Corrigendum: Initiation of mtDNA transcription is followed by pausing, and diverges across human cell types and during evolution

Amit Blumberg,Anshul Kundaje,Charles G. Danko,Dan Mishmar,Edward J. Rice

Corrigendum: H3K4me1 marks DNA regions hypomethylated during aging in human stem and differentiated cells

Agustín F. Fernández,Alex,Anouk Mentink,Antonella Carella,Cecilia Ferrero,Clara Bueno,Corrado Fagnani,Emanuela Medda,Estela G. Tora？o,Fabian Claire,Flor M. Pérez-Campo,Gustavo F. Bayón,Isabel Cubillo,Jan de Boer,Javier García-Castro,Jesús Delgado-Calle,José A. Riancho,Katia Mareschi,Lorenza Nisticò,Manel Esteller,Maria A. Stazi,Mario F. Fraga,María G. García,Pablo Martinez-Camblor,Pablo Menéndez,Rocío G. Urdinguio,S,Sebastián Moran,Sonia Brescianini,Virgilia Toccaceli,ra Petrus-Reurer,ra Stolzing

MicroRNAs reinforce repression of PRC2 transcriptional targets independently and through a feed-forward regulatory network

Haridha Shivram,Steven V. Le,Vishwanath R. Iyer

The origins and evolution of chromosomes, dosage compensation, and mechanisms underlying venom regulation in snakes

Andrew B. Corbin,Balan Ramesh,Blair W. Perry,Cara F. Smith,Daren C. Card,Drew R. Schield,Esther Betrán,Giulia M. Pasquesi,Heath Blackmon,Jeffery P. Demuth,Jesse M. Meik,Marc Tollis,Nicole R. Hales,Richard H. Adams,Stephen P. Mackessy,Todd A. Castoe

GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes

Bin Z. He,Chunyan Chen,Daqi Yu,Ge Gao,Hao Shen,Hua Chen,Manyuan Long,Shilei Zhao,Shuai Jiang,Xi Chen,Yan Fu,Yi Shao,Yong E. Zhang,Zhenglin Zhu,Zhiqiang Gao

Ancient exapted transposable elements promote nuclear enrichment of human long noncoding RNAs

Carmen Navarro,Joana Carlevaro-Fita,Monalisa Das,Rory Johnson,Taisia Polidori,Tatjana I. Zoller

Experimental and pan-cancer genome analyses reveal widespread contribution of acrylamide exposure to carcinogenesis in humans

Adriana Heguy,Alexis Robitaille,Alvin W.T. Ng,Claire Renard,Frederick A. Bel,James McKay,Jiri Zavadil,Kathryn Z. Guyton,Liacine Bouaoun,Magali Olivier,Manuraj P,Maria Zhivagui,Martha R. Stampfer,Maude Ardin,Michael Korenjak,Mona I. Churchwell,Monica Hollstein,Stephanie Villar,Steven G. Rozen,Vincent Cahais,ey

Improved discovery of genetic interactions using CRISPRiSeq across multiple environments

Adam Dziulko,Gavin Sherlock,Justin D. Smith,Mia Jaffe,Robert P. St.Onge,Sasha F. Levy

Gene duplication and genetic innovation in cereal genomes

Andrew H. Paterson,Hui Guo,Huizhe Jin,Xianzhong Huang,Xiyin Wang,Xu Tan,Yuannian Jiao

A physical and genetic map of Cannabis sativa identifies extensive rearrangements at the THC/CBD acid synthase loci

Gintaras Deikus,Hardik Shah,Harm van Bakel,Jake M. Stout,Jonathan E. Page,Kaitlin U. Laverty,Larry Holbrook,Mitchell J. Sullivan,Navdeep Gill,Robert Sebra,Timothy R. Hughes

Minerva: an alignment- and reference-free approach to deconvolve Linked-Reads for metagenomics

Christopher Mason,Daniela Bezdan,David C. Danko,Dmitry Meleshko,Iman Hajirasouliha

Transposable element insertions in fission yeast drive adaptation to environmental stress

Caroline Esnault,Chloe Ham,Henry L. Levin,Michael Lee

A quantitative framework for characterizing the evolutionary history of mammalian gene expression

Aviv Regev,Beryl B. Cummings,Federica di Palma,Jenny Chen,Jeremy Johnson,Kerstin Lindblad-Toh,Noga Rogel,Ross Swofford,Wilfried Haerty

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

Celina Costas,Crisanto Gutierrez,Irene Aragüez,Joana Sequeira-Mendes,Jordi Morata,Josep M. Casacuberta,Ramon Peiró,Raul Mendez-Giraldez,Ugo Bastolla,Zaida Vergara

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

Andrea Ennio Storti,Marta Bozek,Nicolas Gompel,Roberto Cortini,Ulrich Unnerstall,Ulrike Gaul

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

Duncan M. Baird,Eric A. Hendrickson,Julia W. Grimstead,Kez Cleal,Rhiannon E. Jones

Epigenetic mapping of the Arabidopsis metabolome reveals mediators of the epigenotype-phenotype map

Frank Becker,Frank Johannes,Henri？tte van Eekelen,Joost J.B. Keurentjes,Lionel Morgado,Qunfeng Zheng,Rashmi Hazarika,Ric C.H. de Vos,Rik Kooke

Structural variants in 3000 rice genomes

Andrey Grigoriev,Dmytro Chebotarov,Jorge Duitama,Juan Fern,Kenneth L. McNally,Marghoob Mohiyuddin,Nickolai Alex,Ramil Mauleon,Rod A. Wing,Roven Rommel Fuentes,Sean Smith,Tatiana Tatarinova,o De la Hoz,rov

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

Betsy Ferguson,Deborah E. Newman,Jacqueline A. Robinson,Jeannie Chan,Jeffrey D. Wall,Jeremy P. Glenn,Laura A. Cox,Saurabh Belsare,Shifra Birnbaum

Accurate analysis of genuine CRISPR editing events with ampliCan

Alej,Eivind Valen,George Church,James A. Gagnon,Kornel Labun,Xiaoge Guo,ro Chavez

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

Aaron D. Gitler,Andrew Allen,Brittany N. Lasseigne,Charles J. Wolock,Cristiane de Araujo Martins Moreno,David B. Goldstein,Elizabeth T. Cirulli,Guy A. Rouleau,Hemali Phatnani,Matthew B. Harms,Neil A. Shneider,Richard M. Myers,Robert H. Brown Jr,Sahar Gelfman,Sarah Dugger,Slavé Petrovski,Tim Harris,Tom Maniatis,Zhong Ren

A chromosome-scale assembly of the axolotl genome

Drew Hardy,Jeramiah J. Smith,Melissa C. Keinath,Nataliya Timoshevskaya,S. R,Vladimir A. Timoshevskiy,al Voss

Identification of regulatory elements from nascent transcription using dREG

Charles G. Danko,Lauren A. Choate,Tinyi Chu,Zhong Wang

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

Andrei Alexeev,Ao Chen,Brock A. Peters,Chongjun Xu,Christian Villarosa,Dan Chen,Darlene Nguyen,Ellis Anderson,Fei Fan,Han K. Lam,He Wang,Huanming Yang,Jia Sophie Liu,Jian Wang,Jingbo Tang,Jingwan Wang,Karsten Kristiansen,Linying Wang,Michelle Ka Yan Wu,Nina Barua,Ou Wang,Qing Mao,Radoje Drmanac,Rebecca Yu Zhang,Robert Chin,Scott Gablenz,Snezana Drmanac,Staci Nguyen,Wenlan Tian,Wenwei Zhang,Xiao Liu,Xiaofang Cheng,Xiaojuan Qi,Xun Xu,Yan Zou,Yinlong Xie,Yuhui Sun,Yujun Zhou,Yuliang Dong

Interplay between coding and exonic splicing regulatory sequences

Cyril F. Bourgeois,Didier Auboeuf,Fabien Aubé,Franck Mortreux,Hélène Polvèche,Jean-Baptiste Claude,Laurent Modolo,Léon-Charles Tranchevent,Nicolas Fontrodona,Sébastien Lemaire

Beta-binomial modeling of CRISPR pooled screen data identifies target genes with greater sensitivity and fewer false negatives

Huda Y. Zoghbi,Hyun-Hwan Jeong,Maxime W.C. Rousseaux,Seon Young Kim,Zh,ong Liu

The C. elegans embryonic transcriptome with tissue, time, and alternative splicing resolution

Adam D. Warner,Brent Ewing,LaDeana W. Hillier,Louis Gevirtzman,Robert H. Waterston

A massively parallel 3′ UTR reporter assay reveals relationships between nucleotide content, sequence conservation, and mRNA destabilization

Adam J. Litterman,David J. Erle,Hani Goodarzi,John D. Gagnon,K. Mark Ansel,Olivier Le Tonqueze,Robin Kageyama,Wenxue Zhao

Systems analysis reveals complex biological processes during virus infection fate decisions

Andreas Meyerhans,Anna Esteve-Codina,Burkhard Ludewig,Cristina Peligero-Cruz,David Andreu,Enric Vidal,Gennady Bocharov,Graciela Riera,Jordi Argilaguet,Mireia Pedragosa,Simon Heath,Tsuneyasu Kaisho,Valentina Casella

Genome-wide reconstitution of chromatin transactions reveals that RSC preferentially disrupts H2AZ-containing nucleosomes

Andreas H. Ehrensberger,Aylin Cakiroglu,Bradley R. Cairns,Cedric R. Clapier,Elodie Darbo,Jesper Q. Svejstrup,Nicholas M. Luscombe

Recompleting the Caenorhabditis elegans genome

Andrew Z. Fire,Ann E. Rougvie,Cheryl L. Smith,Erich M. Schwarz,Idan Gabdank,Jun Yoshimura,Karen L. Artiles,Kazuki Ichikawa,Lamia Wahba,Mark L. Edgley,Massa J. Shoura,Shinichi Morishita

Long-read sequencing reveals intra-species tolerance of substantial structural variations and new subtelomere formation in C. elegans

Chuna Kim,Daniel E. Cook,Erik C. Andersen,Jun Kim,Junho Lee,Kathryn S. Evans,Sunghyun Kim

Exome-wide assessment of the functional impact and pathogenicity of multinucleotide mutations

Genome wide analysis of 3′ UTR sequence elements and proteins regulating mRNA stability during maternal-to-zygotic transition in zebrafish

Antonio J. Giraldez,Carter M. Takacs,Charles E. Vejnar,Damir Musaev,Daniel Cifuentes,Hiba Darwich-Codore,Jean-Denis Beaudoin,Mario Abdel Messih,Marlon Stoeckius,Miler T. Lee,Panos Oikonomou,Romain Christiano,Saeed Tavazoie,Stephanie Lau,Tobias C. Walther,Valeria Yartseva

Histone methyltransferase PRDM9 is not essential for meiosis in male mice

Christopher L. Baker,Eliska Linhartova,Florencia Pratto,Kenneth Paigen,Kevin Brick,Ondrej Mihola,Petko M. Petkov,Petr Flachs,R. Daniel Camerini-Otero,Radislav Sedlacek,Tatyana Kobets,Zdenek Trachtulec

Deficiency of nucleotide excision repair is associated with mutational signature observed in cancer

Edwin Cuppen,Ewart Kuijk,Francis Blokzijl,Jakob Skou Pedersen,Jan Hoeijmakers,Joep de Ligt,Johanna Bertl,Joris Pothof,Maria Vougioukalaki,Myrthe Jager,Nicolle Besselink,Roel Janssen,Ruben van Boxtel,S,er Boymans

Growth disrupting mutations in epigenetic regulatory molecules are associated with abnormalities of epigenetic aging

Aaron R. Jeffries,Ajith Kumar,Am,Andrew H. Crosby,Angelo Selicorni,Arveen Kamath,Barry A. Chioza,Claire G. Salter,Deborah J.G. Mackay,Diana Baralle,Emma Dempster,Emma L. Baple,Faisal I. Rezwan,Harold E. Cross,I. Karen Temple,Jonathan Mill,Katrina Tatton-Brown,Lionel Van Maldergem,Lise Aksglaede,Matthew F. Hunter,Michael A. Patton,Naomi Yachelevich,Reza Maroofian,Ruth Newbury-Ecob,Tabib Dabir,Vinod Varghese,a Springer

Rapid reversible changes in compartments and local chromatin organization revealed by hyperosmotic shock

Enrique Vidal,Eulàlia de Nadal,Francesc Posas,Fran？ois Le Dily,Javier Quilez,Miguel Beato,Ramon Amat,René B？ttcher,Yasmina Cuartero

Nucleosome remodeling at origins of global genome–nucleotide excision repair occurs at the boundaries of higher-order chromatin structure

Mark Bennett,Matthew Leadbitter,Patrick van Eijk,Shirong Yu,Shuvro Prokash N,Yumin Teng,i

Global analysis of protein homomerization in Saccharomyces cerevisiae

Chan-Gi Pack,Jong Pil Jung,Won-Ki Huh,Yeonsoo Kim

Widespread roles of enhancer-like transposable elements in cell identity and long-range genomic interactions

Chi Xu,Daosheng Ai,Gang Wu,Guoyu Chen,Jing-Dong J. Han,Joseph McDermott,Quanlong Jiang,Xiaoli Zhang,Xingwei Chen,Yaqiang Cao,Yi Huang,Yingying Zeng,Zhaoxiong Chen

Ribosomal DNA harbors an evolutionarily conserved clock of biological aging

Bernardo Lemos,Meng Wang

JACKS: joint analysis of CRISPR/Cas9 knockout screens

Anton Khodak,Felicity Allen,Fiona Behan,Francesco Iorio,Kosuke Yusa,Leopold Parts,Mathew Garnett

Corrigendum: Inherited DNA methylation primes the establishment of accessible chromatin during genome activation

Guifen Liu,Shengen Hu,Wen Wang,Xiangxiu Wang,Yong Zhang

Most chromatin interactions are not in linkage disequilibrium

Katherine S. Pollard,Sean Whalen

Contrasting roles of the RSC and ISW1/CHD1 chromatin remodelers in RNA polymerase II elongation and termination

David J. Clark,Josefina Ocampo,Peter R. Eriksson,R？zvan V. Chereji

Pou5f3, SoxB1, and Nanog remodel chromatin on high nucleosome affinity regions at zygotic genome activation

Bj？rn Grüning,Daria Onichtchouk,Lev Y. Yampolsky,Marina Veil

4q-D4Z4 chromatin architecture regulates the transcription of muscle atrophic genes in facioscapulohumeral muscular dystrophy

Alice Cortesi,Beatrice Bodega,Chiara Chiereghin,Eleonora Sala,Federica Marasca,Francesco Gregoretti,Gennaro Oliva,Giulia Soldà,Laura Antonelli,Matthieu Pesant,Shruti Sinha

Sydney Brenner—a personal perspective

Byrappa Venkatesh

Human contamination in bacterial genomes has created thousands of spurious proteins

Aleksey V. Zimin,Florian P. Breitwieser,Mihaela Pertea,Steven L. Salzberg