Epigenetics

Publications


2016
  1. H3K27-demethylase activity of UTX/KDM6A is essential for skeletal muscle regeneration. Faralli H, Wang C, Nakka K, Benyoucef A, Sebastian S, Zhuang L, Chu A, Palii CG, Liu C, Camellato B, Brand M, Ge K, Dilworth FJ. J Clin Invest 126: 1555-1565.
  2. UTX inhibition as selective epigenetic therapy against TAL1-driven T cell acute lymphoblastic leukemia. Benyoucef A, Palii CG, Wang C, Porter CJ, Chu A, Dai F, Tremblay V, Rakopoulos P, Singh K, Huang S, Pflumio F, Hébert J, Couture JF, Perkins TJ, Ge K, Dilworth FJ, Brand M. Genes & Dev 30: 508-521.
  3. The aPKC-CBP Pathway Regulates Adult Hippocampal Neurogenesis in an Age-Dependent Manner. Gouveia A, Hsu K, Niibori Y, Seegobin M, Cancino GI, He L, Wondisford FE, Bennett S, Lagace D, Frankland PW, Wang J. Stem Cell Reports. doi: 10.1016/j.stemcr.2016.08.007.
  4. Folic Acid Supplementation in Pregnancy and the Risk of Pre-Eclampsia-A Cohort Study. Wen SW, Guo Y, Rodger M, White RR, Yang Q, Smith GN, Perkins SL, Walker MC. PLoS One e0149818.
  5. Nicotinamide Suppresses the DNA Damage Sensitivity of Saccharomyces cerevisiae Independently of Sirtuin Deacetylases. Rössl A, Bentley-DeSousa A, Tseng YC, Nwosu C, Downey M. Genetics. pii: genetics.116.193524.
  6. Temporal activation of XRCC1-mediated DNA repair is essential for muscle differentiation. Al-Khalaf MH, Blake LE, Larsen BD, Bell RA, Brunette S, Parks RJ, Rudnicki MA, McKinnon PJ, Jeffrey Dilworth F, Megeney LA. Cell Discov. doi: 10.1038/celldisc.2015.41
  7. NAD⁺ repletion improves mitochondrial and stem cell function and enhances life span in mice. Zhang H, Ryu D, Wu Y, Gariani K, Wang X, Luan P, D'Amico D, Ropelle ER, Lutolf MP, Aebersold R, Schoonjans K, Menzies KJ, Auwerx J. Science 352: 1436-1443.
  8. Stalled replication forks within heterochromatin require ATRX for protection. Huh MS, Ivanochko D, Hashem LE, Curtin M, Delorme M, Goodall E, Yan K, Picketts DJ. Cell Death Dis. 7:e2220.
  9. Nucleosome Presence at AML-1 Binding Sites Inversely Correlates with Ly49 Expression: Revelations from an Informatics Analysis of Nucleosomes and Immune Cell Transcription Factors. Wight A, Yang D, Ioshikhes I, Makrigiannis AP. PLoS Comput Biol. 12:e1004894.
2015
  1. A phosphorylation switch on RbBP5 regulates histone H3 Lys4 methylation. Zhang P, Chaturvedi CP, Tremblay V, Cramet M, Brunzelle JS, Skiniotis G, Brand M, Shilatifard A, Couture JF. Genes Dev. 29: 123-128.
  2. BIDCHIPS: bias decomposition and removal from ChIP-seq data clarifies true binding signal and its functional correlates. Ramachandran P, Palidwor GA, Perkins TJ. Epigenetics Chromatin. 8:33. doi: 10.1186/s13072-015-0028-2.
  3. Genome-wide association between Six4, MyoD, and the histone demethylase Utx during myogenesis. Chakroun I, Yang D, Girgis J, Gunasekharan A, Phenix H, Kærn M, Blais A. FASEB J. 29: 4738-4755.
  4. Discovery of substrates for a SET domain lysine methyltransferase predicted by multistate computational protein design. Lanouette S, Davey JA, Elisma F, Ning Z, Figeys D, Chica RA, Couture JF. Structure 23: 206-215.
  5. A KAP1 phosphorylation switch controls MyoD function during skeletal muscle differentiation. Singh K, Cassano M, Planet E, Sebastian S, Jang SM, Sohi G, Faralli H, Choi J, Youn HD, Dilworth FJ, Trono D. Genes Dev. 29: 513-525.
  6. Macrophage Mitochondrial Energy Status Regulates Cholesterol Efflux and Is Enhanced by Anti-miR33 in Atherosclerosis. Karunakaran D, Thrush AB, Nguyen MA, Richards L, Geoffrion M, Singaravelu R, Ramphos E, Shangari P, Ouimet M, Pezacki JP, Moore KJ, Perisic L, Maegdefessel L, Hedin U, Harper ME, Rayner KJ. Circ Res. 117: 266-278.
2014
  1. Trichostatin A enhances vascular repair by injected human endothelial progenitors through increasing the expression of TAL1-dependent genes. Palii CG, Vulesevic B, Fraineau S, Pranckeviciene E, Griffith AJ, Chu A, Faralli H, Li Y, McNeill B, Sun J, Perkins TJ, Dilworth FJ, Perez-Iratxeta C, Suuronen EJ, Allan DS, Brand M. Cell Stem Cell. 14: 644-657.
  2. Selective methylation of histone H3 variant H3.1 regulates heterochromatin replication. Jacob Y, Bergamin E, Donoghue MT, Mongeon V, LeBlanc C, Voigt P, Underwood CJ, Brunzelle JS, Michaels SD, Reinberg D, Couture JF, Martienssen RA. Science. 343: 1249-1253.
  3. Snf2h-mediated chromatin organization and histone H1 dynamics govern cerebellar morphogenesis and neural maturation. Alvarez-Saavedra M, De Repentigny Y, Lagali PS, Raghu Ram EV, Yan K, Hashem E, Ivanochko D, Huh MS, Yang D, Mears AJ, Todd MA, Corcoran CP, Bassett EA, Tokarew NJ, Kokavec J, Majumder R, Ioshikhes I, Wallace VA, Kothary R, Meshorer E, Stopka T, Skoultchi AI, Picketts DJ. Nat Commun. 5: 4181.
2013
  1. Identification of cis-regulatory modules in promoters of human genes exploiting mutual positioning of transcription factors. Nandi S, Blais A, Ioshikhes I. Nucleic Acids Res. 41: 8822-8841.
  2. Chromatin tandem affinity purification sequencing.Soleimani VD, Palidwor GA, Ramachandran P, Perkins TJ, Rudnicki MA. Nat Protoc. 8: 1525-1534.
  3. Tissue-specific splicing of a ubiquitously expressed transcription factor is essential for muscle differentiation. Sebastian S, Faralli H, Yao Z, Rakopoulos P, Palii C, Cao Y, Singh K, Liu QC, Chu A, Aziz A, Brand M, Tapscott SJ, Dilworth FJ. Genes Dev. 27: 1247-1259.
  4. Six1 regulates MyoD expression in adult muscle progenitor cells. Liu Y, Chakroun I, Yang D, Horner E, Liang J, Aziz A, Chu A, De Repentigny Y, Dilworth FJ, Kothary R, Blais A. PLoS One 8: e67762.
  5. mChIP-KAT-MS, a method to map protein interactions and acetylation sites for lysine acetyltransferases. Mitchell L, Huard S, Cotrut M, Pourhanifeh-Lemeri R, Steunou AL, Hamza A, Lambert JP, Zhou H, Ning Z, Basu A, Côté J, Figeys DA, Baetz K. Proc Natl Acad Sci U S A. 110: E1641-50.
  6. MicroRNA-133 controls brown adipose determination in skeletal muscle satellite cells by targeting Prdm16. Yin H, Pasut A, Soleimani VD, Bentzinger CF, Antoun G, Thorn S, Seale P, Fernando P, van Ijcken W, Grosveld F, Dekemp RA, Boushel R, Harper ME, Rudnicki MA. Cell Metab. 17: 210-224.
  7. Opposing regulation of Sox2 by cell-cycle effectors E2f3a and E2f3b in neural stem cells. Julian LM, Vandenbosch R, Pakenham CA, Andrusiak MG, Nguyen AP, McClellan KA, Svoboda DS, Lagace DC, Park DS, Leone G, Blais A, Slack RS. Cell Stem Cell. 12: 440-452.