Table of Contents

September 2020; 30 (9)

Research

  • Chromatin activation as a unifying principle underlying pathogenic mechanisms in multiple myeloma

    • Raquel Ordoñez,
    • Marta Kulis,
    • Nuria Russiñol,
    • Vicente Chapaprieta,
    • Arantxa Carrasco-Leon,
    • Beatriz García-Torre,
    • Stella Charalampopoulou,
    • Guillem Clot,
    • Renée Beekman,
    • Cem Meydan,
    • Martí Duran-Ferrer,
    • Núria Verdaguer-Dot,
    • Roser Vilarrasa-Blasi,
    • Paula Soler-Vila,
    • Leire Garate,
    • Estíbaliz Miranda,
    • Edurne San José-Enériz,
    • Juan R. Rodriguez-Madoz,
    • Teresa Ezponda,
    • Rebeca Martínez-Turrilas,
    • Amaia Vilas-Zornoza,
    • David Lara-Astiaso,
    • Daphné Dupéré-Richer,
    • Joost H.A. Martens,
    • Halima El-Omri,
    • Ruba Y. Taha,
    • Maria J. Calasanz,
    • Bruno Paiva,
    • Jesus San Miguel,
    • Paul Flicek,
    • Ivo Gut,
    • Ari Melnick,
    • Constantine S. Mitsiades,
    • Jonathan D. Licht,
    • Elias Campo,
    • Hendrik G. Stunnenberg,
    • Xabier Agirre,
    • Felipe Prosper,
    • and Jose I. Martin-Subero
    Genome Res. September 2020 30: 1217-1227; Published in Advance August 20, 2020, doi:10.1101/gr.265520.120
    OPEN ACCESS ARTICLE

  • Somatic structural variation targets neurodevelopmental genes and identifies SHANK2 as a tumor suppressor in neuroblastoma

    • Gonzalo Lopez,
    • Karina L. Conkrite,
    • Miriam Doepner,
    • Komal S. Rathi,
    • Apexa Modi,
    • Zalman Vaksman,
    • Lance M. Farra,
    • Eric Hyson,
    • Moataz Noureddine,
    • Jun S. Wei,
    • Malcolm A. Smith,
    • Shahab Asgharzadeh,
    • Robert C. Seeger,
    • Javed Khan,
    • Jaime Guidry Auvil,
    • Daniela S. Gerhard,
    • John M. Maris,
    • and Sharon J. Diskin
    Genome Res. September 2020 30: 1228-1242; Published in Advance August 13, 2020, doi:10.1101/gr.252106.119

  • Long-read sequencing for non-small-cell lung cancer genomes

    • Yoshitaka Sakamoto,
    • Liu Xu,
    • Masahide Seki,
    • Toshiyuki T. Yokoyama,
    • Masahiro Kasahara,
    • Yukie Kashima,
    • Akihiro Ohashi,
    • Yoko Shimada,
    • Noriko Motoi,
    • Katsuya Tsuchihara,
    • Susumu S. Kobayashi,
    • Takashi Kohno,
    • Yuichi Shiraishi,
    • Ayako Suzuki,
    • and Yutaka Suzuki
    Genome Res. September 2020 30: 1243-1257; Published in Advance September 4, 2020, doi:10.1101/gr.261941.120
    OPEN ACCESS ARTICLE

  • Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing

    • Sergey Aganezov,
    • Sara Goodwin,
    • Rachel M. Sherman,
    • Fritz J. Sedlazeck,
    • Gayatri Arun,
    • Sonam Bhatia,
    • Isac Lee,
    • Melanie Kirsche,
    • Robert Wappel,
    • Melissa Kramer,
    • Karen Kostroff,
    • David L. Spector,
    • Winston Timp,
    • W. Richard McCombie,
    • and Michael C. Schatz
    Genome Res. September 2020 30: 1258-1273; Published in Advance September 4, 2020, doi:10.1101/gr.260497.119

Methods

  • Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples

    • Sergey Aganezov and
    • Benjamin J. Raphael
    Genome Res. September 2020 30: 1274-1290; Published in Advance September 4, 2020, doi:10.1101/gr.256701.119

  • HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

    • Sergey Nurk,
    • Brian P. Walenz,
    • Arang Rhie,
    • Mitchell R. Vollger,
    • Glennis A. Logsdon,
    • Robert Grothe,
    • Karen H. Miga,
    • Evan E. Eichler,
    • Adam M. Phillippy,
    • and Sergey Koren
    Genome Res. September 2020 30: 1291-1305; Published in Advance August 14, 2020, doi:10.1101/gr.263566.120
    OPEN ACCESS ARTICLE

  • Background-suppressed live visualization of genomic loci with an improved CRISPR system based on a split fluorophore

    • Narendra Chaudhary,
    • Si-Hyeong Nho,
    • Hayoon Cho,
    • Narangerel Gantumur,
    • Jae Sun Ra,
    • Kyungjae Myung,
    • and Hajin Kim
    Genome Res. September 2020 30: 1306-1316; Published in Advance September 4, 2020, doi:10.1101/gr.260018.119

  • High-throughput single-cell functional elucidation of neurodevelopmental disease–associated genes reveals convergent mechanisms altering neuronal differentiation

    • Matthew A. Lalli,
    • Denis Avey,
    • Joseph D. Dougherty,
    • Jeffrey Milbrandt,
    • and Robi D. Mitra
    Genome Res. September 2020 30: 1317-1331; Published in Advance September 4, 2020, doi:10.1101/gr.262295.120

  • Native molecule sequencing by nano-ID reveals synthesis and stability of RNA isoforms

    • Kerstin C. Maier,
    • Saskia Gressel,
    • Patrick Cramer,
    • and Björn Schwalb
    Genome Res. September 2020 30: 1332-1344; Published in Advance September 4, 2020, doi:10.1101/gr.257857.119

  • Molecular barcoding of native RNAs using nanopore sequencing and deep learning

    • Martin A. Smith,
    • Tansel Ersavas,
    • James M. Ferguson,
    • Huanle Liu,
    • Morghan C. Lucas,
    • Oguzhan Begik,
    • Lilly Bojarski,
    • Kirston Barton,
    • and Eva Maria Novoa
    Genome Res. September 2020 30: 1345-1353; Published in Advance September 9, 2020, doi:10.1101/gr.260836.120

  • High precision Neisseria gonorrhoeae variant and antimicrobial resistance calling from metagenomic Nanopore sequencing

    • Nicholas D. Sanderson,
    • Jeremy Swann,
    • Leanne Barker,
    • James Kavanagh,
    • Sarah Hoosdally,
    • Derrick Crook,
    • The GonFast Investigators Group,
    • Teresa L. Street,
    • and David W. Eyre
    Genome Res. September 2020 30: 1354-1363; Published in Advance September 1, 2020, doi:10.1101/gr.262865.120
    OPEN ACCESS ARTICLE

  • The Nubeam reference-free approach to analyze metagenomic sequencing reads

    • Hang Dai and
    • Yongtao Guan
    Genome Res. September 2020 30: 1364-1375; Published in Advance September 3, 2020, doi:10.1101/gr.261750.120
    OPEN ACCESS ARTICLE

Corrigenda

  • Corrigendum: 3′ UTR lengthening as a novel mechanism in regulating cellular senescence

    • Meng Chen,
    • Guoliang Lyu,
    • Miao Han,
    • Hongbo Nie,
    • Ting Shen,
    • Wei Chen,
    • Yichi Niu,
    • Yifan Song,
    • Xueping Li,
    • Huan Li,
    • Xinyu Chen,
    • Ziyue Wang,
    • Zheng Xia,
    • Wei Li,
    • Xiao-Li Tian,
    • Chen Ding,
    • Jun Gu,
    • Yufang Zheng,
    • Xinhua Liu,
    • Jinfeng Hu,
    • Gang Wei,
    • Wei Tao,
    • and Ting Ni
    Genome Res. September 2020 30: 1376-1; doi:10.1101/gr.270165.120
    OPEN ACCESS ARTICLE

  • Corrigendum: Functional annotation of human long noncoding RNAs via molecular phenotyping

    • Jordan A. Ramilowski,
    • Chi Wai Yip,
    • Saumya Agrawal,
    • Jen-Chien Chang,
    • Yari Ciani,
    • Ivan V. Kulakovskiy,
    • Mickaël Mendez,
    • Jasmine Li Ching Ooi,
    • John F. Ouyang,
    • Nick Parkinson,
    • Andreas Petri,
    • Leonie Roos,
    • Jessica Severin,
    • Kayoko Yasuzawa,
    • Imad Abugessaisa,
    • Altuna Akalin,
    • Ivan V. Antonov,
    • Erik Arner,
    • Alessandro Bonetti,
    • Hidemasa Bono,
    • Beatrice Borsari,
    • Frank Brombacher,
    • Christopher J.F. Cameron,
    • Carlo Vittorio Cannistraci,
    • Ryan Cardenas,
    • Melissa Cardon,
    • Howard Chang,
    • Josée Dostie,
    • Luca Ducoli,
    • Alexander Favorov,
    • Alexandre Fort,
    • Diego Garrido,
    • Noa Gil,
    • Juliette Gimenez,
    • Reto Guler,
    • Lusy Handoko,
    • Jayson Harshbarger,
    • Akira Hasegawa,
    • Yuki Hasegawa,
    • Kosuke Hashimoto,
    • Norihito Hayatsu,
    • Peter Heutink,
    • Tetsuro Hirose,
    • Eddie L. Imada,
    • Masayoshi Itoh,
    • Bogumil Kaczkowski,
    • Aditi Kanhere,
    • Emily Kawabata,
    • Hideya Kawaji,
    • Tsugumi Kawashima,
    • S. Thomas Kelly,
    • Miki Kojima,
    • Naoto Kondo,
    • Haruhiko Koseki,
    • Tsukasa Kouno,
    • Anton Kratz,
    • Mariola Kurowska-Stolarska,
    • Andrew Tae Jun Kwon,
    • Jeffrey Leek,
    • Andreas Lennartsson,
    • Marina Lizio,
    • Fernando López-Redondo,
    • Joachim Luginbühl,
    • Shiori Maeda,
    • Vsevolod J. Makeev,
    • Luigi Marchionni,
    • Yulia A. Medvedeva,
    • Aki Minoda,
    • Ferenc Müller,
    • Manuel Muñoz-Aguirre,
    • Mitsuyoshi Murata,
    • Hiromi Nishiyori,
    • Kazuhiro R. Nitta,
    • Shuhei Noguchi,
    • Yukihiko Noro,
    • Ramil Nurtdinov,
    • Yasushi Okazaki,
    • Valerio Orlando,
    • Denis Paquette,
    • Callum J.C. Parr,
    • Owen J.L. Rackham,
    • Patrizia Rizzu,
    • Diego Fernando Sánchez Martinez,
    • Albin Sandelin,
    • Pillay Sanjana,
    • Colin A.M. Semple,
    • Youtaro Shibayama,
    • Divya M. Sivaraman,
    • Takahiro Suzuki,
    • Suzannah C. Szumowski,
    • Michihira Tagami,
    • Martin S. Taylor,
    • Chikashi Terao,
    • Malte Thodberg,
    • Supat Thongjuea,
    • Vidisha Tripathi,
    • Igor Ulitsky,
    • Roberto Verardo,
    • Ilya E. Vorontsov,
    • Chinatsu Yamamoto,
    • Robert S. Young,
    • J. Kenneth Baillie,
    • Alistair R.R. Forrest,
    • Roderic Guigó,
    • Michael M. Hoffman,
    • Chung Chau Hon,
    • Takeya Kasukawa,
    • Sakari Kauppinen,
    • Juha Kere,
    • Boris Lenhard,
    • Claudio Schneider,
    • Harukazu Suzuki,
    • Ken Yagi,
    • Michiel J.L. de Hoon,
    • Jay W. Shin,
    • and Piero Carninci
    Genome Res. September 2020 30: 1377-1; doi:10.1101/gr.270330.120
    OPEN ACCESS ARTICLE
|

This Issue

September 2020; 30 (9)
Cover
  1. Research
  2. Methods
  3. Corrigenda

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