| Year |
Citation |
Score |
| 2023 |
Lam MTY, Duttke SH, Odish MF, Le HD, Hansen EA, Nguyen CT, Trescott S, Kim R, Deota S, Chang MW, Patel A, Hepokoski M, Alotaibi M, Rolfsen M, Perofsky K, ... ... Benner CW, et al. Dynamic activity in cis-regulatory elements of leukocytes identifies transcription factor activation and stratifies COVID-19 severity in ICU patients. Cell Reports. Medicine. 100935. PMID 36758547 DOI: 10.1016/j.xcrm.2023.100935 |
0.312 |
|
| 2022 |
Yuan B, Zhou X, Suzuki K, Ramos-Mandujano G, Wang M, Tehseen M, Cortés-Medina LV, Moresco JJ, Dunn S, Hernandez-Benitez R, Hishida T, Kim NY, Andijani MM, Bi C, Ku M, ... ... Benner C, et al. Wiskott-Aldrich syndrome protein forms nuclear condensates and regulates alternative splicing. Nature Communications. 13: 3646. PMID 35752626 DOI: 10.1038/s41467-022-31220-8 |
0.321 |
|
| 2022 |
Duttke SH, Beyhan S, Singh R, Neal S, Viriyakosol S, Fierer J, Kirkland TN, Stajich JE, Benner C, Carlin AF. Decoding Transcription Regulatory Mechanisms Associated with Phase Transition Using Total RNA. Msystems. e0140421. PMID 35076277 DOI: 10.1128/msystems.01404-21 |
0.333 |
|
| 2021 |
Shamie I, Duttke SH, Karottki KJC, Han CZ, Hansen AH, Hefzi H, Xiong K, Li S, Roth SJ, Tao J, Lee GM, Glass CK, Kildegaard HF, Benner C, Lewis NE. A Chinese hamster transcription start site atlas that enables targeted editing of CHO cells. Nar Genomics and Bioinformatics. 3: lqab061. PMID 34268494 DOI: 10.1093/nargab/lqab061 |
0.31 |
|
| 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 |
0.365 |
|
| 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 |
0.344 |
|
| 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 |
0.373 |
|
| 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 |
0.346 |
|
| 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 |
0.319 |
|
| 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 |
0.428 |
|
| 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 |
0.401 |
|
| 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 |
0.404 |
|
| 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 |
0.308 |
|
| 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 |
0.328 |
|
| 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 |
0.31 |
|
| 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 |
0.408 |
|
| 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 |
0.333 |
|
| 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 |
0.362 |
|
| 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 |
0.354 |
|
| 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 |
0.338 |
|
| 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 |
0.358 |
|
| 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 |
0.419 |
|
| 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 |
0.372 |
|
| 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 |
0.383 |
|
| 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 |
0.453 |
|
| 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 |
0.688 |
|
| 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 |
0.431 |
|
| 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 |
0.304 |
|
| 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 |
0.378 |
|
| 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 |
0.408 |
|
| 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 |
0.386 |
|
| 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 |
0.455 |
|
| 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 |
0.433 |
|
| 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 |
0.354 |
|
| 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 |
0.333 |
|
| 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 |
0.455 |
|
| 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 |
0.387 |
|
| 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 |
0.38 |
|
| 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 |
0.398 |
|
| 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 |
0.423 |
|
| 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 |
0.309 |
|
| 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 |
0.423 |
|
| 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 |
0.308 |
|
| 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 |
0.379 |
|
| 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 |
0.335 |
|
| 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 |
0.359 |
|
| 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 |
0.381 |
|
| 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 |
0.322 |
|
| 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 |
0.449 |
|
| 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 |
0.422 |
|
| 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 |
0.485 |
|
| 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 |
0.425 |
|
| 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 |
0.386 |
|
| 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 |
0.406 |
|
| 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 |
0.385 |
|
| 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 |
0.322 |
|
| 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 |
0.321 |
|
| 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 |
0.354 |
|
| 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 |
0.408 |
|
| 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 |
0.404 |
|
| 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 |
0.411 |
|
| 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 |
0.34 |
|
| 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 |
0.443 |
|
| 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 |
0.408 |
|
| 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 |
0.456 |
|
| 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 |
0.48 |
|
| 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 |
0.337 |
|
| 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 |
0.436 |
|
| 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 |
0.405 |
|
| 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 |
0.417 |
|
| 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 |
0.601 |
|
| 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 |
0.411 |
|
| 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 |
0.484 |
|
| 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 |
0.463 |
|
| 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 |
0.451 |
|
| 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 |
0.396 |
|
| 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 |
0.356 |
|
| 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 |
0.393 |
|
| 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 |
0.403 |
|
| 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 |
0.474 |
|
| 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 |
0.346 |
|
| 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 |
0.425 |
|
| 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 |
0.443 |
|
| 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 |
0.371 |
|
| 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 |
0.387 |
|
| 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 |
0.524 |
|
| 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 |
0.449 |
|
| 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 |
0.419 |
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| 2007 |
Buczynski MW, Stephens D, Bowers‐Gentry RC, Deems R, Benner C, Glass CK, Dennis EA. Multiple agonist induced changes in eicosanoid metabolites correlated with gene expression in macrophages The Faseb Journal. 21. DOI: 10.1096/Fasebj.21.5.A606-C |
0.318 |
|
| 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 |
0.47 |
|
| 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 |
0.558 |
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