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  Tandem repeat variation in human and great ape populations and its impact on gene expression divergence

  • Tugce Bilgin Sonay,
  • Tiago Carvalho,
  • Mark D. Robinson,
  • Maja P. Greminger,
  • Michael Krützen,
  • David Comas,
  • Gareth Highnam,
  • David Mittelman,
  • Andrew Sharp,
  • Tomàs Marques-Bonet,
  • and Andreas Wagner

  Genome Res. November 2015 25: 1591-1599; Published in Advance August 19, 2015, doi:10.1101/gr.190868.115
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  GC skew defines distinct RNA polymerase pause sites in CpG island promoters

  • Wendy A. Kellner,
  • Joshua S.K. Bell,
  • and Paula M. Vertino

  Genome Res. November 2015 25: 1600-1609; Published in Advance August 14, 2015, doi:10.1101/gr.189068.114
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  Integrative analysis of RNA, translation, and protein levels reveals distinct regulatory variation across humans

  • Can Cenik,
  • Elif Sarinay Cenik,
  • Gun W. Byeon,
  • Fabian Grubert,
  • Sophie I. Candille,
  • Damek Spacek,
  • Bilal Alsallakh,
  • Hagen Tilgner,
  • Carlos L. Araya,
  • Hua Tang,
  • Emiliano Ricci,
  • and Michael P. Snyder

  Genome Res. November 2015 25: 1610-1621; Published in Advance August 21, 2015, doi:10.1101/gr.193342.115
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  DIS3 shapes the RNA polymerase II transcriptome in humans by degrading a variety of unwanted transcripts

  • Teresa Szczepińska,
  • Katarzyna Kalisiak,
  • Rafal Tomecki,
  • Anna Labno,
  • Lukasz S. Borowski,
  • Tomasz M. Kulinski,
  • Dorota Adamska,
  • Joanna Kosinska,
  • and Andrzej Dziembowski

  Genome Res. November 2015 25: 1622-1633; Published in Advance August 20, 2015, doi:10.1101/gr.189597.115
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  Exome sequencing of lymphomas from three dog breeds reveals somatic mutation patterns reflecting genetic background

  • Ingegerd Elvers,
  • Jason Turner-Maier,
  • Ross Swofford,
  • Michele Koltookian,
  • Jeremy Johnson,
  • Chip Stewart,
  • Cheng-Zhong Zhang,
  • Steven E. Schumacher,
  • Rameen Beroukhim,
  • Mara Rosenberg,
  • Rachael Thomas,
  • Evan Mauceli,
  • Gad Getz,
  • Federica Di Palma,
  • Jaime F. Modiano,
  • Matthew Breen,
  • Kerstin Lindblad-Toh,
  • and Jessica Alföldi

  Genome Res. November 2015 25: 1634-1645; Published in Advance September 16, 2015, doi:10.1101/gr.194449.115
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  Comparison against 186 canid whole-genome sequences reveals survival strategies of an ancient clonally transmissible canine tumor

  • Brennan Decker,
  • Brian W. Davis,
  • Maud Rimbault,
  • Adrienne H. Long,
  • Eric Karlins,
  • Vidhya Jagannathan,
  • Rebecca Reiman,
  • Heidi G. Parker,
  • Cord Drögemüller,
  • Jason J. Corneveaux,
  • Erica S. Chapman,
  • Jeffery M. Trent,
  • Tosso Leeb,
  • Matthew J. Huentelman,
  • Robert K. Wayne,
  • Danielle M. Karyadi,
  • and Elaine A. Ostrander

  Genome Res. November 2015 25: 1646-1655; Published in Advance July 31, 2015, doi:10.1101/gr.190314.115
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  Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers

  • Reto Burri,
  • Alexander Nater,
  • Takeshi Kawakami,
  • Carina F. Mugal,
  • Pall I. Olason,
  • Linnea Smeds,
  • Alexander Suh,
  • Ludovic Dutoit,
  • Stanislav Bureš,
  • Laszlo Z. Garamszegi,
  • Silje Hogner,
  • Juan Moreno,
  • Anna Qvarnström,
  • Milan Ružić,
  • Stein-Are Sæther,
  • Glenn-Peter Sætre,
  • Janos Török,
  • and Hans Ellegren

  Genome Res. November 2015 25: 1656-1665; Published in Advance September 9, 2015, doi:10.1101/gr.196485.115
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  An extended family of novel vertebrate photopigments is widely expressed and displays a diversity of function

  • Wayne I.L. Davies,
  • T. Katherine Tamai,
  • Lei Zheng,
  • Josephine K. Fu,
  • Jason Rihel,
  • Russell G. Foster,
  • David Whitmore,
  • and Mark W. Hankins

  Genome Res. November 2015 25: 1666-1679; Published in Advance October 8, 2015, doi:10.1101/gr.189886.115
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  Cooperative target mRNA destabilization and translation inhibition by miR-58 microRNA family in C. elegans

  • Deni Subasic,
  • Anneke Brümmer,
  • Yibo Wu,
  • Sérgio Morgado Pinto,
  • Jochen Imig,
  • Martin Keller,
  • Marko Jovanovic,
  • Helen Louise Lightfoot,
  • Sara Nasso,
  • Sandra Goetze,
  • Erich Brunner,
  • Jonathan Hall,
  • Ruedi Aebersold,
  • Mihaela Zavolan,
  • and Michael O. Hengartner

  Genome Res. November 2015 25: 1680-1691; Published in Advance July 31, 2015, doi:10.1101/gr.183160.114
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  Extensive cross-regulation of post-transcriptional regulatory networks in Drosophila

  • Marcus H. Stoiber,
  • Sara Olson,
  • Gemma E. May,
  • Michael O. Duff,
  • Jan Manent,
  • Robert Obar,
  • K.G. Guruharsha,
  • Peter J. Bickel,
  • Spyros Artavanis-Tsakonas,
  • James B. Brown,
  • Brenton R. Graveley,
  • and Susan E. Celniker

  Genome Res. November 2015 25: 1692-1702; Published in Advance August 20, 2015, doi:10.1101/gr.182675.114
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  Zelda overcomes the high intrinsic nucleosome barrier at enhancers during Drosophila zygotic genome activation

  • Yujia Sun,
  • Chung-Yi Nien,
  • Kai Chen,
  • Hsiao-Yun Liu,
  • Jeff Johnston,
  • Julia Zeitlinger,
  • and Christine Rushlow

  Genome Res. November 2015 25: 1703-1714; Published in Advance September 2, 2015, doi:10.1101/gr.192542.115
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  Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo

  • Katharine N. Schulz,
  • Eliana R. Bondra,
  • Arbel Moshe,
  • Jacqueline E. Villalta,
  • Jason D. Lieb,
  • Tommy Kaplan,
  • Daniel J. McKay,
  • and Melissa M. Harrison

  Genome Res. November 2015 25: 1715-1726; Published in Advance September 2, 2015, doi:10.1101/gr.192682.115
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  DNA-guided establishment of nucleosome patterns within coding regions of a eukaryotic genome

  • Leslie Y. Beh,
  • Manuel M. Müller,
  • Tom W. Muir,
  • Noam Kaplan,
  • and Laura F. Landweber

  Genome Res. November 2015 25: 1727-1738; Published in Advance September 1, 2015, doi:10.1101/gr.188516.114
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  Extensive de novo mutation rate variation between individuals and across the genome of Chlamydomonas reinhardtii

  • Rob W. Ness,
  • Andrew D. Morgan,
  • Radhakrishnan B. Vasanthakrishnan,
  • Nick Colegrave,
  • and Peter D. Keightley

  Genome Res. November 2015 25: 1739-1749; Published in Advance August 10, 2015, doi:10.1101/gr.191494.115
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