Publications

  1. Berletch JB, Ma W, Yang F, Shendure J, Noble WS, Disteche CM, Deng X. Identification of genes escaping X inactivation by allelic expression analysis in a novel hybrid mouse model. Data Brief 2015 Nov 3;5:761-9.
  2. Deng X, Ma W, Ramani V, Hill A, Yang F, Ay F, Berletch JB, Blau CA, Shendure J, Duan Z, NobleWS, Disteche CM.
  3. Bipartite structure of the inactive mouse X chromosome. Genome Biology 2015 Aug 7;16:152.
  4. Cusanovich DA, Daza R, Adey A, Pliner HA, Christiansen L, Gunderson KL, Steemers FJ, TrapnellC, Shendure J. Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing. Science 2015 May 22;348(6237):910-4.  
  5. Varoquaux N, Liachko I, Ay F, Burton JN, Shendure J, Dunham MJ, Vert JP, Noble WS. Accurate identification of centromere locations in yeast genomes using Hi-C. Nucleic Acids Research 2015 Jun 23;43(11):5331-9.
  6. Yang F, Deng X, Ma W, Berletch JB, Rabaia N, Wei G, Moore JM, Filippova GN, Xu J, Liu Y, NobleWS, Shendure J, Disteche CM. The lncRNA Firre anchors the inactive X chromosome to the nucleolus by binding CTCF and maintains H3K27me3 methylation. Genome Biology 2015 Mar 12;16:52.
  7. Berletch JB, Ma W, Yang F, Shendure J, Noble WS, Disteche CM, Deng X. Escape from X inactivation varies in mouse tissues. PLoS Genetics 2015 Mar 18;11(3):e1005079. 
  8. Ma W, Ay F, Lee C, Gulsoy G, Deng X, Cook S, Hesson J, Cavanaugh C, Ware CB, Krumm A,Shendure J, Blau CA, Disteche CM, Noble WS, Duan Z. Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes. Nature Methods 2015 Jan;12(1):71-8.
  9. Deng X, Berletch JB, Ma W, Nguyen DK, Hiatt JB, Noble WS, Shendure J, Disteche CM. Mammalian X upregulation is associated with enhanced transcription initiation, RNA half-life, and MOF-mediated H4K16 acetylation. Developmental Cell 2013 Apr 15;25(1):55-68.
  10. Duan Z, Andronescu M, Schutz K, Lee C, Shendure J, Fields S, Noble WS, Anthony Blau C. A genome-wide 3C-method for characterizing the three-dimensional architectures of genomes. Methods 2012 Nov;58(3):277-88.
  11. Deng X, Hiatt JB, Nguyen DK, Ercan S, Sturgill D, Hillier LW, Schlesinger F, Davis CA, Reinke VJ, Gingeras TR, Shendure J, Waterston RH, Oliver B, Lieb JD, Disteche CM. Evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster. Nature Genetics 2011 Oct 23;43(12):1179-85. 
  12. Duan Z, Andronescu M, Schutz K, McIlwain S, Kim YJ, Lee C, Shendure J, Fields S, Blau CA, NobleWS. A three-dimensional model of the yeast genome. Nature 2010 May 20;465(7296):363-7.
  13. Yang F, Babak T, Shendure J, Disteche CM. Global survey of escape from X inactivation by RNA-sequencing in mouse. Genome Research 2010 May;20(5):614-22.
Proudly powered by Weebly