Table of Contents

February 2020; 30 (2)

Research

  • A HOTAIR regulatory element modulates glioma cell sensitivity to temozolomide through long-range regulation of multiple target genes

    • Lei Zhang,
    • Anshun He,
    • Bohan Chen,
    • Jinfang Bi,
    • Jun Chen,
    • Dianhao Guo,
    • Yuyang Qian,
    • Wenbin Wang,
    • Tengfei Shi,
    • Zhongfang Zhao,
    • Jiandang Shi,
    • Woojin An,
    • Frank Attenello,
    • and Wange Lu
    Genome Res. February 2020 30: 155-163; Published in Advance January 17, 2020, doi:10.1101/gr.251058.119

  • An efficient RNA-seq-based segregation analysis identifies the sex chromosomes of Cannabis sativa

    • Djivan Prentout,
    • Olga Razumova,
    • Bénédicte Rhoné,
    • Hélène Badouin,
    • Hélène Henri,
    • Cong Feng,
    • Jos Käfer,
    • Gennady Karlov,
    • and Gabriel A.B. Marais
    Genome Res. February 2020 30: 164-172; Published in Advance February 7, 2020, doi:10.1101/gr.251207.119

  • Genome-wide redistribution of 24-nt siRNAs in rice gametes

    • Chenxin Li,
    • Hengping Xu,
    • Fang-Fang Fu,
    • Scott D. Russell,
    • Venkatesan Sundaresan,
    • and Jonathan I. Gent
    Genome Res. February 2020 30: 173-184; Published in Advance January 2, 2020, doi:10.1101/gr.253674.119

Methods

  • Ancestry-agnostic estimation of DNA sample contamination from sequence reads

    • Fan Zhang,
    • Matthew Flickinger,
    • Sarah A. Gagliano Taliun,
    • InPSYght Psychiatric Genetics Consortium,
    • Gonçalo R. Abecasis,
    • Laura J. Scott,
    • Steven A. McCaroll,
    • Carlos N. Pato,
    • Michael Boehnke,
    • and Hyun Min Kang
    Genome Res. February 2020 30: 185-194; Published in Advance January 24, 2020, doi:10.1101/gr.246934.118

  • netNMF-sc: leveraging gene–gene interactions for imputation and dimensionality reduction in single-cell expression analysis

    • Rebecca Elyanow,
    • Bianca Dumitrascu,
    • Barbara E. Engelhardt,
    • and Benjamin J. Raphael
    Genome Res. February 2020 30: 195-204; Published in Advance January 28, 2020, doi:10.1101/gr.251603.119

  • SHARP: hyperfast and accurate processing of single-cell RNA-seq data via ensemble random projection

    • Shibiao Wan,
    • Junil Kim,
    • and Kyoung Jae Won
    Genome Res. February 2020 30: 205-213; Published in Advance January 28, 2020, doi:10.1101/gr.254557.119

  • Deep neural networks for interpreting RNA-binding protein target preferences

    • Mahsa Ghanbari and
    • Uwe Ohler
    Genome Res. February 2020 30: 214-226; Published in Advance January 28, 2020, doi:10.1101/gr.247494.118

  • MOCHI enables discovery of heterogeneous interactome modules in 3D nucleome

    • Dechao Tian,
    • Ruochi Zhang,
    • Yang Zhang,
    • Xiaopeng Zhu,
    • and Jian Ma
    Genome Res. February 2020 30: 227-238; Published in Advance January 6, 2020, doi:10.1101/gr.250316.119

  • TraDIS-Xpress: a high-resolution whole-genome assay identifies novel mechanisms of triclosan action and resistance

    • Muhammad Yasir,
    • A. Keith Turner,
    • Sarah Bastkowski,
    • David Baker,
    • Andrew J. Page,
    • Andrea Telatin,
    • Minh-Duy Phan,
    • Leigh Monahan,
    • George M. Savva,
    • Aaron Darling,
    • Mark A. Webber,
    • and Ian G. Charles
    Genome Res. February 2020 30: 239-249; Published in Advance February 12, 2020, doi:10.1101/gr.254391.119
    OPEN ACCESS ARTICLE

Resources

  • A comparison of gene expression and DNA methylation patterns across tissues and species

    • Lauren E. Blake,
    • Julien Roux,
    • Irene Hernando-Herraez,
    • Nicholas E. Banovich,
    • Raquel Garcia Perez,
    • Chiaowen Joyce Hsiao,
    • Ittai Eres,
    • Claudia Cuevas,
    • Tomas Marques-Bonet,
    • and Yoav Gilad
    Genome Res. February 2020 30: 250-262; Published in Advance January 17, 2020, doi:10.1101/gr.254904.119
    OPEN ACCESS ARTICLE

  • A time-resolved multi-omic atlas of the developing mouse liver

    • Tongqing Gong,
    • Chunchao Zhang,
    • Xiaotian Ni,
    • Xianju Li,
    • Jin'e Li,
    • Mingwei Liu,
    • Dongdong Zhan,
    • Xia Xia,
    • Lei Song,
    • Quan Zhou,
    • Chen Ding,
    • Jun Qin,
    • and Yi Wang
    Genome Res. February 2020 30: 263-275; Published in Advance February 12, 2020, doi:10.1101/gr.253328.119

  • Organ-level protein networks as a reference for the host effects of the microbiome

    • Robert H. Mills,
    • Jacob M. Wozniak,
    • Alison Vrbanac,
    • Anaamika Campeau,
    • Benoit Chassaing,
    • Andrew Gewirtz,
    • Rob Knight,
    • and David J. Gonzalez
    Genome Res. February 2020 30: 276-286; Published in Advance January 28, 2020, doi:10.1101/gr.256875.119

  • Direct full-length RNA sequencing reveals unexpected transcriptome complexity during Caenorhabditis elegans development

    • Runsheng Li,
    • Xiaoliang Ren,
    • Qiutao Ding,
    • Yu Bi,
    • Dongying Xie,
    • and Zhongying Zhao
    Genome Res. February 2020 30: 287-298; Published in Advance February 5, 2020, doi:10.1101/gr.251512.119

  • The full-length transcriptome of C. elegans using direct RNA sequencing

    • Nathan P. Roach,
    • Norah Sadowski,
    • Amelia F. Alessi,
    • Winston Timp,
    • James Taylor,
    • and John K. Kim
    Genome Res. February 2020 30: 299-312; Published in Advance February 5, 2020, doi:10.1101/gr.251314.119
    OPEN ACCESS ARTICLE

Corrigendum

  • Corrigendum: 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. February 2020 30: 313; doi:10.1101/gr.261677.120
    OPEN ACCESS ARTICLE
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This Issue

February 2020; 30 (2)
Cover
  1. Research
  2. Methods
  3. Resources
  4. Corrigendum

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