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Hainer SJ, Bošković A, McCannell KN, Rando OJ, Fazzio TG. Profiling of Pluripotency Factors in Single Cells and Early Embryos. Cell. 2019 May 16;177(5):1319-1329.e11. doi: 10.1016/j.cell.2019.03.014. Epub 2019 Apr 4. PubMed PMID: 30955888; PubMed Central PMCID: PMC6525046.
Hainer SJ, Fazzio TG. High-Resolution Chromatin Profiling Using CUT&RUN. Curr Protoc Mol Biol. 2019 Apr;126(1):e85. doi: 10.1002/cpmb.85. Epub 2019 Jan 28. PubMed PMID: 30688406; PubMed Central PMCID: PMC6422702.
Acharya D, Hainer SJ, Yoon Y, Wang F, Bach I, Rivera-Pérez JA, Fazzio TG. KAT-Independent Gene Regulation by Tip60 Promotes ESC Self-Renewal but Not Pluripotency. Cell Rep. 2017 Apr 25;19(4):671-679. doi: 10.1016/j.celrep.2017.04.001. PubMed PMID: 28445719; PubMed Central PMCID: PMC5484067.
Hainer SJ, McCannell KN, Yu J, Ee LS, Zhu LJ, Rando OJ, Fazzio TG. DNA methylation directs genomic localization of Mbd2 and Mbd3 in embryonic stem cells. Elife. 2016 Nov 16;5. doi: 10.7554/eLife.21964. PubMed PMID: 27849519; PubMed Central PMCID: PMC5111885.
Hainer SJ, Martens JA. Regulation of chaperone binding and nucleosome dynamics by key residues within the globular domain of histone H3. Epigenetics Chromatin. 2016;9:17. doi: 10.1186/s13072-016-0066-4. eCollection 2016. PubMed PMID: 27134679; PubMed Central PMCID: PMC4851828.
Hainer SJ, Fazzio TG. Regulation of Nucleosome Architecture and Factor Binding Revealed by Nuclease Footprinting of the ESC Genome. Cell Rep. 2015 Oct 6;13(1):61-69. doi: 10.1016/j.celrep.2015.08.071. Epub 2015 Sep 24. PubMed PMID: 26411677; PubMed Central PMCID: PMC4598306.
Hainer SJ, Gu W, Carone BR, Landry BD, Rando OJ, Mello CC, Fazzio TG. Suppression of pervasive noncoding transcription in embryonic stem cells by esBAF. Genes Dev. 2015 Feb 15;29(4):362-78. doi: 10.1101/gad.253534.114. PubMed PMID: 25691467; PubMed Central PMCID: PMC4335293.
Chen PB, Zhu LJ, Hainer SJ, McCannell KN, Fazzio TG. Unbiased chromatin accessibility profiling by RED-seq uncovers unique features of nucleosome variants in vivo. BMC Genomics. 2014 Dec 15;15:1104. doi: 10.1186/1471-2164-15-1104. PubMed PMID: 25494698; PubMed Central PMCID: PMC4378318.
Carone BR, Hung JH, Hainer SJ, Chou MT, Carone DM, Weng Z, Fazzio TG, Rando OJ. High-resolution mapping of chromatin packaging in mouse embryonic stem cells and sperm. Dev Cell. 2014 Jul 14;30(1):11-22. doi: 10.1016/j.devcel.2014.05.024. Epub 2014 Jul 3. PubMed PMID: 24998598; PubMed Central PMCID: PMC4184102.
Hainer SJ, Charsar BA, Cohen SB, Martens JA. Identification of Mutant Versions of the Spt16 Histone Chaperone That Are Defective for Transcription-Coupled Nucleosome Occupancy in Saccharomyces cerevisiae. G3 (Bethesda). 2012 May;2(5):555-67. doi: 10.1534/g3.112.002451. Epub 2012 May 1. PubMed PMID: 22670226; PubMed Central PMCID: PMC3362939.
Pruneski JA, Hainer SJ, Petrov KO, Martens JA. The Paf1 complex represses SER3 transcription in Saccharomyces cerevisiae by facilitating intergenic transcription-dependent nucleosome occupancy of the SER3 promoter. Eukaryot Cell. 2011 Oct;10(10):1283-94. doi: 10.1128/EC.05141-11. Epub 2011 Aug 26. PubMed PMID: 21873510; PubMed Central PMCID: PMC3187070.
Hainer SJ, Martens JA. Identification of histone mutants that are defective for transcription-coupled nucleosome occupancy. Mol Cell Biol. 2011 Sep;31(17):3557-68. doi: 10.1128/MCB.05195-11. Epub 2011 Jul 5. PubMed PMID: 21730290; PubMed Central PMCID: PMC3165560.
Hainer SJ, Martens JA. Transcription of ncDNA: Many roads lead to local gene regulation. Transcription. 2011 May;2(3):120-123. doi: 10.4161/trns.2.3.15684. PubMed PMID: 21826282; PubMed Central PMCID: PMC3149688.
Hainer SJ, Pruneski JA, Mitchell RD, Monteverde RM, Martens JA. Intergenic transcription causes repression by directing nucleosome assembly. Genes Dev. 2011 Jan 1;25(1):29-40. doi: 10.1101/gad.1975011. Epub 2010 Dec 14. PubMed PMID: 21156811; PubMed Central PMCID: PMC3012934.
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