Jason Gertz, Ph.D. - Publications

Affiliations: 
2008 Washington University, Saint Louis, St. Louis, MO 
Area:
Bioinformatics, Molecular Biology

30 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
2016 Savic D, Ramaker RC, Roberts BS, Dean EC, Burwell TC, Meadows SK, Cooper SJ, Garabedian MJ, Gertz J, Myers RM. Distinct gene regulatory programs define the inhibitory effects of liver X receptors and PPARG on cancer cell proliferation. Genome Medicine. 8: 74. PMID 27401066 DOI: 10.1186/s13073-016-0328-6  0.92
2016 Camp NJ, Lin WY, Bigelow A, Burghel GJ, Mosbruger T, Parry M, Waller RG, Rigas SH, Tai PY, Berrett K, Rajamanickam V, Cosby R, Brock IW, Jones B, Connley D, ... ... Gertz J, et al. Discordant Haplotype Sequencing Identifies Functional Variants at the 2q33 Breast Cancer Risk Locus. Cancer Research. PMID 26795348 DOI: 10.1158/0008-5472.CAN-15-1629  0.92
2015 Savic D, Roberts BS, Carleton JB, Partridge EC, White MA, Cohen BA, Cooper GM, Gertz J, Myers RM. Promoter-distal RNA polymerase II binding discriminates active from inactive CCAAT/enhancer-binding protein beta binding sites. Genome Research. PMID 26486725 DOI: 10.1101/gr.191593.115  0.92
2015 Slattery ML, Herrick JS, Mullany LE, Gertz J, Wolff RK. Improved survival among colon cancer patients with increased differentially expressed pathways. Bmc Medicine. 13: 75. PMID 25890236 DOI: 10.1186/s12916-015-0292-9  0.92
2014 Varley KE, Gertz J, Roberts BS, Davis NS, Bowling KM, Kirby MK, Nesmith AS, Oliver PG, Grizzle WE, Forero A, Buchsbaum DJ, LoBuglio AF, Myers RM. Recurrent read-through fusion transcripts in breast cancer. Breast Cancer Research and Treatment. 146: 287-97. PMID 24929677 DOI: 10.1007/s10549-014-3019-2  0.92
2014 Marinov GK, Williams BA, McCue K, Schroth GP, Gertz J, Myers RM, Wold BJ. From single-cell to cell-pool transcriptomes: stochasticity in gene expression and RNA splicing. Genome Research. 24: 496-510. PMID 24299736 DOI: 10.1101/gr.161034.113  0.92
2013 Savic D, Gertz J, Jain P, Cooper GM, Myers RM. Mapping genome-wide transcription factor binding sites in frozen tissues. Epigenetics & Chromatin. 6: 30. PMID 24279905 DOI: 10.1186/1756-8935-6-30  0.92
2013 Gertz J, Savic D, Varley KE, Partridge EC, Safi A, Jain P, Cooper GM, Reddy TE, Crawford GE, Myers RM. Distinct properties of cell-type-specific and shared transcription factor binding sites. Molecular Cell. 52: 25-36. PMID 24076218 DOI: 10.1016/j.molcel.2013.08.037  0.92
2013 Tsumagari K, Baribault C, Terragni J, Varley KE, Gertz J, Pradhan S, Badoo M, Crain CM, Song L, Crawford GE, Myers RM, Lacey M, Ehrlich M. Early de novo DNA methylation and prolonged demethylation in the muscle lineage. Epigenetics : Official Journal of the Dna Methylation Society. 8: 317-32. PMID 23417056 DOI: 10.4161/epi.23989  0.92
2013 Varley KE, Gertz J, Bowling KM, Parker SL, Reddy TE, Pauli-Behn F, Cross MK, Williams BA, Stamatoyannopoulos JA, Crawford GE, Absher DM, Wold BJ, Myers RM. Dynamic DNA methylation across diverse human cell lines and tissues. Genome Research. 23: 555-67. PMID 23325432 DOI: 10.1101/gr.147942.112  0.92
2012 Guo Y, Monahan K, Wu H, Gertz J, Varley KE, Li W, Myers RM, Maniatis T, Wu Q. CTCF/cohesin-mediated DNA looping is required for protocadherin α promoter choice. Proceedings of the National Academy of Sciences of the United States of America. 109: 21081-6. PMID 23204437 DOI: 10.1073/pnas.1219280110  0.92
2012 Gertz J, Reddy TE, Varley KE, Garabedian MJ, Myers RM. Genistein and bisphenol A exposure cause estrogen receptor 1 to bind thousands of sites in a cell type-specific manner. Genome Research. 22: 2153-62. PMID 23019147 DOI: 10.1101/gr.135681.111  0.92
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, ... ... Gertz J, 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  0.92
2012 Wang H, Maurano MT, Qu H, Varley KE, Gertz J, Pauli F, Lee K, Canfield T, Weaver M, Sandstrom R, Thurman RE, Kaul R, Myers RM, Stamatoyannopoulos JA. Widespread plasticity in CTCF occupancy linked to DNA methylation. Genome Research. 22: 1680-8. PMID 22955980 DOI: 10.1101/gr.136101.111  0.92
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, ... ... Gertz J, et al. Architecture of the human regulatory network derived from ENCODE data. Nature. 489: 91-100. PMID 22955619 DOI: 10.1038/nature11245  0.92
2012 Reddy TE, Gertz J, Crawford GE, Garabedian MJ, Myers RM. The hypersensitive glucocorticoid response specifically regulates period 1 and expression of circadian genes. Molecular and Cellular Biology. 32: 3756-67. PMID 22801371 DOI: 10.1128/MCB.00062-12  0.92
2012 Reddy TE, Gertz J, Pauli F, Kucera KS, Varley KE, Newberry KM, Marinov GK, Mortazavi A, Williams BA, Song L, Crawford GE, Wold B, Willard HF, Myers RM. Effects of sequence variation on differential allelic transcription factor occupancy and gene expression. Genome Research. 22: 860-9. PMID 22300769 DOI: 10.1101/gr.131201.111  0.92
2012 Gertz J, Varley KE, Davis NS, Baas BJ, Goryshin IY, Vaidyanathan R, Kuersten S, Myers RM. Transposase mediated construction of RNA-seq libraries. Genome Research. 22: 134-41. PMID 22128135 DOI: 10.1101/gr.127373.111  0.92
2012 Simpson NE, Gertz J, Imberg K, Myers RM, Garabedian MJ. Research resource: enhanced genome-wide occupancy of estrogen receptor α by the cochaperone p23 in breast cancer cells. Molecular Endocrinology (Baltimore, Md.). 26: 194-202. PMID 22074947 DOI: 10.1210/me.2011-1068  0.92
2012 Gertz J, Varley KE, Davis NS, Baas BJ, Goryshin IY, Vaidyanathan R, Kuersten S, Myers RM. Transposase mediated construction of RNA-seq libraries (Genome Research (2012) 22, (134-141)) Genome Research. 22: 592.  0.92
2011 Ng SL, Friedman BA, Schmid S, Gertz J, Myers RM, Tenoever BR, Maniatis T. IκB kinase epsilon (IKK(epsilon)) regulates the balance between type I and type II interferon responses. Proceedings of the National Academy of Sciences of the United States of America. 108: 21170-5. PMID 22171011 DOI: 10.1073/pnas.1119137109  0.92
2011 Gertz J, Varley KE, Reddy TE, Bowling KM, Pauli F, Parker SL, Kucera KS, Willard HF, Myers RM. Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation. Plos Genetics. 7: e1002228. PMID 21852959 DOI: 10.1371/journal.pgen.1002228  0.92
2011 Kucera KS, Reddy TE, Pauli F, Gertz J, Logan JE, Myers RM, Willard HF. Allele-specific distribution of RNA polymerase II on female X chromosomes. Human Molecular Genetics. 20: 3964-73. PMID 21791549 DOI: 10.1093/hmg/ddr315  0.92
2010 Gertz J, Gerke JP, Cohen BA. Epistasis in a quantitative trait captured by a molecular model of transcription factor interactions. Theoretical Population Biology. 77: 1-5. PMID 19818800 DOI: 10.1016/j.tpb.2009.10.002  0.92
2009 Gertz J, Cohen BA. Environment-specific combinatorial cis-regulation in synthetic promoters. Molecular Systems Biology. 5: 244. PMID 19225457 DOI: 10.1038/msb.2009.1  0.92
2009 Gertz J, Siggia ED, Cohen BA. Analysis of combinatorial cis-regulation in synthetic and genomic promoters. Nature. 457: 215-8. PMID 19029883 DOI: 10.1038/nature07521  0.92
2007 Zeigler RD, Gertz J, Cohen BA. A cis-regulatory logic simulator. Bmc Bioinformatics. 8: 272. PMID 17662143 DOI: 10.1186/1471-2105-8-272  0.92
2006 Gertz J, Fay JC, Cohen BA. Phylogeny based discovery of regulatory elements. Bmc Bioinformatics. 7: 266. PMID 16716228 DOI: 10.1186/1471-2105-7-266  0.92
2005 Gertz J, Riles L, Turnbaugh P, Ho SW, Cohen BA. Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics. Genome Research. 15: 1145-52. PMID 16077013 DOI: 10.1101/gr.3859605  0.92
2003 Gertz J, Elfond G, Shustrova A, Weisinger M, Pellegrini M, Cokus S, Rothschild B. Inferring protein interactions from phylogenetic distance matrices. Bioinformatics (Oxford, England). 19: 2039-45. PMID 14594708 DOI: 10.1093/bioinformatics/btg278  0.92
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