Christopher W. Benner, Ph.D. - Publications

Affiliations: 
2009 Bioinformatics University of California, San Diego, La Jolla, CA 
Area:
Bioinformatics Biology

109 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 Cividini F, Scott BT, Suarez J, Casteel DE, Heinz S, Dai A, Diemer T, Suarez JA, Benner CW, Ghassemian M, Dillmann WH. Ncor2/PPARα-Dependent Upregulation of MCUb in the Type 2 Diabetic Heart Impacts Cardiac Metabolic Flexibility and Function. Diabetes. PMID 33303689 DOI: 10.2337/db20-0779  0.01
2020 Santos NPD, Texari L, Benner C. MEIRLOP: improving score-based motif enrichment by incorporating sequence bias covariates. Bmc Bioinformatics. 21: 410. PMID 32938397 DOI: 10.1186/S12859-020-03739-4  0.04
2020 Tran V, Ledwith MP, Thamamongood T, Higgins CA, Tripathi S, Chang MW, Benner C, García-Sastre A, Schwemmle M, Boon ACM, Diamond MS, Mehle A. Influenza virus repurposes the antiviral protein IFIT2 to promote translation of viral mRNAs. Nature Microbiology. PMID 32839537 DOI: 10.1038/S41564-020-0778-X  0.01
2020 Riva L, Yuan S, Yin X, Martin-Sancho L, Matsunaga N, Pache L, Burgstaller-Muehlbacher S, De Jesus PD, Teriete P, Hull MV, Chang MW, Chan JF, Cao J, Poon VK, Herbert KM, ... ... Benner C, et al. Discovery of SARS-CoV-2 antiviral drugs through large-scale compound repurposing. Nature. PMID 32707573 DOI: 10.1038/S41586-020-2577-1  0.01
2020 Shen Z, Hoeksema MA, Ouyang Z, Benner C, Glass CK. MAGGIE: leveraging genetic variation to identify DNA sequence motifs mediating transcription factor binding and function. Bioinformatics (Oxford, England). 36: i84-i92. PMID 32657363 DOI: 10.1093/Bioinformatics/Btaa476  0.04
2020 Ho JSY, Angel M, Ma Y, Sloan E, Wang G, Martinez-Romero C, Alenquer M, Roudko V, Chung L, Zheng S, Chang M, Fstkchyan Y, Clohisey S, Dinan AM, Gibbs J, ... ... Benner C, et al. Hybrid Gene Origination Creates Human-Virus Chimeric Proteins during Infection. Cell. PMID 32559462 DOI: 10.1016/J.Cell.2020.05.035  0.01
2020 Thamamongood T, Aebischer A, Wagner V, Chang MW, Elling R, Benner C, García-Sastre A, Kochs G, Beer M, Schwemmle M. A genome-wide CRISPR-Cas9 screen reveals the requirement of host cell sulfation for Schmallenberg virus infection. Journal of Virology. PMID 32522852 DOI: 10.1128/Jvi.00752-20  0.01
2020 Roth SJ, Heinz S, Benner C. ARTDeco: automatic readthrough transcription detection. Bmc Bioinformatics. 21: 214. PMID 32456667 DOI: 10.1186/S12859-020-03551-0  0.01
2020 Vinckier NK, Patel NA, Geusz RJ, Wang A, Wang J, Matta I, Harrington AR, Wortham M, Wetton N, Wang J, Jhala US, Rosenfeld MG, Benner CW, Shih HP, Sander M. LSD1-mediated enhancer silencing attenuates retinoic acid signalling during pancreatic endocrine cell development. Nature Communications. 11: 2082. PMID 32350257 DOI: 10.1038/S41467-020-16017-X  0.01
2020 Weiss RJ, Spahn PN, Toledo AG, Chiang AWT, Kellman BP, Li J, Benner C, Glass CK, Gordts PLSM, Lewis NE, Esko JD. ZNF263 is a transcriptional regulator of heparin and heparan sulfate biosynthesis. Proceedings of the National Academy of Sciences of the United States of America. PMID 32277030 DOI: 10.1073/Pnas.1920880117  0.01
2020 Mennillo E, Yang X, Paszek M, Auwerx J, Benner CW, Chen S. NCoR1 protects mice from dextran sodium sulfate-induced colitis by guarding colonic crypt cells from luminal insult. Cellular and Molecular Gastroenterology and Hepatology. PMID 32044398 DOI: 10.1016/J.Jcmgh.2020.01.014  0.04
2020 Liu X, Xu J, Rosenthal S, Zhang LJ, McCubbin R, Meshgin N, Shang L, Koyama Y, Ma HY, Sharma S, Heinz S, Glass CK, Benner C, Brenner DA, Kisseleva T. Identification of Lineage-specific Transcription Factors That Prevent Activation of Hepatic Stellate Cells and Promote Fibrosis Resolution. Gastroenterology. PMID 31982409 DOI: 10.1053/J.Gastro.2020.01.027  0.04
2020 Treuner K, Hayes M, Benner C, Schnabel C, Heinz S. Abstract P6-04-17: Role of HOXB13 in modulating estrogen signaling in breast cancer cells Cancer Research. DOI: 10.1158/1538-7445.Sabcs19-P6-04-17  0.01
2020 Meng Y, Montilla-Perez P, Hillary R, Wen J, Benner C, Telese F. The Function of CASK in Transcriptional Regulation in Neurons The Faseb Journal. 34: 1-1. DOI: 10.1096/Fasebj.2020.34.S1.04416  0.01
2019 Ma HY, Yamamoto G, Xu J, Liu X, Karin D, Kim JY, Alexandrov LB, Koyama Y, Nishio T, Benner C, Heinz S, Rosenthal SB, Liang S, Sun M, Karin G, et al. IL-17 signaling in steatotic hepatocytes and macrophages promotes hepatocellular carcinoma in alcohol-related liver disease. Journal of Hepatology. PMID 31899206 DOI: 10.1016/J.Jhep.2019.12.016  0.01
2019 Rodriguez-Frandsen A, Martin-Sancho L, Gounder AP, Chang MW, Liu WC, De Jesus PD, von Recum-Knepper J, Dutra MS, Huffmaster NJ, Chavarria M, Mena I, Riva L, Nguyen CB, Dobariya S, Herbert KM, ... Benner C, et al. Viral determinants in H5N1 influenza A virus enable productive infection of HeLa cells. Journal of Virology. PMID 31776276 DOI: 10.1128/Jvi.01410-19  0.01
2019 Duttke SH, Chang MW, Heinz S, Benner C. Identification and dynamic quantification of regulatory elements using total RNA. Genome Research. PMID 31649059 DOI: 10.1101/Gr.253492.119  0.01
2019 Brigidi GS, Hayes MGB, Delos Santos NP, Hartzell AL, Texari L, Lin PA, Bartlett A, Ecker JR, Benner C, Heinz S, Bloodgood BL. Genomic Decoding of Neuronal Depolarization by Stimulus-Specific NPAS4 Heterodimers. Cell. 179: 373-391.e27. PMID 31585079 DOI: 10.1016/J.Cell.2019.09.004  0.01
2019 López-Moyado IF, Tsagaratou A, Yuita H, Seo H, Delatte B, Heinz S, Benner C, Rao A. Paradoxical association of TET loss of function with genome-wide DNA hypomethylation. Proceedings of the National Academy of Sciences of the United States of America. PMID 31371502 DOI: 10.1073/Pnas.1903059116  0.01
2019 Ramms B, Patel S, Nora C, Pessentheiner AR, Chang MW, Green CR, Golden GJ, Secrest P, Krauss RM, Metallo CM, Benner C, Alexander VJ, Witztum JL, Tsimikas S, Esko JD, et al. ApoC-III ASO Promotes Tissue LPL Activity in Absence of ApoE-Mediated TRL Clearance. Journal of Lipid Research. PMID 31092690 DOI: 10.1194/Jlr.M093740  0.01
2019 Hishida T, Vazquez-Ferrer E, Hishida-Nozaki Y, Sancho-Martinez I, Takahashi Y, Hatanaka F, Wu J, Ocampo A, Reddy P, Wu MZ, Gerken L, Shaw RJ, Rodriguez Esteban C, Benner C, Nakagawa H, et al. Mutations in foregut SOX2 cells induce efficient proliferation via CXCR2 pathway. Protein & Cell. PMID 31041783 DOI: 10.1007/S13238-019-0630-3  0.01
2019 Zhou Y, Zhou B, Pache L, Chang M, Khodabakhshi AH, Tanaseichuk O, Benner C, Chanda SK. Metascape provides a biologist-oriented resource for the analysis of systems-level datasets. Nature Communications. 10: 1523. PMID 30944313 DOI: 10.1038/S41467-019-09234-6  0.01
2019 Wegner M, Diehl V, Bittl V, de Bruyn R, Wiechmann S, Matthess Y, Hebel M, Hayes MG, Schaubeck S, Benner C, Heinz S, Bremm A, Dikic I, Ernst A, Kaulich M. Circular synthesized CRISPR/Cas gRNAs for functional interrogations in the coding and noncoding genome. Elife. 8. PMID 30838976 DOI: 10.7554/Elife.42549  0.01
2019 Karakus U, Thamamongood T, Ciminski K, Ran W, Günther SC, Pohl MO, Eletto D, Jeney C, Hoffmann D, Reiche S, Schinköthe J, Ulrich R, Wiener J, Hayes MGB, Chang MW, ... ... Benner C, et al. MHC class II proteins mediate cross-species entry of bat influenza viruses. Nature. PMID 30787439 DOI: 10.1038/S41586-019-0955-3  0.04
2019 Fonseca GJ, Tao J, Westin EM, Duttke SH, Spann NJ, Strid T, Shen Z, Stender JD, Sakai M, Link VM, Benner C, Glass CK. Diverse motif ensembles specify non-redundant DNA binding activities of AP-1 family members in macrophages. Nature Communications. 10: 414. PMID 30679424 DOI: 10.1038/S41467-018-08236-0  0.01
2019 Wegner M, Diehl V, Bittl V, Bruyn Rd, Wiechmann S, Matthess Y, Hebel M, Hayes MG, Schaubeck S, Benner C, Heinz S, Bremm A, Dikic I, Ernst A, Kaulich M. Author response: Circular synthesized CRISPR/Cas gRNAs for functional interrogations in the coding and noncoding genome Elife. DOI: 10.7554/Elife.42549.044  0.01
2019 Duttke SH, Chang M, Glass CK, Berman A, Benner C. Abstract B155: Impact of transcription initation on translation regulation by the mTOR pathway Cancer Immunology Research. 7. DOI: 10.1158/2326-6074.Cricimteatiaacr18-B155  0.01
2018 Carlin AF, Wen J, Vizcarra EA, McCauley M, Chaillon A, Akrami K, Kim C, Ngono AE, Lara-Marquez ML, Smith DM, Glass CK, Schooley RT, Benner C, Shresta S. A longitudinal systems immunologic investigation of acute Zika virus infection in an individual infected while traveling to Caracas, Venezuela. Plos Neglected Tropical Diseases. 12: e0007053. PMID 30596671 DOI: 10.1371/Journal.Pntd.0007053  0.04
2018 Carlin AF, Vizcarra EA, Branche E, Viramontes KM, Suarez-Amaran L, Ley K, Heinz S, Benner C, Shresta S, Glass CK. Deconvolution of pro- and antiviral genomic responses in Zika virus-infected and bystander macrophages. Proceedings of the National Academy of Sciences of the United States of America. 115: E9172-E9181. PMID 30206152 DOI: 10.1073/Pnas.1807690115  0.01
2018 Heinz S, Texari L, Hayes MGB, Urbanowski M, Chang MW, Givarkes N, Rialdi A, White KM, Albrecht RA, Pache L, Marazzi I, García-Sastre A, Shaw ML, Benner C. Transcription Elongation Can Affect Genome 3D Structure. Cell. PMID 30146161 DOI: 10.1016/J.Cell.2018.07.047  0.01
2018 Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, ... ... Benner C, et al. Author Correction: Inflammation-induced IgA cells dismantle anti-liver cancer immunity. Nature. PMID 29973714 DOI: 10.1038/S41586-018-0304-Y  0.01
2018 Zhu Q, Hoong N, Aslanian A, Hara T, Benner C, Heinz S, Miga KH, Ke E, Verma S, Soroczynski J, Yates JR, Hunter T, Verma IM. Heterochromatin-Encoded Satellite RNAs Induce Breast Cancer. Molecular Cell. PMID 29861157 DOI: 10.1016/J.Molcel.2018.04.023  0.01
2018 Prohaska TA, Que X, Diehl CJ, Hendrikx S, Chang MW, Jepsen K, Glass CK, Benner C, Witztum JL. Massively Parallel Sequencing of Peritoneal and Splenic B Cell Repertoires Highlights Unique Properties of B-1 Cell Antibodies. Journal of Immunology (Baltimore, Md. : 1950). PMID 29378911 DOI: 10.4049/Jimmunol.1700568  0.01
2018 Neal S, Jaeger PA, Duttke SH, Benner CK, Glass C, Ideker T, Hampton R. The Dfm1 Derlin Is Required for ERAD Retrotranslocation of Integral Membrane Proteins. Molecular Cell. 69: 306-320.e4. PMID 29351849 DOI: 10.1016/J.Molcel.2017.12.012  0.01
2017 Franks TM, McCloskey A, Shokirev M, Benner C, Rathore A, Hetzer MW. Nup98 recruits the Wdr82-Set1A/COMPASS complex to promoters to regulate H3K4 trimethylation in hematopoietic progenitor cells. Genes & Development. 31: 2222-2234. PMID 29269482 DOI: 10.1101/Gad.306753.117  0.01
2017 Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, ... ... Benner C, et al. Erratum: Inflammation-induced IgA(+) cells dismantle anti-liver cancer immunity. Nature. PMID 29168501 DOI: 10.1038/Nature25028  0.01
2017 Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, ... ... Benner C, et al. Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity. Nature. 551: 340-345. PMID 29144460 DOI: 10.1038/Nature24302  0.01
2017 Kelso TWR, Porter DK, Amaral ML, Shokhirev MN, Benner C, Hargreaves DC. Chromatin accessibility underlies synthetic lethality of SWI/SNF subunits in ARID1A-mutant cancers. Elife. 6. PMID 28967863 DOI: 10.7554/Elife.30506  0.01
2017 Rahnamoun H, Lu H, Duttke SH, Benner C, Glass CK, Lauberth SM. Mutant p53 shapes the enhancer landscape of cancer cells in response to chronic immune signaling. Nature Communications. 8: 754. PMID 28963538 DOI: 10.1038/S41467-017-01117-Y  0.04
2017 Arnoult N, Correia A, Ma J, Merlo A, Garcia-Gomez S, Maric M, Tognetti M, Benner CW, Boulton SJ, Saghatelian A, Karlseder J. Regulation of DNA repair pathway choice in S and G2 phases by the NHEJ inhibitor CYREN. Nature. 549: 548-552. PMID 28959974 DOI: 10.1038/Nature24023  0.01
2017 Franks TM, Benner C, Narvaiza I, Marchetto MCN, Young JM, Malik HS, Gage FH, Hetzer MW. Corrigendum: Evolution of a transcriptional regulator from a transmembrane nucleoporin. Genes & Development. 31: 845. PMID 28512238 DOI: 10.1101/Gad.300699.117  0.01
2017 Koyama Y, Wang P, Liang S, Iwaisako K, Liu X, Xu J, Zhang M, Sun M, Cong M, Karin D, Taura K, Benner C, Heinz S, Bera T, Brenner DA, et al. Mesothelin/mucin 16 signaling in activated portal fibroblasts regulates cholestatic liver fibrosis. The Journal of Clinical Investigation. PMID 28287406 DOI: 10.1172/Jci88845  0.01
2017 Kelso TWR, Porter DK, Amaral ML, Shokhirev MN, Benner C, Hargreaves DC. Author response: Chromatin accessibility underlies synthetic lethality of SWI/SNF subunits in ARID1A-mutant cancers Elife. DOI: 10.7554/Elife.30506.054  0.01
2016 Ibarra A, Benner C, Tyagi S, Cool J, Hetzer MW. Nucleoporin-mediated regulation of cell identity genes. Genes & Development. PMID 27807035 DOI: 10.1101/Gad.287417.116  0.01
2016 Hetzel J, Duttke SH, Benner C, Chory J. Nascent RNA sequencing reveals distinct features in plant transcription. Proceedings of the National Academy of Sciences of the United States of America. PMID 27729530 DOI: 10.1073/Pnas.1603217113  0.01
2016 Nuttle X, Giannuzzi G, Duyzend MH, Schraiber JG, Narvaiza I, Sudmant PH, Penn O, Chiatante G, Malig M, Huddleston J, Benner C, Camponeschi F, Ciofi-Baffoni S, Stessman HA, Marchetto MC, et al. Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility. Nature. PMID 27487209 DOI: 10.1038/Nature19075  1
2016 Meitinger F, Anzola JV, Kaulich M, Richardson A, Stender JD, Benner C, Glass CK, Dowdy SF, Desai A, Shiau AK, Oegema K. 53BP1 and USP28 mediate p53 activation and G1 arrest after centrosome loss or extended mitotic duration. The Journal of Cell Biology. 214: 155-66. PMID 27432897 DOI: 10.1083/Jcb.201604081  1
2016 Franks TM, Benner C, Narvaiza I, Marchetto MC, Young JM, Malik HS, Gage FH, Hetzer MW. Evolution of a transcriptional regulator from a transmembrane nucleoporin. Genes & Development. PMID 27198230 DOI: 10.1101/Gad.280941.116  0.01
2016 Rialdi A, Campisi L, Zhao N, Lagda AC, Pietzsch C, Ho JS, Martinez-Gil L, Fenouil R, Chen X, Edwards M, Metreveli G, Jordan S, Peralta Z, Munoz-Fontela C, Bouvier N, ... ... Benner C, et al. Topoisomerase 1 inhibition suppresses inflammatory genes and protects from death by inflammation. Science (New York, N.Y.). PMID 27127234 DOI: 10.1126/Science.Aad7993  1
2016 Liu X, Benner C, Heinz S, Brenner DA, Kisseleva T. 226 The Mechanism of Hepatic Stellate Cell Inactivation During Reversal of Liver Fibrosis Gastroenterology. 150. DOI: 10.1016/S0016-5085(16)33456-4  0.01
2015 Ding N, Hah N, Yu RT, Sherman MH, Benner C, Leblanc M, He M, Liddle C, Downes M, Evans RM. BRD4 is a novel therapeutic target for liver fibrosis. Proceedings of the National Academy of Sciences of the United States of America. PMID 26644586 DOI: 10.1073/Pnas.1522163112  1
2015 Duttke SH, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U. Perspectives on Unidirectional versus Divergent Transcription. Molecular Cell. 60: 348-9. PMID 26545075 DOI: 10.1016/J.Molcel.2015.10.014  1
2015 Denli AM, Narvaiza I, Kerman BE, Pena M, Benner C, Marchetto MC, Diedrich JK, Aslanian A, Ma J, Moresco JJ, Moore L, Hunter T, Saghatelian A, Gage FH. Primate-Specific ORF0 Contributes to Retrotransposon-Mediated Diversity. Cell. 163: 583-93. PMID 26496605 DOI: 10.1016/J.Cell.2015.09.025  1
2015 Benner C, Isoda T, Murre C. New roles for DNA cytosine modification, eRNA, anchors, and superanchors in developing B cell progenitors. Proceedings of the National Academy of Sciences of the United States of America. 112: 12776-81. PMID 26417104 DOI: 10.1073/Pnas.1512995112  1
2015 Wu MZ, Chen SF, Nieh S, Benner C, Ger LP, Jan CI, Ma L, Chien CH, Hishida T, Chang HT, Lin YS, Montserrat N, Gascon P, Sancho-Martinez I, Izpisua Belmonte JC. Hypoxia drives breast malignancy through a TET -TNFα-p38-MAPK signaling axis. Cancer Research. PMID 26294212 DOI: 10.1158/0008-5472.Can-14-3208  1
2015 Jacinto FV, Benner C, Hetzer MW. The nucleoporin Nup153 regulates embryonic stem cell pluripotency through gene silencing. Genes & Development. 29: 1224-38. PMID 26080816 DOI: 10.1101/Gad.260919.115  0.01
2015 Wu J, Okamura D, Li M, Suzuki K, Luo C, Ma L, He Y, Li Z, Benner C, Tamura I, Krause MN, Nery JR, Du T, Zhang Z, Hishida T, et al. An alternative pluripotent state confers interspecies chimaeric competency. Nature. 521: 316-21. PMID 25945737 DOI: 10.1038/Nature14413  1
2015 Estarás C, Benner C, Jones KA. SMADs and YAP Compete to Control Elongation of β-Catenin:LEF-1-Recruited RNAPII during hESC Differentiation. Molecular Cell. 58: 780-93. PMID 25936800 DOI: 10.1016/J.Molcel.2015.04.001  1
2015 Kashyap MK, Kumar D, Villa R, La Clair JJ, Benner C, Sasik R, Jones H, Ghia EM, Rassenti LZ, Kipps TJ, Burkart MD, Castro JE. Targeting the spliceosome in chronic lymphocytic leukemia with the macrolides FD-895 and pladienolide-B. Haematologica. 100: 945-54. PMID 25862704 DOI: 10.3324/Haematol.2014.122069  1
2015 Miller MS, Rialdi A, Ho JS, Tilove M, Martinez-Gil L, Moshkina NP, Peralta Z, Noel J, Melegari C, Maestre AM, Mitsopoulos P, Madrenas J, Heinz S, Benner C, Young JA, et al. Senataxin suppresses the antiviral transcriptional response and controls viral biogenesis. Nature Immunology. 16: 485-94. PMID 25822250 DOI: 10.1038/Ni.3132  1
2015 Chang AT, Liu Y, Ayyanathan K, Benner C, Jiang Y, Prokop JW, Paz H, Wang D, Li HR, Fu XD, Rauscher FJ, Yang J. An evolutionarily conserved DNA architecture determines target specificity of the TWIST family bHLH transcription factors. Genes & Development. 29: 603-16. PMID 25762439 DOI: 10.1101/Gad.242842.114  1
2015 Kurian L, Aguirre A, Sancho-Martinez I, Benner C, Hishida T, Nguyen TB, Reddy P, Nivet E, Krause MN, Nelles DA, Rodriguez Esteban C, Campistol JM, Yeo GW, Izpisua Belmonte JC. Identification of novel long noncoding RNAs underlying vertebrate cardiovascular development. Circulation. 131: 1278-90. PMID 25739401 DOI: 10.1161/Circulationaha.114.013303  1
2015 Heinz S, Romanoski CE, Benner C, Glass CK. The selection and function of cell type-specific enhancers. Nature Reviews. Molecular Cell Biology. 16: 144-54. PMID 25650801 DOI: 10.1038/Nrm3949  1
2015 Duttke SH, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U. Human promoters are intrinsically directional. Molecular Cell. 57: 674-84. PMID 25639469 DOI: 10.1016/J.Molcel.2014.12.029  1
2015 Hah N, Benner C, Chong LW, Yu RT, Downes M, Evans RM. Inflammation-sensitive super enhancers form domains of coordinately regulated enhancer RNAs. Proceedings of the National Academy of Sciences of the United States of America. 112: E297-302. PMID 25564661 DOI: 10.1073/Pnas.1424028112  1
2015 Puto LA, Benner C, Hunter T. Abstract A1-02: Chip-Seq and RNA-Seq studies reveal novel insights into the interactive and transcriptomic architecture of the human prostate cancer Cancer Research. 75. DOI: 10.1158/1538-7445.Transcagen-A1-02  0.01
2014 Qian J, Wang Q, Dose M, Pruett N, Kieffer-Kwon KR, Resch W, Liang G, Tang Z, Mathé E, Benner C, Dubois W, Nelson S, Vian L, Oliveira TY, Jankovic M, et al. B cell super-enhancers and regulatory clusters recruit AID tumorigenic activity. Cell. 159: 1524-37. PMID 25483777 DOI: 10.1016/J.Cell.2014.11.013  1
2014 Kaikkonen MU, Niskanen H, Romanoski CE, Kansanen E, Kivelä AM, Laitalainen J, Heinz S, Benner C, Glass CK, Ylä-Herttuala S. Control of VEGF-A transcriptional programs by pausing and genomic compartmentalization. Nucleic Acids Research. 42: 12570-84. PMID 25352550 DOI: 10.1093/Nar/Gku1036  1
2014 Li X, Liang Y, LeBlanc M, Benner C, Zheng Y. Function of a Foxp3 cis-element in protecting regulatory T cell identity. Cell. 158: 734-48. PMID 25126782 DOI: 10.1016/J.Cell.2014.07.030  0.01
2014 Benner C, Meulen Tvd, Cacéres E, Tigyi K, Donaldson CJ, Huising MO. The transcriptional landscape of mouse beta cells compared to human beta cells reveals notable species differences in long non-coding RNA and protein-coding gene expression. Bmc Genomics. 15: 620-620. PMID 25051960 DOI: 10.1186/1471-2164-15-620  0.01
2014 Liu GH, Suzuki K, Li M, Qu J, Montserrat N, Tarantino C, Gu Y, Yi F, Xu X, Zhang W, Ruiz S, Plongthongkum N, Zhang K, Masuda S, Nivet E, ... ... Benner C, et al. Modelling Fanconi anemia pathogenesis and therapeutics using integration-free patient-derived iPSCs. Nature Communications. 5: 4330. PMID 24999918 DOI: 10.1038/Ncomms5330  1
2014 Suzuki K, Yu C, Qu J, Li M, Yao X, Yuan T, Goebl A, Tang S, Ren R, Aizawa E, Zhang F, Xu X, Soligalla RD, Chen F, Kim J, ... ... Benner C, et al. Targeted gene correction minimally impacts whole-genome mutational load in human-disease-specific induced pluripotent stem cell clones. Cell Stem Cell. 15: 31-6. PMID 24996168 DOI: 10.1016/J.Stem.2014.06.016  0.04
2014 Crotti A, Benner C, Kerman BE, Gosselin D, Lagier-Tourenne C, Zuccato C, Cattaneo E, Gage FH, Cleveland DW, Glass CK. Mutant Huntingtin promotes autonomous microglia activation via myeloid lineage-determining factors. Nature Neuroscience. 17: 513-21. PMID 24584051 DOI: 10.1038/Nn.3668  1
2014 Gu Y, Liu GH, Plongthongkum N, Benner C, Yi F, Qu J, Suzuki K, Yang J, Zhang W, Li M, Montserrat N, Crespo I, Del Sol A, Esteban CR, Zhang K, et al. Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes. Protein & Cell. 5: 59-68. PMID 24474197 DOI: 10.1007/S13238-013-0016-X  0.01
2013 Benner C, Konovalov S, Mackintosh C, Hutt KR, Stunnenberg R, Garcia-Bassets I. Decoding a signature-based model of transcription cofactor recruitment dictated by cardinal cis-regulatory elements in proximal promoter regions. Plos Genetics. 9: e1003906. PMID 24244184 DOI: 10.1371/Journal.Pgen.1003906  1
2013 Marchetto MC, Narvaiza I, Denli AM, Benner C, Lazzarini TA, Nathanson JL, Paquola AC, Desai KN, Herai RH, Weitzman MD, Yeo GW, Muotri AR, Gage FH. Differential L1 regulation in pluripotent stem cells of humans and apes. Nature. 503: 525-9. PMID 24153179 DOI: 10.1038/Nature12686  1
2013 Almenar-Queralt A, Kim SN, Benner C, Herrera CM, Kang DE, Garcia-Bassets I, Goldstein LS. Presenilins regulate neurotrypsin gene expression and neurotrypsin-dependent agrin cleavage via cyclic AMP response element-binding protein (CREB) modulation. The Journal of Biological Chemistry. 288: 35222-36. PMID 24145027 DOI: 10.1074/Jbc.M113.513705  1
2013 Heinz S, Romanoski CE, Benner C, Allison KA, Kaikkonen MU, Orozco LD, Glass CK. Effect of natural genetic variation on enhancer selection and function. Nature. 503: 487-92. PMID 24121437 DOI: 10.1038/Nature12615  1
2013 Kaikkonen MU, Spann NJ, Heinz S, Romanoski CE, Allison KA, Stender JD, Chun HB, Tough DF, Prinjha RK, Benner C, Glass CK. Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription. Molecular Cell. 51: 310-25. PMID 23932714 DOI: 10.1016/J.Molcel.2013.07.010  1
2013 Lam MT, Cho H, Lesch HP, Gosselin D, Heinz S, Tanaka-Oishi Y, Benner C, Kaikkonen MU, Kim AS, Kosaka M, Lee CY, Watt A, Grossman TR, Rosenfeld MG, Evans RM, et al. Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription. Nature. 498: 511-5. PMID 23728303 DOI: 10.1038/Nature12209  1
2013 Pham T, Minderjahn J, Schmidl C, Hoffmeister H, Schmidhofer S, Chen W, Längst G, Benner C, Rehli M. Mechanisms of in vivo binding site selection of the hematopoietic master transcription factor PU.1 Nucleic Acids Research. 41: 6391-6402. PMID 23658224 DOI: 10.1093/Nar/Gkt355  0.01
2012 Mansson R, Welinder E, Åhsberg J, Lin YC, Benner C, Glass CK, Lucas JS, Sigvardsson M, Murre C. Positive intergenic feedback circuitry, involving EBF1 and FOXO1, orchestrates B-cell fate. Proceedings of the National Academy of Sciences of the United States of America. 109: 21028-33. PMID 23213261 DOI: 10.1073/Pnas.1211427109  1
2012 Lin YC, Benner C, Mansson R, Heinz S, Miyazaki K, Miyazaki M, Chandra V, Bossen C, Glass CK, Murre C. Global changes in the nuclear positioning of genes and intra- and interdomain genomic interactions that orchestrate B cell fate. Nature Immunology. 13: 1196-204. PMID 23064439 DOI: 10.1038/Ni.2432  1
2012 Kisseleva T, Cong M, Paik Y, Scholten D, Jiang C, Benner C, Iwaisako K, Moore-Morris T, Scott B, Tsukamoto H, Evans SM, Dillmann W, Glass CK, Brenner DA. Myofibroblasts revert to an inactive phenotype during regression of liver fibrosis. Proceedings of the National Academy of Sciences of the United States of America. 109: 9448-53. PMID 22566629 DOI: 10.1073/Pnas.1201840109  1
2012 Pham T, Benner C, Lichtinger M, Schwarzfischer L, Hu Y, Andreesen R, Chen W, Rehli M. Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states Blood. 119. PMID 22550342 DOI: 10.1182/Blood-2012-01-402453  0.04
2011 Escoubet-Lozach L, Benner C, Kaikkonen MU, Lozach J, Heinz S, Spann NJ, Crotti A, Stender J, Ghisletti S, Reichart D, Cheng CS, Luna R, Ludka C, Sasik R, Garcia-Bassets I, et al. Mechanisms establishing TLR4-responsive activation states of inflammatory response genes. Plos Genetics. 7: e1002401. PMID 22174696 DOI: 10.1371/Journal.Pgen.1002401  1
2011 Mercer EM, Lin YC, Benner C, Jhunjhunwala S, Dutkowski J, Flores M, Sigvardsson M, Ideker T, Glass CK, Murre C. Multilineage priming of enhancer repertoires precedes commitment to the B and myeloid cell lineages in hematopoietic progenitors. Immunity. 35: 413-25. PMID 21903424 DOI: 10.1016/J.Immuni.2011.06.013  1
2011 Wang D, Garcia-Bassets I, Benner C, Li W, Su X, Zhou Y, Qiu J, Liu W, Kaikkonen MU, Ohgi KA, Glass CK, Rosenfeld MG, Fu XD. Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature. 474: 390-4. PMID 21572438 DOI: 10.1038/Nature10006  1
2011 Sullivan AL, Benner C, Heinz S, Huang W, Xie L, Miano JM, Glass CK. Serum response factor utilizes distinct promoter- and enhancer-based mechanisms to regulate cytoskeletal gene expression in macrophages. Molecular and Cellular Biology. 31: 861-75. PMID 21135125 DOI: 10.1128/Mcb.00836-10  1
2011 Garcia-Bassets I, Wang D, Benner C, Wenbo L, Su X, Glass CK, Rosenfeld MG, Fu X. Abstract 930: Reprogramming the transcriptional response to hormone through functionally-distinct classes of gene enhancers in prostate cancer cells Cancer Research. 71: 930-930. DOI: 10.1158/1538-7445.Am2011-930  0.08
2010 Barish GD, Yu RT, Karunasiri M, Ocampo CB, Dixon J, Benner C, Dent AL, Tangirala RK, Evans RM. Bcl-6 and NF-kappaB cistromes mediate opposing regulation of the innate immune response. Genes & Development. 24: 2760-5. PMID 21106671 DOI: 10.1101/Gad.1998010  1
2010 Liu W, Tanasa B, Tyurina OV, Zhou TY, Gassmann R, Liu WT, Ohgi KA, Benner C, Garcia-Bassets I, Aggarwal AK, Desai A, Dorrestein PC, Glass CK, Rosenfeld MG. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression. Nature. 466: 508-12. PMID 20622854 DOI: 10.1038/Nature09272  1
2010 Stender JD, Kim K, Charn TH, Komm B, Chang KC, Kraus WL, Benner C, Glass CK, Katzenellenbogen BS. Genome-wide analysis of estrogen receptor alpha DNA binding and tethering mechanisms identifies Runx1 as a novel tethering factor in receptor-mediated transcriptional activation. Molecular and Cellular Biology. 30: 3943-55. PMID 20547749 DOI: 10.1128/Mcb.00118-10  1
2010 Lin YC, Jhunjhunwala S, Benner C, Heinz S, Welinder E, Mansson R, Sigvardsson M, Hagman J, Espinoza CA, Dutkowski J, Ideker T, Glass CK, Murre C. A global network of transcription factors, involving E2A, EBF1 and Foxo1, that orchestrates B cell fate. Nature Immunology. 11: 635-43. PMID 20543837 DOI: 10.1038/Ni.1891  1
2010 Heinz S, Benner C, Spann N, Bertolino E, Lin YC, Laslo P, Cheng JX, Murre C, Singh H, Glass CK. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Molecular Cell. 38: 576-89. PMID 20513432 DOI: 10.1016/J.Molcel.2010.05.004  1
2010 Wiesner P, Choi SH, Almazan F, Benner C, Huang W, Diehl CJ, Gonen A, Butler S, Witztum JL, Glass CK, Miller YI. Low doses of lipopolysaccharide and minimally oxidized low-density lipoprotein cooperatively activate macrophages via nuclear factor kappa B and activator protein-1: possible mechanism for acceleration of atherosclerosis by subclinical endotoxemia. Circulation Research. 107: 56-65. PMID 20489162 DOI: 10.1161/Circresaha.110.218420  1
2010 Gebhard C, Benner C, Ehrich M, Schwarzfischer L, Schilling E, Klug M, Dietmaier W, Thiede C, Holler E, Andreesen R, Rehli M. General Transcription Factor Binding at CpG Islands in Normal Cells Correlates with Resistance to De novo DNA Methylation in Cancer Cells Cancer Research. 70: 1398-1407. PMID 20145141 DOI: 10.1158/0008-5472.Can-09-3406  0.01
2010 Chartouni CE, Benner C, Eigner M, Lichtinger M, Rehli M. Transcriptional effects of colony-stimulating factor-1 in mouse macrophages. Immunobiology. 215: 466-474. PMID 19758725 DOI: 10.1016/J.Imbio.2009.08.002  0.04
2010 Pham T, Lichtinger M, Benner C, Pape S, Schwarzfischer L, Klug M, Gogol-Doering A, Hu Y, Andreesen R, Chen W, Rehli M. Genome-Wide Profiling of Epigenetic and Transcription Factor Regulation In Human Macrophage Differentiation Blood. 116: 3875-3875. DOI: 10.1182/Blood.V116.21.3875.3875  0.01
2009 Ghisletti S, Huang W, Jepsen K, Benner C, Hardiman G, Rosenfeld MG, Glass CK. Cooperative NCoR/SMRT interactions establish a corepressor-based strategy for integration of inflammatory and anti-inflammatory signaling pathways. Genes & Development. 23: 681-93. PMID 19299558 DOI: 10.1101/Gad.1773109  1
2008 Young JA, Johnson JR, Benner C, Yan SF, Chen K, Le Roch KG, Zhou Y, Winzeler EA. In silico discovery of transcription regulatory elements in Plasmodium falciparum. Bmc Genomics. 9: 70. PMID 18257930 DOI: 10.1186/1471-2164-9-70  0.01
2007 Maurya MR, Benner C, Pradervand S, Glass C, Subramaniam S. Systems biology of macrophages. Advances in Experimental Medicine and Biology. 598: 62-79. PMID 17892205 DOI: 10.1007/978-0-387-71767-8_6  0.28
2007 Hevener AL, Olefsky JM, Reichart D, Nguyen MT, Bandyopadyhay G, Leung HY, Watt MJ, Benner C, Febbraio MA, Nguyen AK, Folian B, Subramaniam S, Gonzalez FJ, Glass CK, Ricote M. Macrophage PPAR gamma is required for normal skeletal muscle and hepatic insulin sensitivity and full antidiabetic effects of thiazolidinediones. The Journal of Clinical Investigation. 117: 1658-69. PMID 17525798 DOI: 10.1172/Jci31561  1
2007 Kwon YS, Garcia-Bassets I, Hutt KR, Cheng CS, Jin M, Liu D, Benner C, Wang D, Ye Z, Bibikova M, Fan JB, Duan L, Glass CK, Rosenfeld MG, Fu XD. Sensitive ChIP-DSL technology reveals an extensive estrogen receptor alpha-binding program on human gene promoters. Proceedings of the National Academy of Sciences of the United States of America. 104: 4852-7. PMID 17360330 DOI: 10.1073/Pnas.0700715104  1
2006 Raetz CR, Garrett TA, Reynolds CM, Shaw WA, Moore JD, Smith DC, Ribeiro AA, Murphy RC, Ulevitch RJ, Fearns C, Reichart D, Glass CK, Benner C, Subramaniam S, Harkewicz R, et al. Kdo2-Lipid A of Escherichia coli, a defined endotoxin that activates macrophages via TLR-4. Journal of Lipid Research. 47: 1097-111. PMID 16479018 DOI: 10.1194/Jlr.M600027-Jlr200  1
2005 Ogawa S, Lozach J, Benner C, Pascual G, Tangirala RK, Westin S, Hoffmann A, Subramaniam S, David M, Rosenfeld MG, Glass CK. Molecular determinants of crosstalk between nuclear receptors and toll-like receptors. Cell. 122: 707-21. PMID 16143103 DOI: 10.1016/J.Cell.2005.06.029  1
2004 Barrera L, Benner C, Tao YC, Winzeler E, Zhou Y. Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays. Bmc Bioinformatics. 5: 42. PMID 15099405 DOI: 10.1186/1471-2105-5-42  0.01
1987 Gajewski JJ, Benner CW, Hawkins CM. Kinetics and stereochemistry of the thermal interconversion of 4,5-dimethyl-2,6-octadienes Journal of Organic Chemistry. 52: 5198-5204.  1
1982 Gajewski JJ, Benner CW, Stahlly BN, Hall RF, Sato RI. Cross-conjugated biradicals. Kinetics and kinetic isotope effects in the thermal isomerizations of cis- and trans-2,3-dimethylemethylnecyclopropane, cis- and trans-3,4-dimethyl-1,2-dimethylenecyclobutane, and of 1,2,8,9-decatetraene Tetrahedron. 38: 853-862. DOI: 10.1016/0040-4020(82)80166-X  1
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