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Research

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  Single-cell DNA sequencing reveals a late-dissemination model in metastatic colorectal cancer

  • Marco L. Leung,
  • Alexander Davis,
  • Ruli Gao,
  • Anna Casasent,
  • Yong Wang,
  • Emi Sei,
  • Eduardo Vilar,
  • Dipen Maru,
  • Scott Kopetz,
  • and Nicholas E. Navin

  Genome Res. August 2017 27: 1287-1299; Published in Advance May 25, 2017, doi:10.1101/gr.209973.116
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  Integrated single-cell genetic and transcriptional analysis suggests novel drivers of chronic lymphocytic leukemia

  • Lili Wang,
  • Jean Fan,
  • Joshua M. Francis,
  • George Georghiou,
  • Sarah Hergert,
  • Shuqiang Li,
  • Rutendo Gambe,
  • Chensheng W. Zhou,
  • Chunxiao Yang,
  • Sheng Xiao,
  • Paola Dal Cin,
  • Michaela Bowden,
  • Dylan Kotliar,
  • Sachet A. Shukla,
  • Jennifer R. Brown,
  • Donna Neuberg,
  • Dario R. Alessi,
  • Cheng-Zhong Zhang,
  • Peter V. Kharchenko,
  • Kenneth J. Livak,
  • and Catherine J. Wu

  Genome Res. August 2017 27: 1300-1311; Published in Advance July 5, 2017, doi:10.1101/gr.217331.116
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  Single-cell sequencing deciphers a convergent evolution of copy number alterations from primary to circulating tumor cells

  • Yan Gao,
  • Xiaohui Ni,
  • Hua Guo,
  • Zhe Su,
  • Yi Ba,
  • Zhongsheng Tong,
  • Zhi Guo,
  • Xin Yao,
  • Xixi Chen,
  • Jian Yin,
  • Zhao Yan,
  • Lin Guo,
  • Ying Liu,
  • Fan Bai,
  • X. Sunney Xie,
  • and Ning Zhang

  Genome Res. August 2017 27: 1312-1322; Published in Advance May 9, 2017, doi:10.1101/gr.216788.116
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  Integrated genome and transcriptome sequencing identifies a noncoding mutation in the genome replication factor DONSON as the cause of microcephaly-micromelia syndrome

  • Gilad D. Evrony,
  • Dwight R. Cordero,
  • Jun Shen,
  • Jennifer N. Partlow,
  • Timothy W. Yu,
  • Rachel E. Rodin,
  • R. Sean Hill,
  • Michael E. Coulter,
  • Anh-Thu N. Lam,
  • Divya Jayaraman,
  • Dianne Gerrelli,
  • Diana G. Diaz,
  • Chloe Santos,
  • Victoria Morrison,
  • Antonella Galli,
  • Ulrich Tschulena,
  • Stefan Wiemann,
  • M. Jocelyne Martel,
  • Betty Spooner,
  • Steven C. Ryu,
  • Princess C. Elhosary,
  • Jillian M. Richardson,
  • Danielle Tierney,
  • Christopher A. Robinson,
  • Rajni Chibbar,
  • Dana Diudea,
  • Rebecca Folkerth,
  • Sheldon Wiebe,
  • A. James Barkovich,
  • Ganeshwaran H. Mochida,
  • James Irvine,
  • Edmond G. Lemire,
  • Patricia Blakley,
  • and Christopher A. Walsh

  Genome Res. August 2017 27: 1323-1335; Published in Advance June 19, 2017, doi:10.1101/gr.219899.116
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  Human mismatch repair system balances mutation rates between strands by removing more mismatches from the lagging strand

  • Maria A. Andrianova,
  • Georgii A. Bazykin,
  • Sergey I. Nikolaev,
  • and Vladimir B. Seplyarskiy

  Genome Res. August 2017 27: 1336-1343; Published in Advance May 16, 2017, doi:10.1101/gr.219915.116
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  DDX54 regulates transcriptome dynamics during DNA damage response

  • Miha Milek,
  • Koshi Imami,
  • Neelanjan Mukherjee,
  • Francesca De Bortoli,
  • Ulrike Zinnall,
  • Orsalia Hazapis,
  • Christian Trahan,
  • Marlene Oeffinger,
  • Florian Heyd,
  • Uwe Ohler,
  • Matthias Selbach,
  • and Markus Landthaler

  Genome Res. August 2017 27: 1344-1359; Published in Advance June 8, 2017, doi:10.1101/gr.218438.116
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  Ancient antagonism between CELF and RBFOX families tunes mRNA splicing outcomes

  • Matthew R. Gazzara,
  • Michael J. Mallory,
  • Renat Roytenberg,
  • John P. Lindberg,
  • Anupama Jha,
  • Kristen W. Lynch,
  • and Yoseph Barash

  Genome Res. August 2017 27: 1360-1370; Published in Advance May 16, 2017, doi:10.1101/gr.220517.117
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  The identification and functional annotation of RNA structures conserved in vertebrates

  • Stefan E. Seemann,
  • Aashiq H. Mirza,
  • Claus Hansen,
  • Claus H. Bang-Berthelsen,
  • Christian Garde,
  • Mikkel Christensen-Dalsgaard,
  • Elfar Torarinsson,
  • Zizhen Yao,
  • Christopher T. Workman,
  • Flemming Pociot,
  • Henrik Nielsen,
  • Niels Tommerup,
  • Walter L. Ruzzo,
  • and Jan Gorodkin

  Genome Res. August 2017 27: 1371-1383; Published in Advance May 9, 2017, doi:10.1101/gr.208652.116
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  Long terminal repeats power evolution of genes and gene expression programs in mammalian oocytes and zygotes

  • Vedran Franke,
  • Sravya Ganesh,
  • Rosa Karlic,
  • Radek Malik,
  • Josef Pasulka,
  • Filip Horvat,
  • Maja Kuzman,
  • Helena Fulka,
  • Marketa Cernohorska,
  • Jana Urbanova,
  • Eliska Svobodova,
  • Jun Ma,
  • Yutaka Suzuki,
  • Fugaku Aoki,
  • Richard M. Schultz,
  • Kristian Vlahovicek,
  • and Petr Svoboda

  Genome Res. August 2017 27: 1384-1394; Published in Advance May 18, 2017, doi:10.1101/gr.216150.116
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  Heritable L1 retrotransposition in the mouse primordial germline and early embryo

  • Sandra R. Richardson,
  • Patricia Gerdes,
  • Daniel J. Gerhardt,
  • Francisco J. Sanchez-Luque,
  • Gabriela-Oana Bodea,
  • Martin Muñoz-Lopez,
  • J. Samuel Jesuadian,
  • Marie-Jeanne H.C. Kempen,
  • Patricia E. Carreira,
  • Jeffrey A. Jeddeloh,
  • Jose L. Garcia-Perez,
  • Haig H. Kazazian, Jr.,
  • Adam D. Ewing,
  • and Geoffrey J. Faulkner

  Genome Res. August 2017 27: 1395-1405; Published in Advance May 8, 2017, doi:10.1101/gr.219022.116
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  DNA replication timing during development anticipates transcriptional programs and parallels enhancer activation

  • Joseph C. Siefert,
  • Constantin Georgescu,
  • Jonathan D. Wren,
  • Amnon Koren,
  • and Christopher L. Sansam

  Genome Res. August 2017 27: 1406-1416; Published in Advance May 16, 2017, doi:10.1101/gr.218602.116
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  The house fly Y Chromosome is young and minimally differentiated from its ancient X Chromosome partner

  • Richard P. Meisel,
  • Christopher A. Gonzales,
  • and Hoang Luu

  Genome Res. August 2017 27: 1417-1426; Published in Advance June 15, 2017, doi:10.1101/gr.215509.116
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  Dehydration stress extends mRNA 3′ untranslated regions with noncoding RNA functions in Arabidopsis

  • Hai-Xi Sun,
  • Yan Li,
  • Qi-Wen Niu,
  • and Nam-Hai Chua

  Genome Res. August 2017 27: 1427-1436; Published in Advance May 18, 2017, doi:10.1101/gr.218669.116
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  Systematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131

  • Teemu Kallonen,
  • Hayley J. Brodrick,
  • Simon R. Harris,
  • Jukka Corander,
  • Nicholas M. Brown,
  • Veronique Martin,
  • Sharon J. Peacock,
  • and Julian Parkhill

  Genome Res. August 2017 27: 1437-1449; Published in Advance July 18, 2017, doi:10.1101/gr.216606.116
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