Table of Contents

May 2019; 29 (5)

Research

  • Interplay between coding and exonic splicing regulatory sequences

    • Nicolas Fontrodona,
    • Fabien Aubé,
    • Jean-Baptiste Claude,
    • Hélène Polvèche,
    • Sébastien Lemaire,
    • Léon-Charles Tranchevent,
    • Laurent Modolo,
    • Franck Mortreux,
    • Cyril F. Bourgeois,
    • and Didier Auboeuf
    Genome Res. May 2019 29: 711-722; Published in Advance April 8, 2019, doi:10.1101/gr.241315.118

  • Identification of a primitive intestinal transcription factor network shared between esophageal adenocarcinoma and its precancerous precursor state

    • Connor Rogerson,
    • Edward Britton,
    • Sarah Withey,
    • Neil Hanley,
    • Yeng S. Ang,
    • and Andrew D. Sharrocks
    Genome Res. May 2019 29: 723-736; Published in Advance April 8, 2019, doi:10.1101/gr.243345.118
    OPEN ACCESS ARTICLE

  • Chromothripsis during telomere crisis is independent of NHEJ, and consistent with a replicative origin

    • Kez Cleal,
    • Rhiannon E. Jones,
    • Julia W. Grimstead,
    • Eric A. Hendrickson,
    • and Duncan M. Baird
    Genome Res. May 2019 29: 737-749; Published in Advance March 14, 2019, doi:10.1101/gr.240705.118
    OPEN ACCESS ARTICLE

  • DNA (de)methylation in embryonic stem cells controls CTCF-dependent chromatin boundaries

    • Laura Wiehle,
    • Graeme J. Thorn,
    • Günter Raddatz,
    • Christopher T. Clarkson,
    • Karsten Rippe,
    • Frank Lyko,
    • Achim Breiling,
    • and Vladimir B. Teif
    Genome Res. May 2019 29: 750-761; Published in Advance April 4, 2019, doi:10.1101/gr.239707.118
    OPEN ACCESS ARTICLE

  • Brown rat demography reveals pre-commensal structure in eastern Asia before expansion into Southeast Asia

    • Emily E. Puckett and
    • Jason Munshi-South
    Genome Res. May 2019 29: 762-770; Published in Advance March 25, 2019, doi:10.1101/gr.235754.118

  • ATAC-seq reveals regional differences in enhancer accessibility during the establishment of spatial coordinates in the Drosophila blastoderm

    • Marta Bozek,
    • Roberto Cortini,
    • Andrea Ennio Storti,
    • Ulrich Unnerstall,
    • Ulrike Gaul,
    • and Nicolas Gompel
    Genome Res. May 2019 29: 771-783; Published in Advance April 8, 2019, doi:10.1101/gr.242362.118
    OPEN ACCESS ARTICLE

  • Differences in firing efficiency, chromatin, and transcription underlie the developmental plasticity of the Arabidopsis DNA replication origins

    • Joana Sequeira-Mendes,
    • Zaida Vergara,
    • Ramon Peiró,
    • Jordi Morata,
    • Irene Aragüez,
    • Celina Costas,
    • Raul Mendez-Giraldez,
    • Josep M. Casacuberta,
    • Ugo Bastolla,
    • and Crisanto Gutierrez
    Genome Res. May 2019 29: 784-797; Published in Advance March 7, 2019, doi:10.1101/gr.240986.118

Methods

  • Efficient and unique cobarcoding of second-generation sequencing reads from long DNA molecules enabling cost-effective and accurate sequencing, haplotyping, and de novo assembly

    • Ou Wang,
    • Robert Chin,
    • Xiaofang Cheng,
    • Michelle Ka Yan Wu,
    • Qing Mao,
    • Jingbo Tang,
    • Yuhui Sun,
    • Ellis Anderson,
    • Han K. Lam,
    • Dan Chen,
    • Yujun Zhou,
    • Linying Wang,
    • Fei Fan,
    • Yan Zou,
    • Yinlong Xie,
    • Rebecca Yu Zhang,
    • Snezana Drmanac,
    • Darlene Nguyen,
    • Chongjun Xu,
    • Christian Villarosa,
    • Scott Gablenz,
    • Nina Barua,
    • Staci Nguyen,
    • Wenlan Tian,
    • Jia Sophie Liu,
    • Jingwan Wang,
    • Xiao Liu,
    • Xiaojuan Qi,
    • Ao Chen,
    • He Wang,
    • Yuliang Dong,
    • Wenwei Zhang,
    • Andrei Alexeev,
    • Huanming Yang,
    • Jian Wang,
    • Karsten Kristiansen,
    • Xun Xu,
    • Radoje Drmanac,
    • and Brock A. Peters
    Genome Res. May 2019 29: 798-808; Published in Advance April 2, 2019, doi:10.1101/gr.245126.118
    OPEN ACCESS ARTICLE

  • A new approach for rare variation collapsing on functional protein domains implicates specific genic regions in ALS

    • Sahar Gelfman,
    • Sarah Dugger,
    • Cristiane de Araujo Martins Moreno,
    • Zhong Ren,
    • Charles J. Wolock,
    • Neil A. Shneider,
    • Hemali Phatnani,
    • Elizabeth T. Cirulli,
    • Brittany N. Lasseigne,
    • Tim Harris,
    • Tom Maniatis,
    • Guy A. Rouleau,
    • Robert H. Brown, Jr,
    • Aaron D. Gitler,
    • Richard M. Myers,
    • Slavé Petrovski,
    • Andrew Allen,
    • David B. Goldstein,
    • and Matthew B. Harms
    Genome Res. May 2019 29: 809-818; Published in Advance April 2, 2019, doi:10.1101/gr.243592.118

  • A virome-wide clonal integration analysis platform for discovering cancer viral etiology

    • Xun Chen,
    • Jason Kost,
    • Arvis Sulovari,
    • Nathalie Wong,
    • Winnie S. Liang,
    • Jian Cao,
    • and Dawei Li
    Genome Res. May 2019 29: 819-830; Published in Advance March 14, 2019, doi:10.1101/gr.242529.118

  • Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid

    • Steve Miller,
    • Samia N. Naccache,
    • Erik Samayoa,
    • Kevin Messacar,
    • Shaun Arevalo,
    • Scot Federman,
    • Doug Stryke,
    • Elizabeth Pham,
    • Becky Fung,
    • William J. Bolosky,
    • Danielle Ingebrigtsen,
    • Walter Lorizio,
    • Sandra M. Paff,
    • John A. Leake,
    • Rick Pesano,
    • Roberta DeBiasi,
    • Samuel Dominguez,
    • and Charles Y. Chiu
    Genome Res. May 2019 29: 831-842; Published in Advance April 16, 2019, doi:10.1101/gr.238170.118
    OPEN ACCESS ARTICLE

  • Accurate analysis of genuine CRISPR editing events with ampliCan

    • Kornel Labun,
    • Xiaoge Guo,
    • Alejandro Chavez,
    • George Church,
    • James A. Gagnon,
    • and Eivind Valen
    Genome Res. May 2019 29: 843-847; Published in Advance March 8, 2019, doi:10.1101/gr.244293.118
    OPEN ACCESS ARTICLE

Resources

  • Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony

    • Jacqueline A. Robinson,
    • Saurabh Belsare,
    • Shifra Birnbaum,
    • Deborah E. Newman,
    • Jeannie Chan,
    • Jeremy P. Glenn,
    • Betsy Ferguson,
    • Laura A. Cox,
    • and Jeffrey D. Wall
    Genome Res. May 2019 29: 848-856; Published in Advance March 29, 2019, doi:10.1101/gr.247122.118

  • The accessible chromatin landscape of the murine hippocampus at single-cell resolution

    • John R. Sinnamon,
    • Kristof A. Torkenczy,
    • Michael W. Linhoff,
    • Sarah A. Vitak,
    • Ryan M. Mulqueen,
    • Hannah A. Pliner,
    • Cole Trapnell,
    • Frank J. Steemers,
    • Gail Mandel,
    • and Andrew C. Adey
    Genome Res. May 2019 29: 857-869; Published in Advance April 1, 2019, doi:10.1101/gr.243725.118

  • Structural variants in 3000 rice genomes

    • Roven Rommel Fuentes,
    • Dmytro Chebotarov,
    • Jorge Duitama,
    • Sean Smith,
    • Juan Fernando De la Hoz,
    • Marghoob Mohiyuddin,
    • Rod A. Wing,
    • Kenneth L. McNally,
    • Tatiana Tatarinova,
    • Andrey Grigoriev,
    • Ramil Mauleon,
    • and Nickolai Alexandrov
    Genome Res. May 2019 29: 870-880; Published in Advance April 16, 2019, doi:10.1101/gr.241240.118
    OPEN ACCESS ARTICLE

Erratum

  • Erratum: Deep experimental profiling of microRNA diversity, deployment, and evolution across the Drosophila genus

    • Jaaved Mohammed,
    • Alex S. Flynt,
    • Alexandra M. Panzarino,
    • Md Mosharrof Hossain Mondal,
    • Matthew DeCruz,
    • Adam Siepel,
    • and Eric C. Lai
    Genome Res. May 2019 29: 881; doi:10.1101/gr.250654.119
    OPEN ACCESS ARTICLE
|

This Issue

May 2019; 29 (5)
Cover
  1. Research
  2. Methods
  3. Resources
  4. Erratum

Find articles in this issue containing these words:

Preprint Server



Current Issue

  1. March 2026, 36 (3)
  1. Current Issue
  1. Alert me to new issues of Genome Research