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1 | CenhANCER: a comprehensive cancer enhancer database for primary tissues and cell lines. (Luo ZH, Shi MW, Zhang Y, Wang DY, Tong YB, Pan XL, Cheng S) Database (Oxford) 2023 May 18;2023 1 Citation |
1 | Critical Role for the Human Cytomegalovirus Major Immediate Early Proteins in Recruitment of RNA Polymerase II and H3K27Ac To an Enhancer-Like Element in OriLyt. (Forte E, Li M, Ayaloglu Butun F, Hu Q, Borst EM, Schipma MJ, Piunti A, Shilatifard A, Terhune SS, Abecassis M, Meier JL, Hummel M) Microbiol Spectr 2023 Feb 14;11(1):e0314422 |
1 | G9a Modulates Lipid Metabolism in CD4 T Cells to Regulate Intestinal Inflammation. (Ramos GP, Bamidele AO, Klatt EE, Sagstetter MR, Kurdi AT, Hamdan FH, Kosinsky RL, Gaballa JM, Nair A, Sun Z, Dasari S, Lanza IR, Rozeveld CN, Schott MB, Urrutia G, Westphal MS, Clarkson BD, Howe CL, Marietta EV, Luckey DH, Murray JA, Gonzalez M, Braga Neto MB, Gibbons HR, Smyrk TC, Johnsen S, Lomberk G, Faubion WA) Gastroenterology 2023 Feb;164(2):256-271.e10 6 Citations |
3 | Selective and Cell-Active PBRM1 Bromodomain Inhibitors Discovered through NMR Fragment Screening. (Shishodia S, Nuñez R, Strohmier BP, Bursch KL, Goetz CJ, Olp MD, Jensen DR, Fenske TG, Ordonez-Rubiano SC, Blau ME, Roach MK, Peterson FC, Volkman BF, Dykhuizen EC, Smith BC) J Med Chem 2022 Oct 27;65(20):13714-13735 7 Citations |
1 | Group 3 innate lymphoid cells require BATF to regulate gut homeostasis in mice. (Wu X, Khatun A, Kasmani MY, Chen Y, Zheng S, Atkinson S, Nguyen C, Burns R, Taparowsky EJ, Salzman NH, Hand TW, Cui W) J Exp Med 2022 Nov 07;219(11) 10 Citations |
1 | HiCImpute: A Bayesian hierarchical model for identifying structural zeros and enhancing single cell Hi-C data. (Xie Q, Han C, Jin V, Lin S) PLoS Comput Biol 2022 Jun;18(6):e1010129 3 Citations |
1 | Combination of the modulators of epigenetic machinery and specific cell signaling pathways as a promising approach for cell reprogramming. (Alexanian AR) Mol Cell Biochem 2022 Oct;477(10):2309-2317 |
1 | Single-Cell Transcriptomic and Epigenetic Analyses of Mouse Mammary Development Starting with the Embryo. (Ma Z, Lytle NK, Ramos C, Naeem RF, Wahl GM) Methods Mol Biol 2022;2471:49-82 |
2 | Histone H3 and H4 tails play an important role in nucleosome phase separation. (Hammonds EF, Harwig MC, Paintsil EA, Tillison EA, Hill RB, Morrison EA) Biophys Chem 2022 Apr;283:106767 3 Citations |
3 | KrasG12D induces changes in chromatin territories that differentially impact early nuclear reprogramming in pancreatic cells. (Mathison AJ, Kerketta R, de Assuncao TM, Leverence E, Zeighami A, Urrutia G, Stodola TJ, di Magliano MP, Iovanna JL, Zimmermann MT, Lomberk G, Urrutia R) Genome Biol 2021 Oct 14;22(1):289 5 Citations |
1 | SMARCA4: Implications of an Altered Chromatin-Remodeling Gene for Cancer Development and Therapy. (Mardinian K, Adashek JJ, Botta GP, Kato S, Kurzrock R) Mol Cancer Ther 2021 Dec;20(12):2341-2351 49 Citations |
1 | Hi-C profiling of cancer spheroids identifies 3D-growth-specific chromatin interactions in breast cancer endocrine resistance. (Li J, Fang K, Choppavarapu L, Yang K, Yang Y, Wang J, Cao R, Jatoi I, Jin VX) Clin Epigenetics 2021 Sep 17;13(1):175 8 Citations |
3 | Constrained chromatin accessibility in PU.1-mutated agammaglobulinemia patients. (Le Coz C, Nguyen DN, Su C, Nolan BE, Albrecht AV, Xhani S, Sun D, Demaree B, Pillarisetti P, Khanna C, Wright F, Chen PA, Yoon S, Stiegler AL, Maurer K, Garifallou JP, Rymaszewski A, Kroft SH, Olson TS, Seif AE, Wertheim G, Grant SFA, Vo LT, Puck JM, Sullivan KE, Routes JM, Zakharova V, Shcherbina A, Mukhina A, Rudy NL, Hurst ACE, Atkinson TP, Boggon TJ, Hakonarson H, Abate AR, Hajjar J, Nicholas SK, Lupski JR, Verbsky J, Chinn IK, Gonzalez MV, Wells AD, Marson A, Poon GMK, Romberg N) J Exp Med 2021 Jul 05;218(7) 22 Citations |
1 | E2A-regulated epigenetic landscape promotes memory CD8 T cell differentiation. (Schauder DM, Shen J, Chen Y, Kasmani MY, Kudek MR, Burns R, Cui W) Proc Natl Acad Sci U S A 2021 Apr 20;118(16) 15 Citations |
1 | Nucleosome composition regulates the histone H3 tail conformational ensemble and accessibility. (Morrison EA, Baweja L, Poirier MG, Wereszczynski J, Musselman CA) Nucleic Acids Res 2021 May 07;49(8):4750-4767 25 Citations |
1 | A cohesive look at leukemogenesis: The cohesin complex and other driving mutations in AML. (Heimbruch KE, Meyer AE, Agrawal P, Viny AD, Rao S) Neoplasia 2021 Mar;23(3):337-347 10 Citations |
1 | Mutation-specific pathophysiological mechanisms define different neurodevelopmental disorders associated with SATB1 dysfunction. (den Hoed J, de Boer E, Voisin N, Dingemans AJM, Guex N, Wiel L, Nellaker C, Amudhavalli SM, Banka S, Bena FS, Ben-Zeev B, Bonagura VR, Bruel AL, Brunet T, Brunner HG, Chew HB, Chrast J, Cimbalistienė L, Coon H, DDD Study, Délot EC, Démurger F, Denommé-Pichon AS, Depienne C, Donnai D, Dyment DA, Elpeleg O, Faivre L, Gilissen C, Granger L, Haber B, Hachiya Y, Abedi YH, Hanebeck J, Hehir-Kwa JY, Horist B, Itai T, Jackson A, Jewell R, Jones KL, Joss S, Kashii H, Kato M, Kattentidt-Mouravieva AA, Kok F, Kotzaeridou U, Krishnamurthy V, Kučinskas V, Kuechler A, Lavillaureix A, Liu P, Manwaring L, Matsumoto N, Mazel B, McWalter K, Meiner V, Mikati MA, Miyatake S, Mizuguchi T, Moey LH, Mohammed S, Mor-Shaked H, Mountford H, Newbury-Ecob R, Odent S, Orec L, Osmond M, Palculict TB, Parker M, Petersen AK, Pfundt R, Preikšaitienė E, Radtke K, Ranza E, Rosenfeld JA, Santiago-Sim T, Schwager C, Sinnema M, Snijders Blok L, Spillmann RC, Stegmann APA, Thiffault I, Tran L, Vaknin-Dembinsky A, Vedovato-Dos-Santos JH, Schrier Vergano SA, Vilain E, Vitobello A, Wagner M, Waheeb A, Willing M, Zuccarelli B, Kini U, Newbury DF, Kleefstra T, Reymond A, Fisher SE, Vissers LELM) Am J Hum Genet 2021 Feb 04;108(2):346-356 23 Citations |
1 | Modeling and analysis of Hi-C data by HiSIF identifies characteristic promoter-distal loops. (Zhou Y, Cheng X, Yang Y, Li T, Li J, Huang TH, Wang J, Lin S, Jin VX) Genome Med 2020 Aug 12;12(1):69 6 Citations |
1 | Determinants and role of chromatin organization in acute leukemia. (Fang C, Rao S, Crispino JD, Ntziachristos P) Leukemia 2020 Oct;34(10):2561-2575 12 Citations |
1 | Discovering How Heme Controls Genome Function Through Heme-omics. (Liao R, Zheng Y, Liu X, Zhang Y, Seim G, Tanimura N, Wilson GM, Hematti P, Coon JJ, Fan J, Xu J, Keles S, Bresnick EH) Cell Rep 2020 Jun 30;31(13):107832 16 Citations |
1 | Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. (Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group, PCAWG Consortium) Nat Genet 2020 Mar;52(3):294-305 139 Citations |
1 | Nup93 regulates breast tumor growth by modulating cell proliferation and actin cytoskeleton remodeling. (Bersini S, Lytle NK, Schulte R, Huang L, Wahl GM, Hetzer MW) Life Sci Alliance 2020 Jan;3(1) 31 Citations |
2 | Regeneration Rosetta: An Interactive Web Application To Explore Regeneration-Associated Gene Expression and Chromatin Accessibility. (Rau A, Dhara SP, Udvadia AJ, Auer PL) G3 (Bethesda) 2019 Dec 03;9(12):3953-3959 2 Citations |
1 | BRCA1 mutations attenuate super-enhancer function and chromatin looping in haploinsufficient human breast epithelial cells. (Zhang X, Wang Y, Chiang HC, Hsieh YP, Lu C, Park BH, Jatoi I, Jin VX, Hu Y, Li R) Breast Cancer Res 2019 Apr 17;21(1):51 14 Citations |
1 | Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance. (Zhou Y, Gerrard DL, Wang J, Li T, Yang Y, Fritz AJ, Rajendran M, Fu X, Stein G, Schiff R, Lin S, Frietze S, Jin VX) Nat Commun 2019 Apr 03;10(1):1522 45 Citations |
1 | Three-dimensional analysis reveals altered chromatin interaction by enhancer inhibitors harbors TCF7L2-regulated cancer gene signature. (Gerrard DL, Wang Y, Gaddis M, Zhou Y, Wang J, Witt H, Lin S, Farnham PJ, Jin VX, Frietze SE) J Cell Biochem 2019 Mar;120(3):3056-3070 7 Citations |
1 | A CHAF1B-Dependent Molecular Switch in Hematopoiesis and Leukemia Pathogenesis. (Volk A, Liang K, Suraneni P, Li X, Zhao J, Bulic M, Marshall S, Pulakanti K, Malinge S, Taub J, Ge Y, Rao S, Bartom E, Shilatifard A, Crispino JD) Cancer Cell 2018 Nov 12;34(5):707-723.e7 50 Citations |
1 | A cancer-associated polymorphism in ESCRT-III disrupts the abscission checkpoint and promotes genome instability. (Sadler JBA, Wenzel DM, Strohacker LK, Guindo-Martínez M, Alam SL, Mercader JM, Torrents D, Ullman KS, Sundquist WI, Martin-Serrano J) Proc Natl Acad Sci U S A 2018 Sep 18;115(38):E8900-E8908 42 Citations |
1 | FoxO1 and FoxA1/2 form a complex on DNA and cooperate to open chromatin at insulin-regulated genes. (Schill D, Nord J, Cirillo LA) Biochem Cell Biol 2019 Apr;97(2):118-129 9 Citations |
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1 | CBFβ-SMMHC Inhibition Triggers Apoptosis by Disrupting MYC Chromatin Dynamics in Acute Myeloid Leukemia. (Pulikkan JA, Hegde M, Ahmad HM, Belaghzal H, Illendula A, Yu J, O'Hagan K, Ou J, Muller-Tidow C, Wolfe SA, Zhu LJ, Dekker J, Bushweller JH, Castilla LH) Cell 2018 Jun 28;174(1):172-186.e21 52 Citations |
2 | Cyclin-dependent kinase 1 (CDK1) and CDK2 have opposing roles in regulating interactions of splicing factor 3B1 with chromatin. (Murthy T, Bluemn T, Gupta AK, Reimer M Jr, Rao S, Pillai MM, Minella AC) J Biol Chem 2018 Jun 29;293(26):10220-10234 11 Citations |
2 | Genome-Wide Association Study to Find Modifiers for Tetralogy of Fallot in the 22q11.2 Deletion Syndrome Identifies Variants in the GPR98 Locus on 5q14.3. (Guo T, Repetto GM, McDonald McGinn DM, Chung JH, Nomaru H, Campbell CL, Blonska A, Bassett AS, Chow EWC, Mlynarski EE, Swillen A, Vermeesch J, Devriendt K, Gothelf D, Carmel M, Michaelovsky E, Schneider M, Eliez S, Antonarakis SE, Coleman K, Tomita-Mitchell A, Mitchell ME, Digilio MC, Dallapiccola B, Marino B, Philip N, Busa T, Kushan-Wells L, Bearden CE, Piotrowicz M, Hawuła W, Roberts AE, Tassone F, Simon TJ, van Duin EDA, van Amelsvoort TA, Kates WR, Zackai E, Johnston HR, Cutler DJ, Agopian AJ, Goldmuntz E, Mitchell LE, Wang T, Emanuel BS, Morrow BE, International 22q11.2 Consortium/Brain and Behavior Consortium*) Circ Cardiovasc Genet 2017 Oct;10(5):e001690 18 Citations |
1 | RUNX1 is required for oncogenic Myb and Myc enhancer activity in T-cell acute lymphoblastic leukemia. (Choi A, Illendula A, Pulikkan JA, Roderick JE, Tesell J, Yu J, Hermance N, Zhu LJ, Castilla LH, Bushweller JH, Kelliher MA) Blood 2017 Oct 12;130(15):1722-1733 52 Citations |
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1 | Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles. (Farshidfar F, Zheng S, Gingras MC, Newton Y, Shih J, Robertson AG, Hinoue T, Hoadley KA, Gibb EA, Roszik J, Covington KR, Wu CC, Shinbrot E, Stransky N, Hegde A, Yang JD, Reznik E, Sadeghi S, Pedamallu CS, Ojesina AI, Hess JM, Auman JT, Rhie SK, Bowlby R, Borad MJ, Cancer Genome Atlas Network, Zhu AX, Stuart JM, Sander C, Akbani R, Cherniack AD, Deshpande V, Mounajjed T, Foo WC, Torbenson MS, Kleiner DE, Laird PW, Wheeler DA, McRee AJ, Bathe OF, Andersen JB, Bardeesy N, Roberts LR, Kwong LN) Cell Rep 2017 Mar 14;18(11):2780-2794 348 Citations |
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1 | Hybrid Enzalutamide Derivatives with Histone Deacetylase Inhibitor Activity Decrease Heat Shock Protein 90 and Androgen Receptor Levels and Inhibit Viability in Enzalutamide-Resistant C4-2 Prostate Cancer Cells. (Rosati R, Chen B, Patki M, McFall T, Ou S, Heath E, Ratnam M, Qin Z) Mol Pharmacol 2016 Sep;90(3):225-37 18 Citations |
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