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Transcriptional Responses in Disease Group

  1. Xu J, Watts JA, Pope SD, Gadue P, Kamps M, Plath K, Zaret KS, Smale ST. 2009. Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells. Genes Dev 23(24):2824-2838. [Abstract Xu J, Watts JA, Pope SD, Gadue P, Kamps M, Plath K, Zaret KS, Smale ST. 2009. Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells. Genes Dev 23(24):2824-2838.]
  2. Watts JA, Zhang C, Klein-Szanto AJ, Kormish JD, Fu J, Zhang MQ, Zaret KS. 2011. Study of FoxA pioneer factor at silent genes reveals Rfx-repressed enhancer at Cdx2 and a potential indicator of esophageal adenocarcinoma development. PLoS Genet; doi: 10.1371/journal.pgen.1002277 [Online 15 September 2011]. [Abstract Watts JA, Zhang C, Klein-Szanto AJ, Kormish JD, Fu J, Zhang MQ, Zaret KS. 2011. Study of FoxA pioneer factor at silent genes reveals Rfx-repressed enhancer at Cdx2 and a potential indicator of esophageal adenocarcinoma development. PLoS Genet; doi: 10.1371/journal.pgen.1002277 [Online 15 September 2011].]
  3. Grunseich C, Wang IX, Watts JA, Burdick JT, Guber RD, Zhu Z, Bruzel A, Lanman T, Chen K, Schindler AB, Edwards N, Ray-Chaudhury A, Yao J, Lehky T, Piszczek G, Crain B, Fischbeck KH, Cheung VG. 2018. Senataxin mutation reveals how R-loops promote transcription by blocking DNA methylation at gene promoters. Mol Cell 69(3):426-437.e7. [Abstract Grunseich C, Wang IX, Watts JA, Burdick JT, Guber RD, Zhu Z, Bruzel A, Lanman T, Chen K, Schindler AB, Edwards N, Ray-Chaudhury A, Yao J, Lehky T, Piszczek G, Crain B, Fischbeck KH, Cheung VG. 2018. Senataxin mutation reveals how R-loops promote transcription by blocking DNA methylation at gene promoters. Mol Cell 69(3):426-437.e7.]
  4. Watts JA, Burdick J, Diagneault J, Bruzel A, Zhu Z, Grunseich C, Cheung VG. 2019. Cis elements that mediate RNA polymerase II pausing regulate human gene expression. Am J Hum Genet 105(4):677-688. [Abstract Watts JA, Burdick J, Diagneault J, Bruzel A, Zhu Z, Grunseich C, Cheung VG. 2019. Cis elements that mediate RNA polymerase II pausing regulate human gene expression. Am J Hum Genet 105(4):677-688.]
  5. Watts JA, Grunseich C, Rodriguez Y, Liu Y, Li D, Burdick JT, Bruzel A, Crouch RJ, Mahley RW, Wilson SH, Cheung VG. A Common Transcriptional Mechanism Involving R-loop and RNA Abasic Site Regulates an Enhancer RNA of APOE. Nucleic Acids Research. December 2022. PMID: 36453989, PMCID: PMC9757052 [Abstract Watts JA, Grunseich C, Rodriguez Y, Liu Y, Li D, Burdick JT, Bruzel A, Crouch RJ, Mahley RW, Wilson SH, Cheung VG. A Common Transcriptional Mechanism Involving R-loop and RNA Abasic Site Regulates an Enhancer RNA of APOE. Nucleic Acids Research. December 2022. PMID: 36453989, PMCID: PMC9757052]
  6. Snyder R, Delker D, Burdick JT, Cheung VG, Watts JA. Guanine Quadruplexes Mediate Mitochondrial RNA Polymerase Pausing. BIORXIV/2023/562821. PMID: 37905021, PMCID: PMC10614896 [Abstract Snyder R, Delker D, Burdick JT, Cheung VG, Watts JA. Guanine Quadruplexes Mediate Mitochondrial RNA Polymerase Pausing. BIORXIV/2023/562821. PMID: 37905021, PMCID: PMC10614896]