| Year |
Citation |
Score |
| 2024 |
Song Y, Li F, Wang S, Wang Y, Lai C, Chen L, Jiang N, Li J, Chen X, Bailey SD, Zhang X. Chromatin interaction maps identify oncogenic targets of enhancer duplications in cancer. Genome Research. PMID 39424324 DOI: 10.1101/gr.278418.123 |
0.718 |
|
| 2024 |
Mortenson KL, Dawes C, Wilson ER, Patchen NE, Johnson HE, Gertz J, Bailey SD, Liu Y, Varley KE, Zhang X. 3D genomic analysis reveals novel enhancer-hijacking caused by complex structural alterations that drive oncogene overexpression. Nature Communications. 15: 6130. PMID 39033128 DOI: 10.1038/s41467-024-50387-w |
0.691 |
|
| 2024 |
Abewe H, Richey A, Vahrenkamp JM, Ginley-Hidinger M, Rush CM, Kitchen N, Zhang X, Gertz J. Estrogen-induced chromatin looping changes identify a subset of functional regulatory elements. Biorxiv : the Preprint Server For Biology. PMID 38915540 DOI: 10.1101/2024.06.12.598690 |
0.347 |
|
| 2024 |
Gnanapragasam A, Kirbizakis E, Li A, White KH, Mortenson KL, Cavalcante de Moura J, Jawhar W, Yan Y, Falter R, Russett C, Giannias B, Camilleri-Broët S, Bertos N, Cools-Lartigue J, Garzia L, ... ... Zhang X, et al. HiChIP-based Epigenomic Footprinting Identifies a Promoter Variant of UXS1 that Confers Genetic Susceptibility to Gastroesophageal Cancer. Cancer Research. PMID 38748784 DOI: 10.1158/0008-5472.CAN-23-2397 |
0.721 |
|
| 2024 |
Mortenson KL, Dawes C, Wilson ER, Patchen N, Johnson HE, Gertz J, Bailey SD, Liu Y, Varley KE, Zhang X. 3D genomic analysis reveals novel enhancer-hijacking caused by complex structural alterations that drive oncogene overexpression. Biorxiv : the Preprint Server For Biology. PMID 38328209 DOI: 10.1101/2024.01.23.576965 |
0.678 |
|
| 2024 |
Pozner A, Li L, Verma SP, Wang S, Barrott JJ, Nelson ML, Yu JSE, Negri GL, Colborne S, Hughes CS, Zhu JF, Lambert SL, Carroll LS, Smith-Fry K, Stewart MG, ... ... Zhang X, et al. ASPSCR1-TFE3 reprograms transcription by organizing enhancer loops around hexameric VCP/p97. Nature Communications. 15: 1165. PMID 38326311 DOI: 10.1038/s41467-024-45280-5 |
0.329 |
|
| 2023 |
Pozner A, Verma SP, Li L, Wang S, Barrott JJ, Nelson ML, Yu JSE, Negri GL, Colborne S, Hughes CS, Zhu JF, Lambert SL, Carroll LS, Smith-Fry K, Stewart MG, ... ... Zhang X, et al. ASPSCR1-TFE3 reprograms transcription by organizing enhancer loops around hexameric VCP/p97. Biorxiv : the Preprint Server For Biology. PMID 37873234 DOI: 10.1101/2023.09.29.560242 |
0.327 |
|
| 2023 |
Wu G, Yoshida N, Liu J, Zhang X, Xiong Y, Heavican-Foral TB, Mandato E, Liu H, Nelson GM, Yang L, Chen R, Donovan KA, Jones MK, Roshal M, Zhang Y, et al. TP63 fusions drive multicomplex enhancer rewiring, lymphomagenesis, and EZH2 dependence. Science Translational Medicine. 15: eadi7244. PMID 37729434 DOI: 10.1126/scitranslmed.adi7244 |
0.454 |
|
| 2023 |
Zhao Z, Chen Y, Cheng X, Huang L, Wen H, Xu Q, Zhou X, Zhang X, Chen J, Ni T. The landscape of cryptic antisense transcription in human cancers reveals an oncogenic noncoding RNA in lung cancer. Science Advances. 9: eadf3264. PMID 37018400 DOI: 10.1126/sciadv.adf3264 |
0.317 |
|
| 2022 |
Chu Z, Gu L, Hu Y, Zhang X, Li M, Chen J, Teng D, Huang M, Shen CH, Cai L, Yoshida T, Qi Y, Niu Z, Feng A, Geng S, et al. STAG2 regulates interferon signaling in melanoma via enhancer loop reprogramming. Nature Communications. 13: 1859. PMID 35388001 DOI: 10.1038/s41467-022-29541-9 |
0.316 |
|
| 2021 |
Liu Y, Wu Z, Zhou J, Ramadurai DKA, Mortenson KL, Aguilera-Jimenez E, Yan Y, Yang X, Taylor AM, Varley KE, Gertz J, Choi PS, Cherniack AD, Chen X, Bass AJ, ... ... Zhang X, et al. A predominant enhancer co-amplified with the SOX2 oncogene is necessary and sufficient for its expression in squamous cancer. Nature Communications. 12: 7139. PMID 34880227 DOI: 10.1038/s41467-021-27055-4 |
0.67 |
|
| 2021 |
Llabata P, Torres-Diz M, Gomez A, Tomas-Daza L, Romero OA, Grego-Bessa J, Llinas-Arias P, Valencia A, Esteller M, Javierre BM, Zhang X, Sanchez-Cespedes M. MAX mutant small-cell lung cancers exhibit impaired activities of MGA-dependent noncanonical polycomb repressive complex. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34493659 DOI: 10.1073/pnas.2024824118 |
0.328 |
|
| 2021 |
Pozo K, Kollipara RK, Kelenis DP, Rodarte KE, Ullrich MS, Zhang X, Minna JD, Johnson JE. ASCL1, NKX2-1, and PROX1 co-regulate subtype-specific genes in small-cell lung cancer. Iscience. 24: 102953. PMID 34466783 DOI: 10.1016/j.isci.2021.102953 |
0.313 |
|
| 2021 |
Wu Z, Zhou J, Zhang X, Zhang Z, Xie Y, Liu JB, Ho ZV, Panda A, Qiu X, Cejas P, Cañadas I, Akarca FG, McFarland JM, Nagaraja AK, Goss LB, et al. Reprogramming of the esophageal squamous carcinoma epigenome by SOX2 promotes ADAR1 dependence. Nature Genetics. PMID 33972779 DOI: 10.1038/s41588-021-00859-2 |
0.479 |
|
| 2020 |
Zhang X, Meyerson M. Illuminating the noncoding genome in cancer. Nature Cancer. 1: 864-872. PMID 35121955 DOI: 10.1038/s43018-020-00114-3 |
0.348 |
|
| 2020 |
Liu Y, Guo B, Aguilera-Jimenez E, Chu VS, Zhou J, Wu Z, Francis JM, Yang X, Choi PS, Bailey SD, Zhang X. Chromatin Looping Shapes KLF5-dependent Transcriptional Programs in Human Epithelial Cancers. Cancer Research. PMID 33115806 DOI: 10.1158/0008-5472.CAN-20-1287 |
0.698 |
|
| 2020 |
Molyneux SD, Waterhouse PD, Shelton D, Shao YW, Watling CM, Tang QL, Harris IS, Dickson BC, Tharmapalan P, Sandve GK, Zhang X, Bailey SD, Berman H, Wunder JS, Izsvák Z, et al. Author Correction: Human somatic cell mutagenesis creates genetically tractable sarcomas. Nature Genetics. PMID 32094913 DOI: 10.1038/S41588-020-0589-2 |
0.702 |
|
| 2019 |
Llabata P, Mitsuishi Y, Choi PS, Cai D, Francis JM, Torres-Diz M, Udeshi ND, Golomb L, Wu Z, Zhou J, Svinkina T, Aguilera-Jimenez E, Liu Y, Carr SA, Sanchez-Cespedes M, ... ... Zhang X, et al. Multi-Omics analysis identifies MGA as a negative regulator of the MYC pathway in lung adenocarcinoma. Molecular Cancer Research : McR. PMID 31862696 DOI: 10.1158/1541-7786.Mcr-19-0657 |
0.415 |
|
| 2019 |
Taylor A, Shih J, Ha G, Gao G, Zhang X, Berger A, Cherniack A, Beroukhim R, Meyerson M. MS12.02 Genomic and Functional Approaches to Understanding Cancer Aneuploidy Journal of Thoracic Oncology. 14: S179. DOI: 10.1016/J.Jtho.2019.08.355 |
0.338 |
|
| 2018 |
Bailey SD, Zhang X, Desai K, Aid M, Corradin O, Cowper-Sal Lari R, Akhtar-Zaidi B, Scacheri PC, Haibe-Kains B, Lupien M. Publisher Correction: ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters. Nature Communications. 9: 16194. PMID 29633758 DOI: 10.1038/Ncomms16194 |
0.721 |
|
| 2018 |
Taylor AM, Shih J, Ha G, Gao GF, Zhang X, Berger AC, Schumacher SE, Wang C, Hu H, Liu J, Lazar AJ, Cherniack AD, Beroukhim R, Meyerson M. Genomic and Functional Approaches to Understanding Cancer Aneuploidy. Cancer Cell. PMID 29622463 DOI: 10.1016/J.Ccell.2018.03.007 |
0.395 |
|
| 2018 |
Schaub FX, Dhankani V, Berger AC, Trivedi M, Richardson AB, Shaw R, Zhao W, Zhang X, Ventura A, Liu Y, Ayer DE, Hurlin PJ, Cherniack AD, Eisenman RN, Bernard B, et al. Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas. Cell Systems. 6: 282-300.e2. PMID 29596783 DOI: 10.1016/J.Cels.2018.03.003 |
0.428 |
|
| 2018 |
Taylor AM, Zhang X, Shih J, Ha G, Gao GF, Berger AC, Cherniack AD, Beroukhim R, Meyerson M. Abstract 3002: Genome engineering approaches to generate models of chromosome arm-level cancer aneuploidy Cancer Research. 78: 3002-3002. DOI: 10.1158/1538-7445.Am2018-3002 |
0.349 |
|
| 2017 |
Bullman S, Pedamallu CS, Sicinska E, Clancy TE, Zhang X, Cai D, Neuberg D, Huang K, Guevara F, Nelson T, Chipashvili O, Hagan T, Walker M, Ramachandran A, Diosdado B, et al. Analysis of Fusobacterium persistence and antibiotic response in colorectal cancer. Science (New York, N.Y.). PMID 29170280 DOI: 10.1126/Science.Aal5240 |
0.337 |
|
| 2017 |
Zhang X, Choi PS, Francis JM, Gao GF, Campbell JD, Ramachandran A, Mitsuishi Y, Ha G, Shih J, Vazquez F, Tsherniak A, Taylor AM, Zhou J, Wu Z, Berger AC, et al. Somatic super-enhancer duplications and hotspot mutations lead to oncogenic activation of the KLF5 transcription factor. Cancer Discovery. PMID 28963353 DOI: 10.1158/2159-8290.Cd-17-0532 |
0.464 |
|
| 2017 |
Taylor A, Gavin H, Shih J, Zhang X, Campbell J, Andrew C, Meyerson M. Genome Engineering to Generate Models of Chromosome Arm-Level Aneuploidies in Lung Cancer Journal of Thoracic Oncology. 12: S1545. DOI: 10.1016/J.Jtho.2017.06.057 |
0.312 |
|
| 2016 |
Beroukhim R, Zhang X, Meyerson M. Copy number alterations unmasked as enhancer hijackers. Nature Genetics. 49: 5-6. PMID 28029156 DOI: 10.1038/Ng.3754 |
0.366 |
|
| 2015 |
Zhang X, Choi PS, Francis JM, Imielinski M, Watanabe H, Cherniack AD, Meyerson M. Identification of focally amplified lineage-specific super-enhancers in human epithelial cancers. Nature Genetics. PMID 26656844 DOI: 10.1038/Ng.3470 |
0.488 |
|
| 2015 |
Bailey SD, Zhang X, Desai K, Aid M, Corradin O, Cowper-Sal Lari R, Akhtar-Zaidi B, Scacheri PC, Haibe-Kains B, Lupien M. ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters. Nature Communications. 2: 6186. PMID 25645053 DOI: 10.1038/Ncomms7186 |
0.738 |
|
| 2015 |
Zhang X, Francis J, Lin C, Rahl P, Bradner J, Young R. Abstract A38: The role of MGA loss-of-function mutations in lung adenocarcinomas Molecular Cancer Research. 13. DOI: 10.1158/1557-3125.Myc15-A38 |
0.338 |
|
| 2014 |
Molyneux SD, Waterhouse PD, Shelton D, Shao YW, Watling CM, Tang QL, Harris IS, Dickson BC, Tharmapalan P, Sandve GK, Zhang X, Bailey SD, Berman H, Wunder JS, Izsvák Z, et al. Human somatic cell mutagenesis creates genetically tractable sarcomas. Nature Genetics. 46: 964-72. PMID 25129143 DOI: 10.1038/Ng.3065 |
0.744 |
|
| 2014 |
Zhang X, Bailey SD, Lupien M. Laying a solid foundation for Manhattan--'setting the functional basis for the post-GWAS era'. Trends in Genetics : Tig. 30: 140-9. PMID 24661571 DOI: 10.1016/J.Tig.2014.02.006 |
0.743 |
|
| 2014 |
Molyneux SD, Waterhouse PD, Shelton D, Shao YW, Watling CM, Tang Q, Harris IS, Dickson BC, Tharmapalan P, Sandve GK, Zhang X, Bailey SD, Berman H, Wunder JS, Iszvak Z, et al. Erratum: Corrigendum: Human somatic cell mutagenesis creates genetically tractable sarcomas Nature Genetics. 46: 1372-1372. DOI: 10.1038/Ng1214-1372 |
0.703 |
|
| 2013 |
Grant GD, Brooks L, Zhang X, Mahoney JM, Martyanov V, Wood TA, Sherlock G, Cheng C, Whitfield ML. Identification of cell cycle-regulated genes periodically expressed in U2OS cells and their regulation by FOXM1 and E2F transcription factors. Molecular Biology of the Cell. 24: 3634-50. PMID 24109597 DOI: 10.1091/Mbc.E13-05-0264 |
0.397 |
|
| 2013 |
Magnani L, Stoeck A, Zhang X, Lánczky A, Mirabella AC, Wang TL, Gyorffy B, Lupien M. Genome-wide reprogramming of the chromatin landscape underlies endocrine therapy resistance in breast cancer. Proceedings of the National Academy of Sciences of the United States of America. 110: E1490-9. PMID 23576735 DOI: 10.1073/Pnas.1219992110 |
0.671 |
|
| 2012 |
Cowper-Sal lari R, Zhang X, Wright JB, Bailey SD, Cole MD, Eeckhoute J, Moore JH, Lupien M. Breast cancer risk-associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression. Nature Genetics. 44: 1191-8. PMID 23001124 DOI: 10.1038/Ng.2416 |
0.754 |
|
| 2012 |
Zhang X, Cowper-Sal lari R, Bailey SD, Moore JH, Lupien M. Integrative functional genomics identifies an enhancer looping to the SOX9 gene disrupted by the 17q24.3 prostate cancer risk locus. Genome Research. 22: 1437-46. PMID 22665440 DOI: 10.1101/Gr.135665.111 |
0.741 |
|
| 2011 |
Magnani L, Ballantyne EB, Zhang X, Lupien M. PBX1 genomic pioneer function drives ERα signaling underlying progression in breast cancer. Plos Genetics. 7: e1002368. PMID 22125492 DOI: 10.1371/Journal.Pgen.1002368 |
0.689 |
|
| 2010 |
Lupien M, Meyer CA, Bailey ST, Eeckhoute J, Cook J, Westerling T, Zhang X, Carroll JS, Rhodes DR, Liu XS, Brown M. Growth factor stimulation induces a distinct ER(alpha) cistrome underlying breast cancer endocrine resistance. Genes & Development. 24: 2219-27. PMID 20889718 DOI: 10.1101/Gad.1944810 |
0.661 |
|
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