.byuradio.org/episode/8e44b786-68af-421b-b6f5-152a482a5b0f/top-of-mind-with-julie-rose-pandemic-voices-infrastructure-costs-oberammergau?playhead=4076&autoplay=true

Selected Publications

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Saha S, Kiran M, Kuscu C, Chatrath A, Wotton D, Mayo MW, Dutta A, Long Noncoding RNA DRAIC Inhibits Prostate Cancer Progression by Interacting with IKK to Inhibit NF-κB Activation., 2020; Cancer research. 80(5) 950-963. PMID: 31900260 | PMCID: PMC7056510

 

Chatrath A, Przanowska R, Kiran S, Su Z, Saha S, Wilson B, Tsunematsu T, Ahn JH, Lee KY, Paulsen T, Sobierajska E, Kiran M, Tang X, Li T, Kumar P, Ratan A, Dutta A, The pan-cancer landscape of prognostic germline variants in 10,582 patients., 2020; Genome medicine. 12(1) 15. PMID: 32066500 | PMCID: PMC7027124

 

Przanowska RK, Sobierajska E, Su Z, Jensen K, Przanowski P, Nagdas S, Kashatus JA, Kashatus DF, Bhatnagar S, Lukens JR, Dutta A, miR-206 family is important for mitochondrial and muscle function, but not essential for myogenesis in vitro., 2020; FASEB journal : official publication of the Federation of American Societies for Experimental Biology. () . PMID: 32277852

 

Kumar P, Kiran S, Saha S, Su Z, Paulsen T, Chatrath A, Shibata Y, Shibata E, Dutta A, ATAC-seq identifies thousands of extrachromosomal circular DNA in cancer and cell lines., 2020; Science advances. 6(20) eaba2489. PMID: 32440553 | PMCID: PMC7228742

 

Chiu RWK, Dutta A, Hensson AG, Lo YMD, Mischel P, Regenberg B, What Is Extrachromosomal Circular DNA and What Does It Do?, 2020; Clinical chemistry. 66(6) 754-759. PMID: 32470125 | PMCID: PMC7259478

 

Chatrath A, Kiran M, Kumar P, Ratan A, Dutta A, The Germline Variants rs61757955 and rs34988193 Are Predictive of Survival in Lower Grade Glioma Patients., 2019; Molecular cancer research : MCR. 17(5) 1075-1086. PMID: 30651372 | PMCID: PMC6497557

 

Paulsen T, Shibata Y, Kumar P, Dillon L, Dutta A, Small extrachromosomal circular DNAs, microDNA, produce short regulatory RNAs that suppress gene expression independent of canonical promoters., 2019; Nucleic acids research. 47(9) 4586-4596. PMID: 30828735 | PMCID: PMC6511871

 

Su Z, Kuscu C, Malik A, Shibata E, Dutta A, Angiogenin generates specific stress-induced tRNA halves and is not involved in tRF-3-mediated gene silencing., 2019; The Journal of biological chemistry. 294(45) 16930-16941. PMID: 31582561 | PMCID: PMC6851321

 

Cichewicz MA, Kiran M, Przanowska RK, Sobierajska E, Shibata Y, Dutta A, MUNC, an Enhancer RNA Upstream from the MYOD Gene, Induces a Subgroup of Myogenic Transcripts in trans Independently of MyoD., 2018; Molecular and cellular biology. 38(20) . PMID: 30037979 | PMCID: PMC6168980

 

Kiran S, Dar A, Singh SK, Lee KY, Dutta A, The Deubiquitinase USP46 Is Essential for Proliferation and Tumor Growth of HPV-Transformed Cancers., 2018; Molecular cell. 72(5) 823-835.e5. PMID: 30415951 | PMCID: PMC6294304

 

Kiran M, Chatrath A, Tang X, Keenan DM, Dutta A, A Prognostic Signature for Lower Grade Gliomas Based on Expression of Long Non-Coding RNAs., 2018; Molecular neurobiology. 56(7) 4786-4798. PMID: 30392137 | PMCID: PMC6499716

 

Paulsen T, Kumar P, Koseoglu MM, Dutta A, Discoveries of Extrachromosomal Circles of DNA in Normal and Tumor Cells., 2018; Trends in genetics : TIG. 34(4) 270-278. PMID: 29329720 | PMCID: PMC5881399

 

Reon BJ, Takao Real Karia B, Kiran M, Dutta A, LINC00152 Promotes Invasion through a 3'-Hairpin Structure and Associates with Prognosis in Glioblastoma., 2018; Molecular cancer research : MCR. 16(10) 1470-1482. PMID: 29991527 | PMCID: PMC6170721

 

Kuscu C, Kumar P, Kiran M, Su Z, Malik A, Dutta A, tRNA fragments (tRFs) guide Ago to regulate gene expression post-transcriptionally in a Dicer-independent manner., 2018; RNA (New York, N.Y.). 24(8) 1093-1105. PMID: 29844106 | PMCID: PMC6049499

 

Lee KY, Im JS, Shibata E, Dutta A, ASF1a Promotes Non-homologous End Joining Repair by Facilitating Phosphorylation of MDC1 by ATM at Double-Strand Breaks., 2017; Molecular cell. 68(1) 61-75.e5. PMID: 28943310

 

Kumar P, Dillon LW, Shibata Y, Jazaeri AA, Jones DR, Dutta A, Normal and Cancerous Tissues Release Extrachromosomal Circular DNA (eccDNA) into the Circulation., 2017; Molecular cancer research : MCR. () . PMID: 28550083

 

Kumar P, Kuscu C, Dutta A, Biogenesis and Function of Transfer RNA-Related Fragments (tRFs)., 2016; Trends in biochemical sciences. 41(8) 679-89. PMID: 27263052 | PMCID: PMC5173347

 

Kuscu C, Dutta A, A Pro-metastatic tRNA Pathway., 2016; Cell. 165(6) 1314-1315. PMID: 27259143

 

Dutta A, Anindya Dutta., 2016; Current biology : CB. 25(23) R1112-4. PMID: 27027134

 

Reon BJ, Anaya J, Zhang Y, Mandell J, Purow B, Abounader R, Dutta A, Expression of lncRNAs in Low-Grade Gliomas and Glioblastoma Multiforme: An In Silico Analysis., 2016; PLoS medicine. 13(12) e1002192. PMID: 27923049 | PMCID: PMC5140055

 

Reon BJ, Dutta A, Biological Processes Discovered by High-Throughput Sequencing., 2016; The American journal of pathology. () . PMID: 26828742

 

Shibata E, Kiran M, Shibata Y, Singh S, Kiran S, Dutta A, Two subunits of human ORC are dispensable for DNA replication and proliferation., 2016; eLife. 5() . PMID: 27906128 | PMCID: PMC5245961

 

Anaya J, Reon B, Chen WM, Bekiranov S, Dutta A, A pan-cancer analysis of prognostic genes., 2016; PeerJ. 3() e1499. PMID: 27047702 | PMCID: PMC4815555

 

Coleman KE, Grant GD, Haggerty RA, Brantley K, Shibata E, Workman BD, Dutta A, Varma D, Purvis JE, Cook JG, Sequential replication-coupled destruction at G1/S ensures genome stability., 2015; Genes & development. 29(16) 1734-46. PMID: 26272819 | PMCID: PMC4561482

 

Sakurai K, Reon BJ, Anaya J, Dutta A, The lncRNA DRAIC/PCAT29 Locus Constitutes a Tumor-Suppressive Nexus., 2015; Molecular cancer research : MCR. 13(5) 828-38. PMID: 25700553 | PMCID: PMC4456356

 

Dillon LW, Kumar P, Shibata Y, Wang YH, Willcox S, Griffith JD, Pommier Y, Takeda S, Dutta A, Production of Extrachromosomal MicroDNAs Is Linked to Mismatch Repair Pathways and Transcriptional Activity., 2015; Cell reports. 11(11) 1749-59. PMID: 26051933 | PMCID: PMC4481157

 

Lee KY, Im JS, Shibata E, Park J, Handa N, Kowalczykowski SC, Dutta A, MCM8-9 complex promotes resection of double-strand break ends by MRE11-RAD50-NBS1 complex., 2015; Nature communications. 6() 7744. PMID: 26215093 | PMCID: PMC4525285

 

Lee KY, Dutta A, Initiation of replication in Xenopus egg extracts at a spatially defined origin., 2015; Cell cycle (Georgetown, Tex.). 14(15) 2391. PMID: 26091433 | PMCID: PMC4612457

 

Dey BK, Pfeifer K, Dutta A, The H19 long noncoding RNA gives rise to microRNAs miR-675-3p and miR-675-5p to promote skeletal muscle differentiation and regeneration., 2014; Genes & development. 28(5) 491-501. PMID: 24532688 | PMCID: PMC3950346

 

Floyd DH, Zhang Y, Dey BK, Kefas B, Breit H, Marks K, Dutta A, Herold-Mende C, Synowitz M, Glass R, Abounader R, Purow BW, Novel anti-apoptotic microRNAs 582-5p and 363 promote human glioblastoma stem cell survival via direct inhibition of caspase 3, caspase 9, and Bim., 2014; PloS one. 9(5) e96239. PMID: 24805821 | PMCID: PMC4013090

 

Shibata E, Dar A, Dutta A, CRL4Cdt2 E3 ubiquitin ligase and proliferating cell nuclear antigen (PCNA) cooperate to degrade thymine DNA glycosylase in S phase., 2014; The Journal of biological chemistry. 289(33) 23056-64. PMID: 24962565 | PMCID: PMC4132804

 

Dar A, Wu D, Lee N, Shibata E, Dutta A, 14-3-3 proteins play a role in the cell cycle by shielding cdt2 from ubiquitin-mediated degradation., 2014; Molecular and cellular biology. 34(21) 4049-61. PMID: 25154416 | PMCID: PMC4386460

 

Kumar P, Anaya J, Mudunuri SB, Dutta A, Meta-analysis of tRNA derived RNA fragments reveals that they are evolutionarily conserved and associate with AGO proteins to recognize specific RNA targets., 2014; BMC biology. 12() 78. PMID: 25270025 | PMCID: PMC4203973

 

Kumar P, Mudunuri SB, Anaya J, Dutta A, tRFdb: a database for transfer RNA fragments., 2014; Nucleic acids research. 43(0) D141-5. PMID: 25392422 | PMCID: PMC4383946

 

Mueller AC, Cichewicz MA, Dey BK, Layer R, Reon BJ, Gagan JR, Dutta A, MUNC, a long noncoding RNA that facilitates the function of MyoD in skeletal myogenesis., 2014; Molecular and cellular biology. 35(3) 498-513. PMID: 25403490 | PMCID: PMC4285423

 

Dey BK, Mueller AC, Dutta A, Long non-coding RNAs as emerging regulators of differentiation, development, and disease., 2014; Transcription. 5(4) e944014. PMID: 25483404 | PMCID: PMC4581346

 

Im JS, Keaton M, Lee KY, Kumar P, Park J, Dutta A, ATR checkpoint kinase and CRL1βTRCP collaborate to degrade ASF1a and thus repress genes overlapping with clusters of stalled replication forks., 2014; Genes & development. 28(8) 875-87. PMID: 24700029 | PMCID: PMC4003279

 

Negishi M, Wongpalee SP, Sarkar S, Park J, Lee KY, Shibata Y, Reon BJ, Abounader R, Suzuki Y, Sugano S, Dutta A, A New lncRNA, APTR, Associates with and Represses the CDKN1A/p21 Promoter by Recruiting Polycomb Proteins., 2014; PloS one. 9(4) e95216. PMID: 24748121 | PMCID: PMC3991591

 

Jha S, Gupta A, Dar A, Dutta A, RVBs are required for assembling a functional TIP60 complex., 2013; Molecular and cellular biology. 33(6) 1164-74. PMID: 23297341 | PMCID: PMC3592018

 

Sun D, Layer R, Mueller AC, Cichewicz MA, Negishi M, Paschal BM, Dutta A, Regulation of several androgen-induced genes through the repression of the miR-99a/let-7c/miR-125b-2 miRNA cluster in prostate cancer cells., 2013; Oncogene. () . PMID: 23503464 | PMCID: PMC3915043

 

Abbas T, Keaton MA, Dutta A, Genomic instability in cancer., 2013; Cold Spring Harbor perspectives in biology. 5(3) a012914. PMID: 23335075 | PMCID: PMC3578360

 

Park J, Long DT, Lee KY, Abbas T, Shibata E, Negishi M, Luo Y, Schimenti JC, Gambus A, Walter JC, Dutta A, The MCM8-MCM9 complex promotes RAD51 recruitment at DNA damage sites to facilitate homologous recombination., 2013; Molecular and cellular biology. 33(8) 1632-44. PMID: 23401855 | PMCID: PMC3624244

 

Abbas T, Mueller AC, Shibata E, Keaton M, Rossi M, Dutta A, CRL1-FBXO11 promotes Cdt2 ubiquitylation and degradation and regulates Pr-Set7/Set8-mediated cellular migration., 2013; Molecular cell. 49(6) 1147-58. PMID: 23478445 | PMCID: PMC3615078

 

Terai K, Shibata E, Abbas T, Dutta A, Degradation of p12 Subunit by CRL4Cdt2 E3 Ligase Inhibits Fork Progression after DNA Damage., 2013; The Journal of biological chemistry. 288(42) 30509-14. PMID: 24022480 | PMCID: PMC3798521

 

Dey BK, Gagan J, Yan Z, Dutta A, miR-26a is required for skeletal muscle differentiation and regeneration in mice., 2012; Genes & development. 26(19) 2180-91. PMID: 23028144 | PMCID: PMC3465739

 

Gagan J, Dey BK, Layer R, Yan Z, Dutta A, Notch3 and Mef2c Are Mutually Antagonistic via Mkp1 and miR-1/206 in Differentiating Myoblasts., 2012; The Journal of biological chemistry. () . PMID: 23055528 | PMCID: PMC3504751

 

Dey BK, Mueller AC, Dutta A, Non-micro-short RNAs: the new kids on the block., 2012; Molecular biology of the cell. 23(24) 4664-7. PMID: 23239791 | PMCID: PMC3521675

 

Shibata Y, Kumar P, Layer R, Willcox S, Gagan JR, Griffith JD, Dutta A, Extrachromosomal microDNAs and chromosomal microdeletions in normal tissues., 2012; Science (New York, N.Y.). 336(6077) 82-6. PMID: 22403181 | PMCID: PMC3703515

 

Gagan J, Dey BK, Dutta A, MicroRNAs regulate and provide robustness to the myogenic transcriptional network., 2012; Current opinion in pharmacology. 12(3) 383-8. PMID: 22386695 | PMCID: PMC3369106

 

Mueller AC, Sun D, Dutta A, The miR-99 family regulates the DNA damage response through its target SNF2H., 2012; Oncogene. () . PMID: 22525276 | PMCID: PMC3407337

 

Jazaeri AA, Bryant JL, Park H, Li H, Dahiya N, Stoler MH, Ferriss JS, Dutta A, Molecular requirements for transformation of fallopian tube epithelial cells into serous carcinoma., 2011; Neoplasia (New York, N.Y.). 13(10) 899-911. PMID: 22028616 | PMCID: PMC3201567

 

Gagan J, Dey BK, Layer R, Yan Z, Dutta A, MicroRNA-378 targets the myogenic repressor MyoR during myoblast differentiation., 2011; The Journal of biological chemistry. 286(22) 19431-8. PMID: 21471220 | PMCID: PMC3103322

 

Mueller AC, Keaton MA, Dutta A, DNA replication: mammalian Treslin-TopBP1 interaction mirrors yeast Sld3-Dpb11., 2011; Current biology : CB. 21(16) R638-40. PMID: 21855008 | PMCID: PMC3523092

 

Keaton MA, Taylor CM, Layer RM, Dutta A, Nuclear scaffold attachment sites within ENCODE regions associate with actively transcribed genes., 2011; PloS one. 6(3) e17912. PMID: 21423757 | PMCID: PMC3056778

 

Abbas T, Dutta A, CRL4Cdt2: master coordinator of cell cycle progression and genome stability., 2011; Cell cycle (Georgetown, Tex.). 10(2) 241-9. PMID: 21212733 | PMCID: PMC3025761

 

Sarkar S, Dey BK, Dutta A, MiR-322/424 and -503 are induced during muscle differentiation and promote cell cycle quiescence and differentiation by down-regulation of Cdc25A., 2010; Molecular biology of the cell. 21(13) 2138-49. PMID: 20462953 | PMCID: PMC2893979

 

Jha S, Vande Pol S, Banerjee NS, Dutta AB, Chow LT, Dutta A, Destabilization of TIP60 by human papillomavirus E6 results in attenuation of TIP60-dependent transcriptional regulation and apoptotic pathway., 2010; Molecular cell. 38(5) 700-11. PMID: 20542002 | PMCID: PMC2886028

 

Terai K, Abbas T, Jazaeri AA, Dutta A, CRL4(Cdt2) E3 ubiquitin ligase monoubiquitinates PCNA to promote translesion DNA synthesis., 2010; Molecular cell. 37(1) 143-9. PMID: 20129063 | PMCID: PMC2818832

 

Abbas T, Shibata E, Park J, Jha S, Karnani N, Dutta A, CRL4(Cdt2) regulates cell proliferation and histone gene expression by targeting PR-Set7/Set8 for degradation., 2010; Molecular cell. 40(1) 9-21. PMID: 20932471 | PMCID: PMC2966975

 

Dey BK, Gagan J, Dutta A, miR-206 and -486 induce myoblast differentiation by downregulating Pax7., 2010; Molecular and cellular biology. 31(1) 203-14. PMID: 21041476 | PMCID: PMC3019853

 

Lin JJ, Milhollen MA, Smith PG, Narayanan U, Dutta A, NEDD8-targeting drug MLN4924 elicits DNA rereplication by stabilizing Cdt1 in S phase, triggering checkpoint activation, apoptosis, and senescence in cancer cells., 2010; Cancer research. 70(24) 10310-20. PMID: 21159650 | PMCID: PMC3059213

 

Abbas T, Dutta A, p21 in cancer: intricate networks and multiple activities., 2009; Nature reviews. Cancer. 9(6) 400-14. PMID: 19440234 | PMCID: PMC2722839

 

Shibata Y, Malhotra A, Bekiranov S, Dutta A, Yeast genome analysis identifies chromosomal translocation, gene conversion events and several sites of Ty element insertion., 2009; Nucleic acids research. 37(19) 6454-65. PMID: 19710036 | PMCID: PMC2770650

 

Lee YS, Shibata Y, Malhotra A, Dutta A, A novel class of small RNAs: tRNA-derived RNA fragments (tRFs)., 2009; Genes & development. 23(22) 2639-49. PMID: 19933153 | PMCID: PMC2779758

 

Jha S, Shibata E, Dutta A, Human Rvb1/Tip49 is required for the histone acetyltransferase activity of Tip60/NuA4 and for the downregulation of phosphorylation on H2AX after DNA damage., 2008; Molecular and cellular biology. 28(8) 2690-700. PMID: 18285460 | PMCID: PMC2293106

 

Abbas T, Sivaprasad U, Terai K, Amador V, Pagano M, Dutta A, PCNA-dependent regulation of p21 ubiquitylation and degradation via the CRL4Cdt2 ubiquitin ligase complex., 2008; Genes & development. 22(18) 2496-506. PMID: 18794347 | PMCID: PMC2546691

 

Lew DJ, Burke DJ, Dutta A, The immortal strand hypothesis: how could it work?, 2008; Cell. 133(1) 21-3. PMID: 18394982 | PMCID: 18394982

 

Hook SS, Lin JJ, Dutta A, Mechanisms to control rereplication and implications for cancer., 2007; Current opinion in cell biology. 19(6) 663-71. PMID: 18053699 | PMCID: PMC2174913

 

Machida YJ, Dutta A, The APC/C inhibitor, Emi1, is essential for prevention of rereplication., 2007; Genes & development. 21(2) 184-94. PMID: 17234884 | PMCID: PMC1770901

 

Lee YS, Dutta A, The tumor suppressor microRNA let-7 represses the HMGA2 oncogene., 2007; Genes & development. 21(9) 1025-30. PMID: 17437991 | PMCID: PMC1855228

 

Zhu W, Ukomadu C, Jha S, Senga T, Dhar SK, Wohlschlegel JA, Nutt LK, Kornbluth S, Dutta A, Mcm10 and And-1/CTF4 recruit DNA polymerase alpha to chromatin for initiation of DNA replication., 2007; Genes & development. 21(18) 2288-99. PMID: 17761813 | PMCID: PMC1973143

 

Zhu W, Dutta A, An ATR- and BRCA1-mediated Fanconi anemia pathway is required for activating the G2/M checkpoint and DNA damage repair upon rereplication., 2006; Molecular and cellular biology. 26(12) 4601-11. PMID: 16738325 | PMCID: PMC1489121

 

Kim HK, Lee YS, Sivaprasad U, Malhotra A, Dutta A, Muscle-specific microRNA miR-206 promotes muscle differentiation., 2006; The Journal of cell biology. 174(5) 677-87. PMID: 16923828 | PMCID: PMC2064311