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Patrick Cahan, Ph.D. - Publications

Affiliations: 
2009 Biology & Biomedical Sciences (Computational Biology) Washington University, Saint Louis, St. Louis, MO 
Area:
Genetics, Bioinformatics, Oncology
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55 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 Gao X, Li R, Cahan P, Zhao Y, Yourick JJ, Sprando RL. Hepatocyte-like cells derived from human induced pluripotent stem cells using small molecules: implications of a transcriptomic study. Stem Cell Research & Therapy. 11: 393. PMID 32917265 DOI: 10.1186/S13287-020-01914-1  0.405
2020 Bian Q, Cheng YH, Wilson JP, Su EY, Kim DW, Wang H, Yoo S, Blackshaw S, Cahan P. A single cell transcriptional atlas of early synovial joint development. Development (Cambridge, England). PMID 32580935 DOI: 10.1242/Dev.185777  0.352
2020 Nagpal N, Wang J, Zeng J, Lo E, Moon DH, Luk K, Braun RO, Burroughs LM, Keel SB, Reilly C, Lindsley RC, Wolfe SA, Tai AK, Cahan P, Bauer DE, et al. Small-Molecule PAPD5 Inhibitors Restore Telomerase Activity in Patient Stem Cells. Cell Stem Cell. PMID 32320679 DOI: 10.1016/J.Stem.2020.03.016  0.395
2020 Chen MJ, Lummertz da Rocha E, Cahan P, Kubaczka C, Hunter P, Sousa P, Mullin NK, Fujiwara Y, Nguyen M, Tan Y, Landry S, Han A, Yang S, Lu YF, Jha DK, et al. Transcriptome Dynamics of Hematopoietic Stem Cell Formation Revealed Using a Combinatorial Runx1 and Ly6a Reporter System. Stem Cell Reports. PMID 32302558 DOI: 10.1016/J.Stemcr.2020.03.020  0.444
2019 Sommerfeld SD, Cherry C, Schwab RM, Chung L, Maestas DR, Laffont P, Stein JE, Tam A, Ganguly S, Housseau F, Taube JM, Pardoll DM, Cahan P, Elisseeff JH. Interleukin-36γ-producing macrophages drive IL-17-mediated fibrosis. Science Immunology. 4. PMID 31604843 DOI: 10.1126/Sciimmunol.Aax4783  0.321
2019 Tan Y, Cahan P. SingleCellNet: A Computational Tool to Classify Single Cell RNA-Seq Data Across Platforms and Across Species. Cell Systems. PMID 31377170 DOI: 10.1016/J.Cels.2019.06.004  0.381
2019 Kinney MA, Vo LT, Frame JM, Barragan J, Conway AJ, Li S, Wong KK, Collins JJ, Cahan P, North TE, Lauffenburger DA, Daley GQ. A systems biology pipeline identifies regulatory networks for stem cell engineering. Nature Biotechnology. 37: 810-818. PMID 31267104 DOI: 10.1038/S41587-019-0159-2  0.424
2019 Ahmed R, Omidian Z, Giwa A, Cornwell B, Majety N, Bell DR, Lee S, Zhang H, Michels A, Desiderio S, Sadegh-Nasseri S, Rabb H, Gritsch S, Suva ML, Cahan P, et al. A Public BCR Present in a Unique Dual-Receptor-Expressing Lymphocyte from Type 1 Diabetes Patients Encodes a Potent T Cell Autoantigen. Cell. 177: 1583-1599.e16. PMID 31150624 DOI: 10.1016/J.Cell.2019.05.007  0.381
2019 Lo EKW, Cahan P. Cell Fate Engineering Tools for iPSC Disease Modeling. Methods in Molecular Biology (Clifton, N.J.). 1975: 427-454. PMID 31062321 DOI: 10.1007/978-1-4939-9224-9_19  0.393
2018 Spangler A, Su EY, Craft AM, Cahan P. A single cell transcriptional portrait of embryoid body differentiation and comparison to progenitors of the developing embryo. Stem Cell Research. 31: 201-215. PMID 30118958 DOI: 10.1016/J.Scr.2018.07.022  0.387
2018 Cesana M, Guo MH, Cacchiarelli D, Wahlster L, Barragan J, Doulatov S, Vo LT, Salvatori B, Trapnell C, Clement K, Cahan P, Tsanov KM, Sousa PM, Tazon-Vega B, Bolondi A, et al. A CLK3-HMGA2 Alternative Splicing Axis Impacts Human Hematopoietic Stem Cell Molecular Identity throughout Development. Cell Stem Cell. 22: 575-588.e7. PMID 29625070 DOI: 10.1016/J.Stem.2018.03.012  0.371
2018 Nagpal N, Wang J, Lo E, Tai A, Cahan P, Fong Y, Agarwal S. Therapeutic Targeting of Telomere Diseases Via Novel Small Molecule Modulators of Non-Coding RNA Biogenesis Blood. 132: 647-647. DOI: 10.1182/Blood-2018-99-118800  0.38
2017 Velazquez JJ, Su E, Cahan P, Ebrahimkhani MR. Programming Morphogenesis through Systems and Synthetic Biology. Trends in Biotechnology. PMID 29229492 DOI: 10.1016/J.Tibtech.2017.11.003  0.414
2017 Radley AH, Schwab RM, Tan Y, Kim J, Lo EKW, Cahan P. Assessment of engineered cells using CellNet and RNA-seq. Nature Protocols. 12: 1089-1102. PMID 28448485 DOI: 10.1038/Nprot.2017.022  0.439
2017 Kumar P, Tan Y, Cahan P. Understanding development and stem cells using single cell-based analyses of gene expression. Development (Cambridge, England). 144: 17-32. PMID 28049689 DOI: 10.1242/Dev.133058  0.482
2016 Lu YF, Cahan P, Ross S, Sahalie J, Sousa PM, Hadland BK, Cai W, Serrao E, Engelman AN, Bernstein ID, Daley GQ. Engineered Murine HSCs Reconstitute Multi-lineage Hematopoiesis and Adaptive Immunity. Cell Reports. 17: 3178-3192. PMID 28009288 DOI: 10.1016/J.Celrep.2016.11.077  0.407
2016 Boyraz B, Moon DH, Segal M, Muosieyiri MZ, Aykanat A, Tai AK, Cahan P, Agarwal S. Posttranscriptional manipulation of TERC reverses molecular hallmarks of telomere disease. The Journal of Clinical Investigation. PMID 27482890 DOI: 10.1172/Jci87547  0.339
2016 Powers JT, Tsanov KM, Pearson DS, Roels F, Spina CS, Ebright R, Seligson M, de Soysa Y, Cahan P, Theißen J, Tu HC, Han A, Kurek KC, LaPier GS, Osborne JK, et al. Multiple mechanisms disrupt the let-7 microRNA family in neuroblastoma. Nature. PMID 27383785 DOI: 10.1038/Nature18632  0.341
2016 Zhang J, Ratanasirintrawoot S, Chandrasekaran S, Wu Z, Ficarro SB, Yu C, Ross CA, Cacchiarelli D, Xia Q, Seligson M, Shinoda G, Xie W, Cahan P, Wang L, Ng SC, et al. LIN28 Regulates Stem Cell Metabolism and Conversion to Primed Pluripotency. Cell Stem Cell. PMID 27320042 DOI: 10.1016/J.Stem.2016.05.009  0.364
2016 Bian Q, Cahan P. Computational Tools for Stem Cell Biology. Trends in Biotechnology. PMID 27318512 DOI: 10.1016/J.Tibtech.2016.05.010  0.379
2016 Cahan P. Enabling direct fate conversion with network biology. Nature Genetics. 48: 226-7. PMID 26906680 DOI: 10.1038/Ng.3516  0.337
2016 Powers JT, Tsanov K, Roels F, Spina C, Ebright R, Seligson M, Soysa Yd, Cahan P, Pearson D, Theißen J, Tu H, LaPier G, Osborne J, Ross S, Collins J, et al. Abstract LB-165: Multiple mechanisms disrupt let-7 miRNA biogenesis and function in neuroblastoma Cancer Research. 76. DOI: 10.1158/1538-7445.Am2016-Lb-165  0.386
2015 Uosaki H, Cahan P, Lee DI, Wang S, Miyamoto M, Fernandez L, Kass DA, Kwon C. Transcriptional Landscape of Cardiomyocyte Maturation. Cell Reports. PMID 26586429 DOI: 10.1016/J.Celrep.2015.10.032  0.361
2015 Moon DH, Segal M, Boyraz B, Guinan E, Hofmann I, Cahan P, Tai AK, Agarwal S. Poly(A)-specific ribonuclease (PARN) mediates 3'-end maturation of the telomerase RNA component. Nature Genetics. PMID 26482878 DOI: 10.1038/Ng.3423  0.378
2015 Moon DH, Segal M, Boyraz B, Guinan E, Hofmann I, Cahan P, Tai AK, Agarwal S. Mutations in the Poly(A)-Specific Ribonuclease (PARN) Impair Telomerase RNA 3' End Maturation in Dyskeratosis Congenita Patients Blood. 126: 669-669. DOI: 10.1182/Blood.V126.23.669.669  0.373
2015 Powers JT, Tsanov KM, Roles F, Ebright R, Seligson M, Soysa Yd, Cahan P, Theissen J, LaPier GS, Pearson DS, Berthold F, Daley GQ. Abstract LB-290: Multiple distinct mechanisms disrupt let-7 miRNA biogenesis and function in neuroblastoma Cancer Research. 75. DOI: 10.1158/1538-7445.Am2015-Lb-290  0.388
2015 Kumar RM, Cahan P, Shalek AK, Satija R, DaleyKeyser AJ, Li H, Zhang J, Pardee K, Gennert D, Trombetta JJ, Ferrante TC, Regev A, Daley GQ, Collins JJ. Erratum: Deconstructing transcriptional heterogeneity in pluripotent stem cells Nature. 519: 118-118. DOI: 10.1038/Nature14150  0.305
2014 Kumar RM, Cahan P, Shalek AK, Satija R, DaleyKeyser AJ, Li H, Zhang J, Pardee K, Gennert D, Trombetta JJ, Ferrante TC, Regev A, Daley GQ, Collins JJ. Deconstructing transcriptional heterogeneity in pluripotent stem cells. Nature. 516: 56-61. PMID 25471879 DOI: 10.1038/Nature13920  0.403
2014 Zhao R, Deibler RW, Lerou PH, Ballabeni A, Heffner GC, Cahan P, Unternaehrer JJ, Kirschner MW, Daley GQ. A nontranscriptional role for Oct4 in the regulation of mitotic entry. Proceedings of the National Academy of Sciences of the United States of America. 111: 15768-73. PMID 25324523 DOI: 10.1073/Pnas.1417518111  0.39
2014 Cahan P, Li H, Morris SA, Lummertz da Rocha E, Daley GQ, Collins JJ. CellNet: network biology applied to stem cell engineering. Cell. 158: 903-15. PMID 25126793 DOI: 10.1016/J.Cell.2014.07.020  0.41
2014 Morris SA, Cahan P, Li H, Zhao AM, San Roman AK, Shivdasani RA, Collins JJ, Daley GQ. Dissecting engineered cell types and enhancing cell fate conversion via CellNet. Cell. 158: 889-902. PMID 25126792 DOI: 10.1016/J.Cell.2014.07.021  0.378
2014 Yimlamai D, Christodoulou C, Galli GG, Yanger K, Pepe-Mooney B, Gurung B, Shrestha K, Cahan P, Stanger BZ, Camargo FD. Hippo pathway activity influences liver cell fate. Cell. 157: 1324-38. PMID 24906150 DOI: 10.1016/J.Cell.2014.03.060  0.358
2013 Cahan P, Daley GQ. Origins and implications of pluripotent stem cell variability and heterogeneity. Nature Reviews. Molecular Cell Biology. 14: 357-68. PMID 23673969 DOI: 10.1038/Nrm3584  0.419
2012 McKinney-Freeman S, Cahan P, Li H, Lacadie SA, Huang HT, Curran M, Loewer S, Naveiras O, Kathrein KL, Konantz M, Langdon EM, Lengerke C, Zon LI, Collins JJ, Daley GQ. The transcriptional landscape of hematopoietic stem cell ontogeny. Cell Stem Cell. 11: 701-14. PMID 23122293 DOI: 10.1016/J.Stem.2012.07.018  0.421
2012 Onder TT, Kara N, Cherry A, Sinha AU, Zhu N, Bernt KM, Cahan P, Marcarci BO, Unternaehrer J, Gupta PB, Lander ES, Armstrong SA, Daley GQ. Chromatin-modifying enzymes as modulators of reprogramming. Nature. 483: 598-602. PMID 22388813 DOI: 10.1038/Nature10953  0.363
2012 Kim K, Zhao R, Doi A, Ng K, Unternaehrer J, Cahan P, Hongguang H, Loh YH, Aryee MJ, Lensch MW, Li H, Collins JJ, Feinberg AP, Daley GQ. Erratum: Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells (Nature Biotechnology (2011) 29 (1117-1119)) Nature Biotechnology. 30. DOI: 10.1038/Nbt0112-112B  0.393
2011 Kim K, Zhao R, Doi A, Ng K, Unternaehrer J, Cahan P, Huo H, Loh YH, Aryee MJ, Lensch MW, Li H, Collins JJ, Feinberg AP, Daley GQ. Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells. Nature Biotechnology. 29: 1117-9. PMID 22119740 DOI: 10.1038/Nbt.2052  0.387
2011 Wartman LD, Larson DE, Xiang Z, Ding L, Chen K, Lin L, Cahan P, Klco JM, Welch JS, Li C, Payton JE, Uy GL, Varghese N, Ries RE, Hoock M, et al. Sequencing a mouse acute promyelocytic leukemia genome reveals genetic events relevant for disease progression. The Journal of Clinical Investigation. 121: 1445-55. PMID 21436584 DOI: 10.1172/Jci45284  0.665
2011 Zhu H, Lensch MW, Cahan P, Daley GQ. Investigating monogenic and complex diseases with pluripotent stem cells. Nature Reviews. Genetics. 12: 266-75. PMID 21386866 DOI: 10.1038/Nrg2951  0.434
2010 Cahan P, Graubert TA. Integrated genomics of susceptibility to alkylator-induced leukemia in mice. Bmc Genomics. 11: 638. PMID 21080971 DOI: 10.1186/1471-2164-11-638  0.634
2010 Higuchi DA, Cahan P, Gao J, Ferris ST, Poursine-Laurent J, Graubert TA, Yokoyama WM. Structural variation of the mouse natural killer gene complex. Genes and Immunity. 11: 637-48. PMID 20861859 DOI: 10.1038/Gene.2010.48  0.614
2010 Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, et al. Epigenetic memory in induced pluripotent stem cells. Nature. 467: 285-90. PMID 20644535 DOI: 10.1038/Nature09342  0.405
2010 Fortier JM, Payton JE, Cahan P, Ley TJ, Walter MJ, Graubert TA. POU4F1 is associated with t(8;21) acute myeloid leukemia and contributes directly to its unique transcriptional signature. Leukemia. 24: 950-7. PMID 20376082 DOI: 10.1038/Leu.2010.61  0.698
2009 Cahan P, Li Y, Izumi M, Graubert TA. The impact of copy number variation on local gene expression in mouse hematopoietic stem and progenitor cells. Nature Genetics. 41: 430-7. PMID 19270704 DOI: 10.1038/Ng.350  0.66
2009 Fortier JM, Payton JE, Cahan P, Ley TJ, Walter MJ, Graubert TA. POU4F1 Is Associated with t(8;21) AML and Contributes Directly to Its Unique Transcriptional Signature. Blood. 114: 2623-2623. DOI: 10.1182/Blood.V114.22.2623.2623  0.714
2009 Li Y, Cahan P, Izumi M, Graubert T. Caspase-9: A Candidate Susceptibility Factor for Murine Alkylator-Induced Leukemia. Blood. 114: 1273-1273. DOI: 10.1182/Blood.V114.22.1273.1273  0.685
2008 Cahan P, Godfrey LE, Eis PS, Richmond TA, Selzer RR, Brent M, McLeod HL, Ley TJ, Graubert TA. wuHMM: a robust algorithm to detect DNA copy number variation using long oligonucleotide microarray data. Nucleic Acids Research. 36: e41. PMID 18334530 DOI: 10.1093/Nar/Gkn110  0.619
2008 Janke MR, Babatunde F, Cahan P, Cheverud JM, Graubert TA. MLF1 Is a Candidate Susceptibility Factor for T-AML That Induces Apoptosis in Normal Hematopoietic Cells Blood. 112: 310-310. DOI: 10.1182/Blood.V112.11.310.310  0.713
2008 Funk R, Cahan P, Izumi M, Graubert T. Bcl2, a Candidate Murine Therapy-Related Acute Myeloid Leukemia Susceptibility Factor, Exhibits Strain-Dependent and Alkylator-Responsive Expression. Blood. 112: 1499-1499. DOI: 10.1182/Blood.V112.11.1499.1499  0.608
2007 Cahan P, Rovegno F, Mooney D, Newman JC, St Laurent G, McCaffrey TA. Meta-analysis of microarray results: challenges, opportunities, and recommendations for standardization. Gene. 401: 12-8. PMID 17651921 DOI: 10.1016/J.Gene.2007.06.016  0.353
2007 Graubert TA, Cahan P, Edwin D, Selzer RR, Richmond TA, Eis PS, Shannon WD, Li X, McLeod HL, Cheverud JM, Ley TJ. A high-resolution map of segmental DNA copy number variation in the mouse genome. Plos Genetics. 3: e3. PMID 17206864 DOI: 10.1371/Journal.Pgen.0030003  0.67
2006 de la Fuente C, Gupta MV, Klase Z, Strouss K, Cahan P, McCaffery T, Galante A, Soteropoulos P, Pumfery A, Fujii M, Kashanchi F. Involvement of HTLV-I Tax and CREB in aneuploidy: a bioinformatics approach. Retrovirology. 3: 43. PMID 16822311 DOI: 10.1186/1742-4690-3-43  0.397
2006 Cahan P, Marsh S, McLeod HL. Systems pharmacogenomics in yeast. Pharmacogenomics. 7: 255-9. PMID 16515406 DOI: 10.2217/14622416.7.2.255  0.301
2005 Cahan P, Ahmad AM, Burke H, Fu S, Lai Y, Florea L, Dharker N, Kobrinski T, Kale P, McCaffrey TA. List of lists-annotated (LOLA): a database for annotation and comparison of published microarray gene lists. Gene. 360: 78-82. PMID 16140476 DOI: 10.1016/J.Gene.2005.07.008  0.404
2005 Gagarin D, Yang Z, Butler J, Wimmer M, Du B, Cahan P, McCaffrey TA. Genomic profiling of acquired resistance to apoptosis in cells derived from human atherosclerotic lesions: potential role of STATs, cyclinD1, BAD, and Bcl-XL. Journal of Molecular and Cellular Cardiology. 39: 453-65. PMID 16005468 DOI: 10.1016/J.Yjmcc.2005.01.015  0.348
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