Debasish Raha - Publications

Affiliations: 
Yale University, New Haven, CT 

28 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Haditsch U, Roth T, Rodriguez L, Hancock S, Cecere T, Nguyen M, Arastu-Kapur S, Broce S, Raha D, Lynch CC, Holsinger LJ, Dominy SS, Ermini F. Alzheimer's Disease-Like Neurodegeneration in Porphyromonas gingivalis Infected Neurons with Persistent Expression of Active Gingipains. Journal of Alzheimer's Disease : Jad. PMID 32390638 DOI: 10.3233/Jad-200393  0.04
2020 Arastu-Kapur S, Nguyen M, Raha D, Ermini F, Haditsch U, Araujo J, De Lannoy IAM, Ryder MI, Dominy SS, Lynch C, Holsinger LJ. Treatment of Porphyromonas gulae infection and downstream pathology in the aged dog by lysine-gingipain inhibitor COR388. Pharmacology Research & Perspectives. 8: e00562. PMID 31999052 DOI: 10.1002/Prp2.562  0.08
2019 Dominy SS, Lynch C, Ermini F, Benedyk M, Marczyk A, Konradi A, Nguyen M, Haditsch U, Raha D, Griffin C, Holsinger LJ, Arastu-Kapur S, Kaba S, Lee A, Ryder MI, et al. in Alzheimer's disease brains: Evidence for disease causation and treatment with small-molecule inhibitors. Science Advances. 5: eaau3333. PMID 30746447 DOI: 10.1126/Sciadv.Aau3333  0.01
2014 Raha D, Wilson TR, Peng J, Peterson D, Yue P, Evangelista M, Wilson C, Merchant M, Settleman J. The cancer stem cell marker aldehyde dehydrogenase is required to maintain a drug-tolerant tumor cell subpopulation. Cancer Research. 74: 3579-90. PMID 24812274 DOI: 10.1158/0008-5472.Can-13-3456  1
2013 Won KJ, Zhang X, Wang T, Ding B, Raha D, Snyder M, Ren B, Wang W. Comparative annotation of functional regions in the human genome using epigenomic data. Nucleic Acids Research. 41: 4423-32. PMID 23482391 DOI: 10.1093/Nar/Gkt143  1
2013 Tilgner H, Raha D, Habegger L, Mohiuddin M, Gerstein M, Snyder M. Accurate identification and analysis of human mRNA isoforms using deep long read sequencing. G3 (Bethesda, Md.). 3: 387-97. PMID 23450794 DOI: 10.1534/G3.112.004812  1
2013 Huang XA, Yin H, Sweeney S, Raha D, Snyder M, Lin H. A major epigenetic programming mechanism guided by piRNAs. Developmental Cell. 24: 502-16. PMID 23434410 DOI: 10.1016/J.Devcel.2013.01.023  1
2012 Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, ... ... Raha D, et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Research. 22: 1813-31. PMID 22955991 DOI: 10.1101/Gr.136184.111  1
2012 Kundaje A, Kyriazopoulou-Panagiotopoulou S, Libbrecht M, Smith CL, Raha D, Winters EE, Johnson SM, Snyder M, Batzoglou S, Sidow A. Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements. Genome Research. 22: 1735-47. PMID 22955985 DOI: 10.1101/Gr.136366.111  1
2012 Charos AE, Reed BD, Raha D, Szekely AM, Weissman SM, Snyder M. A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells. Genome Research. 22: 1668-79. PMID 22955979 DOI: 10.1101/Gr.127761.111  1
2012 Gerstein MB, Kundaje A, Hariharan M, Landt SG, Yan KK, Cheng C, Mu XJ, Khurana E, Rozowsky J, Alexander R, Min R, Alves P, Abyzov A, Addleman N, Bhardwaj N, ... ... Raha D, et al. Architecture of the human regulatory network derived from ENCODE data. Nature. 489: 91-100. PMID 22955619 DOI: 10.1038/Nature11245  1
2012 Li G, Ruan X, Auerbach RK, Sandhu KS, Zheng M, Wang P, Poh HM, Goh Y, Lim J, Zhang J, Sim HS, Peh SQ, Mulawadi FH, Ong CT, Orlov YL, ... ... Raha D, et al. Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation. Cell. 148: 84-98. PMID 22265404 DOI: 10.1016/J.Cell.2011.12.014  1
2011 Yin H, Sweeney S, Raha D, Snyder M, Lin H. A high-resolution whole-genome map of key chromatin modifications in the adult Drosophila melanogaster. Plos Genetics. 7: e1002380. PMID 22194694 DOI: 10.1371/Journal.Pgen.1002380  1
2011 Rozowsky J, Abyzov A, Wang J, Alves P, Raha D, Harmanci A, Leng J, Bjornson R, Kong Y, Kitabayashi N, Bhardwaj N, Rubin M, Snyder M, Gerstein M. AlleleSeq: analysis of allele-specific expression and binding in a network framework. Molecular Systems Biology. 7: 522. PMID 21811232 DOI: 10.1038/Msb.2011.54  1
2011 Wontakal SN, Guo X, Will B, Shi M, Raha D, Mahajan MC, Weissman S, Snyder M, Steidl U, Zheng D, Skoultchi AI. A large gene network in immature erythroid cells is controlled by the myeloid and B cell transcriptional regulator PU.1. Plos Genetics. 7: e1001392. PMID 21695229 DOI: 10.1371/Journal.Pgen.1001392  1
2011 Pérez-Lluch S, Blanco E, Carbonell A, Raha D, Snyder M, Serras F, Corominas M. Genome-wide chromatin occupancy analysis reveals a role for ASH2 in transcriptional pausing. Nucleic Acids Research. 39: 4628-39. PMID 21310711 DOI: 10.1093/Nar/Gkq1322  1
2010 Raha D, Hong M, Snyder M. ChIP-Seq: a method for global identification of regulatory elements in the genome. Current Protocols in Molecular Biology. Unit 21.19.1-14. PMID 20583098 DOI: 10.1002/0471142727.Mb2119S91  1
2010 Moqtaderi Z, Wang J, Raha D, White RJ, Snyder M, Weng Z, Struhl K. Genomic binding profiles of functionally distinct RNA polymerase III transcription complexes in human cells. Nature Structural & Molecular Biology. 17: 635-40. PMID 20418883 DOI: 10.1038/Nsmb.1794  1
2010 Wu JQ, Habegger L, Noisa P, Szekely A, Qiu C, Hutchison S, Raha D, Egholm M, Lin H, Weissman S, Cui W, Gerstein M, Snyder M. Dynamic transcriptomes during neural differentiation of human embryonic stem cells revealed by short, long, and paired-end sequencing. Proceedings of the National Academy of Sciences of the United States of America. 107: 5254-9. PMID 20194744 DOI: 10.1073/Pnas.0914114107  1
2010 Zhong M, Niu W, Lu ZJ, Sarov M, Murray JI, Janette J, Raha D, Sheaffer KL, Lam HY, Preston E, Slightham C, Hillier LW, Brock T, Agarwal A, Auerbach R, et al. Genome-wide identification of binding sites defines distinct functions for Caenorhabditis elegans PHA-4/FOXA in development and environmental response. Plos Genetics. 6: e1000848. PMID 20174564 DOI: 10.1371/Journal.Pgen.1000848  1
2010 Raha D, Wang Z, Moqtaderi Z, Wu L, Zhong G, Gerstein M, Struhl K, Snyder M. Close association of RNA polymerase II and many transcription factors with Pol III genes. Proceedings of the National Academy of Sciences of the United States of America. 107: 3639-44. PMID 20139302 DOI: 10.1073/Pnas.0911315106  1
2009 Steiner LA, Maksimova Y, Schulz V, Wong C, Raha D, Mahajan MC, Weissman SM, Gallagher PG. Chromatin architecture and transcription factor binding regulate expression of erythrocyte membrane protein genes. Molecular and Cellular Biology. 29: 5399-412. PMID 19687298 DOI: 10.1128/Mcb.00777-09  1
2008 Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, Gerstein M, Snyder M. The transcriptional landscape of the yeast genome defined by RNA sequencing. Science (New York, N.Y.). 320: 1344-9. PMID 18451266 DOI: 10.1126/Science.1158441  1
2005 O'Grady M, Raha D, Hanson BJ, Bunting M, Hanson GT. Combining RNA interference and kinase inhibitors against cell signalling components involved in cancer. Bmc Cancer. 5: 125. PMID 16202132 DOI: 10.1186/1471-2407-5-125  1
2004 Roth ME, Feng L, McConnell KJ, Schaffer PJ, Guerra CE, Affourtit JP, Piper KR, Guccione L, Hariharan J, Ford MJ, Powell SW, Krishnaswamy H, Lane J, Guccione L, Intrieri G, ... ... Raha D, et al. Expression profiling using a hexamer-based universal microarray. Nature Biotechnology. 22: 418-26. PMID 15024387 DOI: 10.1038/Nbt948  1
1995 Riesgo-Escovar J, Raha D, Carlson JR. Requirement for a phospholipase C in odor response: Overlap between olfaction and vision in Drosophila Proceedings of the National Academy of Sciences of the United States of America. 92: 2864-2868. PMID 7708738 DOI: 10.1073/Pnas.92.7.2864  1
1994 Raha D, Carlson J. OS9: A novel olfactory gene of Drosophila expressed in two olfactory organs Journal of Neurobiology. 25: 169-184. PMID 8021646 DOI: 10.1002/Neu.480250208  1
1990 Raha D, Nguyen QD, Garen A. Molecular and developmental analyses of the protein encoded by the Drosophila gene ectodermal. Developmental Genetics. 11: 310-7. PMID 2090376 DOI: 10.1002/Dvg.1020110410  1
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