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Research

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  A comparative analysis of whole genome sequencing of esophageal adenocarcinoma pre- and post-chemotherapy

  • Ayesha Noorani,
  • Jan Bornschein,
  • Andy G. Lynch,
  • Maria Secrier,
  • Achilleas Achilleos,
  • Matthew Eldridge,
  • Lawrence Bower,
  • Jamie M.J. Weaver,
  • Jason Crawte,
  • Chin-Ann Ong,
  • Nicholas Shannon,
  • Shona MacRae,
  • Nicola Grehan,
  • Barbara Nutzinger,
  • Maria O'Donovan,
  • Richard Hardwick,
  • Simon Tavaré,
  • Rebecca C. Fitzgerald,
  • and on behalf of the Oesophageal Cancer Clinical and Molecular Stratification (OCCAMS) Consortium

  Genome Res. June 2017 27: 902-912; Published in Advance May 2, 2017, doi:10.1101/gr.214296.116
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  PML protein organizes heterochromatin domains where it regulates histone H3.3 deposition by ATRX/DAXX

  • Erwan Delbarre,
  • Kristina Ivanauskiene,
  • Jane Spirkoski,
  • Akshay Shah,
  • Kristin Vekterud,
  • Jan Øivind Moskaug,
  • Stig Ove Bøe,
  • Lee H. Wong,
  • Thomas Küntziger,
  • and Philippe Collas

  Genome Res. June 2017 27: 913-921; Published in Advance March 24, 2017, doi:10.1101/gr.215830.116
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  Small chromosomal regions position themselves autonomously according to their chromatin class

  • Harmen J.G. van de Werken,
  • Josien C. Haan,
  • Yana Feodorova,
  • Dominika Bijos,
  • An Weuts,
  • Koen Theunis,
  • Sjoerd J.B. Holwerda,
  • Wouter Meuleman,
  • Ludo Pagie,
  • Katharina Thanisch,
  • Parveen Kumar,
  • Heinrich Leonhardt,
  • Peter Marynen,
  • Bas van Steensel,
  • Thierry Voet,
  • Wouter de Laat,
  • Irina Solovei,
  • and Boris Joffe

  Genome Res. June 2017 27: 922-933; Published in Advance March 24, 2017, doi:10.1101/gr.213751.116
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  Combinatorial DNA methylation codes at repetitive elements

  • Christophe Papin,
  • Abdulkhaleg Ibrahim,
  • Stéphanie Le Gras,
  • Amandine Velt,
  • Isabelle Stoll,
  • Bernard Jost,
  • Hervé Menoni,
  • Christian Bronner,
  • Stefan Dimitrov,
  • and Ali Hamiche

  Genome Res. June 2017 27: 934-946; Published in Advance March 27, 2017, doi:10.1101/gr.213983.116
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  Cytosine modifications modulate the chromatin architecture of transcriptional enhancers

  • Elise A. Mahé,
  • Thierry Madigou,
  • Aurélien A. Sérandour,
  • Maud Bizot,
  • Stéphane Avner,
  • Frédéric Chalmel,
  • Gaëlle Palierne,
  • Raphaël Métivier,
  • and Gilles Salbert

  Genome Res. June 2017 27: 947-958; Published in Advance April 10, 2017, doi:10.1101/gr.211466.116
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  Transcriptional regulatory dynamics drive coordinated metabolic and neural response to social challenge in mice

  • Michael C. Saul,
  • Christopher H. Seward,
  • Joseph M. Troy,
  • Huimin Zhang,
  • Laura G. Sloofman,
  • Xiaochen Lu,
  • Patricia A. Weisner,
  • Derek Caetano-Anolles,
  • Hao Sun,
  • Sihai Dave Zhao,
  • Sriram Chandrasekaran,
  • Saurabh Sinha,
  • and Lisa Stubbs

  Genome Res. June 2017 27: 959-972; Published in Advance March 29, 2017, doi:10.1101/gr.214221.116
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  Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding–fasting response and the circadian clock

  • François Mange,
  • Viviane Praz,
  • Eugenia Migliavacca,
  • Ian M. Willis,
  • Frédéric Schütz,
  • Nouria Hernandez,
  • and the CycliX Consortium

  Genome Res. June 2017 27: 973-984; Published in Advance March 24, 2017, doi:10.1101/gr.217521.116
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  The logic of transcriptional regulator recruitment architecture at cis-regulatory modules controlling liver functions

  • Julie Dubois-Chevalier,
  • Vanessa Dubois,
  • Hélène Dehondt,
  • Parisa Mazrooei,
  • Claire Mazuy,
  • Aurélien A. Sérandour,
  • Céline Gheeraert,
  • Penderia Guillaume,
  • Eric Baugé,
  • Bruno Derudas,
  • Nathalie Hennuyer,
  • Réjane Paumelle,
  • Guillemette Marot,
  • Jason S. Carroll,
  • Mathieu Lupien,
  • Bart Staels,
  • Philippe Lefebvre,
  • and Jérôme Eeckhoute

  Genome Res. June 2017 27: 985-996; Published in Advance April 11, 2017, doi:10.1101/gr.217075.116
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  Speciation network in Laurasiatheria: retrophylogenomic signals

  • Liliya Doronina,
  • Gennady Churakov,
  • Andrej Kuritzin,
  • Jingjing Shi,
  • Robert Baertsch,
  • Hiram Clawson,
  • and Jürgen Schmitz

  Genome Res. June 2017 27: 997-1003; Published in Advance March 15, 2017, doi:10.1101/gr.210948.116
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  Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches

  • Fan Han,
  • Sangeet Lamichhaney,
  • B. Rosemary Grant,
  • Peter R. Grant,
  • Leif Andersson,
  • and Matthew T. Webster

  Genome Res. June 2017 27: 1004-1015; Published in Advance April 25, 2017, doi:10.1101/gr.212522.116
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  Less effective selection leads to larger genomes

  • Tristan Lefébure,
  • Claire Morvan,
  • Florian Malard,
  • Clémentine François,
  • Lara Konecny-Dupré,
  • Laurent Guéguen,
  • Michèle Weiss-Gayet,
  • Andaine Seguin-Orlando,
  • Luca Ermini,
  • Clio Der Sarkissian,
  • N. Pierre Charrier,
  • David Eme,
  • Florian Mermillod-Blondin,
  • Laurent Duret,
  • Cristina Vieira,
  • Ludovic Orlando,
  • and Christophe Jean Douady

  Genome Res. June 2017 27: 1016-1028; Published in Advance April 19, 2017, doi:10.1101/gr.212589.116
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  Asian wild rice is a hybrid swarm with extensive gene flow and feralization from domesticated rice

  • Hongru Wang,
  • Filipe G. Vieira,
  • Jacob E. Crawford,
  • Chengcai Chu,
  • and Rasmus Nielsen

  Genome Res. June 2017 27: 1029-1038; Published in Advance April 6, 2017, doi:10.1101/gr.204800.116
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