Table of Contents

Research

• Select this article

  The sea lamprey meiotic map improves resolution of ancient vertebrate genome duplications

  • Jeramiah J. Smith and
  • Melissa C. Keinath

  Genome Res. August 2015 25: 1081-1090; Published in Advance June 5, 2015, doi:10.1101/gr.184135.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Dynamic changes in replication timing and gene expression during lineage specification of human pluripotent stem cells

  • Juan Carlos Rivera-Mulia,
  • Quinton Buckley,
  • Takayo Sasaki,
  • Jared Zimmerman,
  • Ruth A. Didier,
  • Kristopher Nazor,
  • Jeanne F. Loring,
  • Zheng Lian,
  • Sherman Weissman,
  • Allan J. Robins,
  • Thomas C. Schulz,
  • Laura Menendez,
  • Michael J. Kulik,
  • Stephen Dalton,
  • Haitham Gabr,
  • Tamer Kahveci,
  • and David M. Gilbert

  Genome Res. August 2015 25: 1091-1103; Published in Advance June 8, 2015, doi:10.1101/gr.187989.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Topologically associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication-timing program

  • Vishnu Dileep,
  • Ferhat Ay,
  • Jiao Sima,
  • Daniel L. Vera,
  • William S. Noble,
  • and David M. Gilbert

  Genome Res. August 2015 25: 1104-1113; Published in Advance May 20, 2015, doi:10.1101/gr.183699.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Divergence patterns of genic copy number variation in natural populations of the house mouse (Mus musculus domesticus) reveal three conserved genes with major population-specific expansions

  • Željka Pezer,
  • Bettina Harr,
  • Meike Teschke,
  • Hiba Babiker,
  • and Diethard Tautz

  Genome Res. August 2015 25: 1114-1124; Published in Advance July 6, 2015, doi:10.1101/gr.187187.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material

  OPEN ACCESS ARTICLE
• Select this article

  Germline mutation rates and the long-term phenotypic effects of mutation accumulation in wild-type laboratory mice and mutator mice

  • Arikuni Uchimura,
  • Mayumi Higuchi,
  • Yohei Minakuchi,
  • Mizuki Ohno,
  • Atsushi Toyoda,
  • Asao Fujiyama,
  • Ikuo Miura,
  • Shigeharu Wakana,
  • Jo Nishino,
  • and Takeshi Yagi

  Genome Res. August 2015 25: 1125-1134; Published in Advance June 30, 2015, doi:10.1101/gr.186148.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites

  • Fiorella C. Grandi,
  • James M. Rosser,
  • Simon J. Newkirk,
  • Jun Yin,
  • Xiaoling Jiang,
  • Zhuo Xing,
  • Leanne Whitmore,
  • Sanum Bashir,
  • Zoltán Ivics,
  • Zsuzsanna Izsvák,
  • Ping Ye,
  • Y. Eugene Yu,
  • and Wenfeng An

  Genome Res. August 2015 25: 1135-1146; Published in Advance May 20, 2015, doi:10.1101/gr.185132.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material

  OPEN ACCESS ARTICLE
• Select this article

  Sequence determinants of improved CRISPR sgRNA design

  • Han Xu,
  • Tengfei Xiao,
  • Chen-Hao Chen,
  • Wei Li,
  • Clifford A. Meyer,
  • Qiu Wu,
  • Di Wu,
  • Le Cong,
  • Feng Zhang,
  • Jun S. Liu,
  • Myles Brown,
  • and X. Shirley Liu

  Genome Res. August 2015 25: 1147-1157; Published in Advance June 10, 2015, doi:10.1101/gr.191452.115
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators

  • Lauren R. Polstein,
  • Pablo Perez-Pinera,
  • D. Dewran Kocak,
  • Christopher M. Vockley,
  • Peggy Bledsoe,
  • Lingyun Song,
  • Alexias Safi,
  • Gregory E. Crawford,
  • Timothy E. Reddy,
  • and Charles A. Gersbach

  Genome Res. August 2015 25: 1158-1169; Published in Advance May 29, 2015, doi:10.1101/gr.179044.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Genome-wide activities of Polycomb complexes control pervasive transcription

  • Hun-Goo Lee,
  • Tatyana G. Kahn,
  • Amanda Simcox,
  • Yuri B. Schwartz,
  • and Vincenzo Pirrotta

  Genome Res. August 2015 25: 1170-1181; Published in Advance May 18, 2015, doi:10.1101/gr.188920.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Determinants of nucleosome positioning and their influence on plant gene expression

  • Ming-Jung Liu,
  • Alexander E. Seddon,
  • Zing Tsung-Yeh Tsai,
  • Ian T. Major,
  • Monique Floer,
  • Gregg A. Howe,
  • and Shin-Han Shiu

  Genome Res. August 2015 25: 1182-1195; Published in Advance June 10, 2015, doi:10.1101/gr.188680.114
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material
• Select this article

  Genome-wide analysis of translational efficiency reveals distinct but overlapping functions of yeast DEAD-box RNA helicases Ded1 and eIF4A

  • Neelam Dabas Sen,
  • Fujun Zhou,
  • Nicholas T. Ingolia,
  • and Alan G. Hinnebusch

  Genome Res. August 2015 25: 1196-1205; Published in Advance June 29, 2015, doi:10.1101/gr.191601.115
  • Abstract
  • Full Text
  • Full Text (PDF)
  • Supplemental Material