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Letter

Dynamic changes in the human methylome during differentiation

Louise Laurent
Eleanor Wong
Guoliang Li
Tien Huynh
Aristotelis Tsirigos
Chin Thing Ong Hwee Meng Low
... [+2 authors] ...,
Ken Wing Kin Sung
Isidore Rigoutsos
Jeanne Loring
Chia-Lin Wei

First Published February 4, 2010

Letter

ATRX interacts with H3.3 in maintaining telomere structural integrity in pluripotent embryonic stem cells

Lee H. Wong
James D. McGhie
Marcus Sim
Melissa A. Anderson
Soyeon Ahn
Ross D. Hannan
... [+1 authors] ...,
Amee J. George
Kylie A. Morgan
Jeffrey R. Mann
K.H. Andy Choo

First Published January 28, 2010

Letter

Widespread and tissue specific age-related DNA methylation changes in mice

Shinji Maegawa
George Hinkal
Hyun Soo Kim
Lanlan Shen
Li Zhang
Jiexin Zhang
... [+1 authors] ...,
Nianxiang Zhang
Shoudan Liang
Lawrence A. Donehower
Jean-Pierre J. Issa

First Published January 27, 2010

Letter

Copy number abnormalities in sporadic canine colorectal cancers

Jie Tang
Shoshona Le
Liang Sun
Xiuzhen Yan
Mucheng Zhang
Jennifer MacLeod Bruce LeRoy Nicole Northrup Angela Ellis
... [+4 authors] ...,
Timothy J. Yeatman
Yanchun Liang
Michael E. Zwick
Shaying Zhao

First Published January 19, 2010

Letter

Schizosaccharomyces pombe causes nucleosome loss in both promoters and coding regions of activated genes" > Nitrogen depletion in the fission yeast Schizosaccharomyces pombe causes nucleosome loss in both promoters and coding regions of activated genes

Carolina Kristell
Jakub Orzechowski Westholm
Ida Olsson
Hans Ronne
Jan Komorowski
Pernilla Bjerling

First Published January 19, 2010

Letter

Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes

David L. Goode
Gregory M. Cooper
Jeremy Schmutz
Mark Dickson
Eidelyn Gonzales
Ming Tsai Kalpana Karra
... [+2 authors] ...,
Eugene Davydov
Serafim Batzoglou
Richard M. Myers
Arend Sidow

First Published January 12, 2010

Letter

Nucleosome landscape and control of transcription in the human malaria parasite

Nadia Ponts
Elena Y. Harris
Jacques Prudhomme
Ivan Wick
Colleen Eckhardt-Ludka
Glenn R. Hicks
Gary Hardiman
Stefano Lonardi
Karine G. Le Roch

First Published January 6, 2010

Letter

Schizosaccharomyces pombe" > High-throughput sequencing of retrotransposon integration provides a saturated profile of target activity in Schizosaccharomyces pombe

Yabin Guo
Henry L. Levin

First Published December 29, 2009

Letter

Human genetic variation recognizes functional elements in noncoding sequence

David Lomelin
Eric Jorgenson
Neil Risch

First Published December 23, 2009

Letter

Changes in the pattern of DNA methylation associate with twin discordance in systemic lupus erythematosus

Biola M. Javierre
Agustin F. Fernandez
Julia Richter
Fatima Al-Shahrour
J. Ignacio Martin-Subero
Javier Rodriguez-Ubreva Maria Berdasco Mario F. Fraga Terrance P. O'Hanlon Lisa G. Rider Filipe V. Jacinto F. Javier Lopez-Longo Joaquin Dopazo Marta Forn Miguel A. Peinado Luis Carreño Amr H. Sawalha John B. Harley
... [+13 authors] ...,
Reiner Siebert
Manel Esteller
Frederick W. Miller
Esteban Ballestar

First Published December 22, 2009

Letter

Sex-specific and lineage-specific alternative splicing in primates

Ran Blekhman
John C. Marioni
Paul Zumbo
Matthew Stephens
Yoav Gilad

First Published December 15, 2009

Letter

Bayesian network analysis of targeting interactions in chromatin

Bas van Steensel
Ulrich Braunschweig
Guillaume J. Filion
Menzies Chen
Joke G. van Bemmel
Trey Ideker

First Published December 9, 2009

Letter

Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading" > Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading

Heather K. MacAlpine
Raluca Gordân
Sara K. Powell
Alexander J. Hartemink
David M. MacAlpine

First Published December 7, 2009

Letter

Ecological adaptation determines functional mammalian olfactory subgenomes

Sara Hayden
Michaël Bekaert
Tess A. Crider
Stefano Mariani
William J. Murphy
Emma C. Teeling

First Published December 1, 2009

Letter

Extreme variability among mammalian V1R gene families

Janet M. Young
Hillary F. Massa
Li Hsu
Barbara J. Trask

First Published December 1, 2009

Letter

Drosophila" > Population dynamics of PIWI-interacting RNAs (piRNAs) and their targets in Drosophila

Jian Lu
Andrew G. Clark

First Published November 30, 2009

Letter

Genome-wide mapping of SMAD target genes reveals the role of BMP signaling in embryonic stem cell fate determination

Teng Fei
Kai Xia
Zhongwei Li
Bing Zhou
Shanshan Zhu
Hua Chen Jianping Zhang
... [+2 authors] ...,
Zhang Chen
Huasheng Xiao
Jing-Dong J. Han
Ye-Guang Chen

First Published November 19, 2009

Letter

Bhmt2 as a diet-dependent genetic factor protecting against acetaminophen-induced liver toxicity" > An integrative genomic analysis identifies Bhmt2 as a diet-dependent genetic factor protecting against acetaminophen-induced liver toxicity

Hong-Hsing Liu
Peng Lu
Yingying Guo
Erin Farrell
Xun Zhang
Ming Zheng Betty Bosano Zhaomei Zhang John Allard Guochun Liao Siyu Fu Jinzhi Chen Kimberly Dolim Ayako Kuroda Jonathan Usuka Janet Cheng William Tao Kevin Welch Yanzhou Liu Joseph Pease Steve A. de Keczer Mohammad Masjedizadeh
... [+17 authors] ...,
Jing-Shan Hu
Paul Weller
Tim Garrow
Gary Peltz

First Published November 18, 2009

Letter

Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype" > Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype

Robert A. Kingsley
Chisomo L. Msefula
Nicholas R. Thomson
Samuel Kariuki
Kathryn E. Holt
Melita A. Gordon David Harris Louise Clarke Sally Whitehead Vartul Sangal Kevin Marsh Mark Achtman Malcolm E. Molyneux Martin Cormican
... [+9 authors] ...,
Julian Parkhill
Calman A. MacLennan
Robert S. Heyderman
Gordon Dougan

First Published November 9, 2009

Letter

Industrial fuel ethanol yeasts contain adaptive copy number changes in genes involved in vitamin B1 and B6 biosynthesis

Boris U. Stambuk
Barbara Dunn
Sergio L. Alves
Eduarda H. Duval
Gavin Sherlock

First Published November 6, 2009

Letter

A novel active endogenous retrovirus family contributes to genome variability in rat inbred strains

Yongming Wang
František Liška
Claudia Gosele
Lucie Šedová
Vladimír Křen
Drahomíra Křenová
Zoltán Ivics
Norbert Hubner
Zsuzsanna Izsvák

First Published November 3, 2009

Letter

DNA methylation programming and reprogramming in primate embryonic stem cells

Netta Mendelson Cohen
Vikas Dighe
Gilad Landan
Sigrún Reynisdóttir
Arnar Palsson
Shoukhrat Mitalipov
Amos Tanay

First Published November 3, 2009

Letter

A novel strategy of transcription regulation by intragenic nucleosome ordering

Cédric Vaillant
Leonor Palmeira
Guillaume Chevereau
Benjamin Audit
Yves d'Aubenton-Carafa
Claude Thermes
Alain Arneodo

First Published October 26, 2009

Letter

Arabidopsis thaliana" > Genome-wide mapping of alternative splicing in Arabidopsis thaliana

Sergei A. Filichkin
Henry D. Priest
Scott A. Givan
Rongkun Shen
Douglas W. Bryant
Samuel E. Fox
Weng-Keen Wong
Todd C. Mockler

First Published October 26, 2009

Letter

Human capacitance to dosage imbalance: Coping with inefficient selection

Ariel Fernández
Jianping Chen

First Published October 9, 2009

Letter

Saccharomyces cerevisiae strain widely used in bioethanol production" > Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production

Juan Lucas Argueso
Marcelo F. Carazzolle
Piotr A. Mieczkowski
Fabiana M. Duarte
Osmar V.C. Netto
Silvia K. Missawa Felipe Galzerani Gustavo G.L. Costa Ramon O. Vidal Melline F. Noronha Margaret Dominska Maria G.S. Andrietta Sílvio R. Andrietta Anderson F. Cunha Luiz H. Gomes Flavio C.A. Tavares André R. Alcarde
... [+12 authors] ...,
Fred S. Dietrich
John H. McCusker
Thomas D. Petes
Gonçalo A.G. Pereira

First Published October 7, 2009

Letter

Saccharomyces cerevisiae" > A positive but complex association between meiotic double-strand break hotspots and open chromatin in Saccharomyces cerevisiae

Luke E. Berchowitz
Sean E. Hanlon
Jason D. Lieb
Gregory P. Copenhaver

First Published October 2, 2009

Letter

Coexpression network based on natural variation in human gene expression reveals gene interactions and functions

Renuka R. Nayak
Michael Kearns
Richard S. Spielman
Vivian G. Cheung

First Published October 1, 2009

Letter

Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons?

Zhixi Tian
Carene Rizzon
Jianchang Du
Liucun Zhu
Jeffrey L. Bennetzen
Scott A. Jackson
Brandon S. Gaut
Jianxin Ma

First Published September 29, 2009

Letter

Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C–miRNA complexes and the degradation of miRNA targets

Jean Hausser
Markus Landthaler
Lukasz Jaskiewicz
Dimos Gaidatzis
Mihaela Zavolan

First Published September 18, 2009

Letter

Repertoire and evolution of miRNA genes in four divergent nematode species

Elzo de Wit
Sam E.V. Linsen
Edwin Cuppen
Eugene Berezikov

First Published September 15, 2009

Letter

Candida dubliniensis and Candida albicans" > Comparative genomics of the fungal pathogens Candida dubliniensis and Candida albicans

Andrew P. Jackson
John A. Gamble
Tim Yeomans
Gary P. Moran
David Saunders
David Harris Martin Aslett Jamie F. Barrell Geraldine Butler Francesco Citiulo David C. Coleman Piet W.J. de Groot Tim J. Goodwin Michael A. Quail Jacqueline McQuillan Carol A. Munro Arnab Pain Russell T. Poulter Marie-Adèle Rajandream Hubert Renauld Martin J. Spiering Adrian Tivey
... [+17 authors] ...,
Neil A.R. Gow
Barclay Barrell
Derek J. Sullivan
Matthew Berriman

First Published September 10, 2009

Letter

Complex selection on 5′ splice sites in intron-rich organisms

Manuel Irimia
Scott William Roy
Daniel E. Neafsey
Josep F. Abril
Jordi Garcia-Fernandez
Eugene V. Koonin

First Published September 10, 2009

Letter

Comparison of diverse developmental transcriptomes reveals that coexpression of gene neighbors is not evolutionarily conserved

Itai Yanai
Craig P. Hunter

First Published September 10, 2009

Letter

Rapid evolution of mouse Y centromere repeat DNA belies recent sequence stability

Mark D. Pertile
Alison N. Graham
K.H. Andy Choo
Paul Kalitsis

First Published September 8, 2009

Letter

Recent de novo origin of human protein-coding genes

David G. Knowles
Aoife McLysaght

First Published September 2, 2009

Letter

Coccidioides and their relatives" > Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives

Thomas J. Sharpton
Jason E. Stajich
Steven D. Rounsley
Malcolm J. Gardner
Jennifer R. Wortman
Vinita S. Jordar Rama Maiti Chinnappa D. Kodira Daniel E. Neafsey Qiandong Zeng Chiung-Yu Hung Cody McMahan Anna Muszewska Marcin Grynberg M. Alejandra Mandel Ellen M. Kellner Bridget M. Barker John N. Galgiani Marc J. Orbach Theo N. Kirkland
... [+15 authors] ...,
Garry T. Cole
Matthew R. Henn
Bruce W. Birren
John W. Taylor

First Published August 28, 2009

Letter

Chromatin poises miRNA- and protein-coding genes for expression

Artem Barski
Raja Jothi
Suresh Cuddapah
Kairong Cui
Tae-Young Roh
Dustin E. Schones
Keji Zhao

First Published August 27, 2009

Letter

Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention

Andrew L. Hufton
Susanne Mathia
Helene Braun
Udo Georgi
Hans Lehrach
Martin Vingron
Albert J. Poustka
Georgia Panopoulou

First Published August 24, 2009

Letter

Elucidation of the ELK1 target gene network reveals a role in the coordinate regulation of core components of the gene regulation machinery

Joanna Boros
Ian J. Donaldson
Amanda O'Donnell
Zaneta A. Odrowaz
Leo Zeef
Mathieu Lupien
... [+1 authors] ...,
Clifford A. Meyer
X. Shirley Liu
Myles Brown
Andrew D. Sharrocks

First Published August 17, 2009

Letter

Nucleosomes are well positioned in exons and carry characteristic histone modifications

Robin Andersson
Stefan Enroth
Alvaro Rada-Iglesias
Claes Wadelius
Jan Komorowski

First Published August 17, 2009

Letter

cis-acting sequences" > Allele-specific DNA methylation in mouse strains is mainly determined by cis-acting sequences

Elmar Schilling
Carol El Chartouni
Michael Rehli

First Published August 17, 2009

Letter

Desulfovibrio magneticus strain RS-1 revealed common gene clusters in magnetotactic bacteria" > Whole genome sequence of Desulfovibrio magneticus strain RS-1 revealed common gene clusters in magnetotactic bacteria

Hidekazu Nakazawa
Atsushi Arakaki
Sachiko Narita-Yamada
Isao Yashiro
Koji Jinno
Natsuko Aoki Ai Tsuruyama Yoshiko Okamura
... [+3 authors] ...,
Satoshi Tanikawa
Nobuyuki Fujita
Haruko Takeyama
Tadashi Matsunaga

First Published August 12, 2009

Letter

Population genomics in a disease targeted primary cell model

Elin Grundberg
Tony Kwan
Bing Ge
Kevin C.L. Lam
Vonda Koka
Andreas Kindmark Hans Mallmin Joana Dias Dominique J. Verlaan Manon Ouimet Daniel Sinnett Fernando Rivadeneira Karol Estrada Albert Hofman Joyce M. van Meurs André Uitterlinden Patrick Beaulieu Alexandru Graziani Eef Harmsen Östen Ljunggren Claes Ohlsson
... [+16 authors] ...,
Dan Mellström
Magnus K. Karlsson
Olle Nilsson
Tomi Pastinen

First Published August 4, 2009

Letter

The presence of RNA polymerase II, active or stalled, predicts epigenetic fate of promoter CpG islands

Hideyuki Takeshima
Satoshi Yamashita
Taichi Shimazu
Tohru Niwa
Toshikazu Ushijima

First Published August 3, 2009

Letter

5′-Transducing SVA retrotransposon groups spread efficiently throughout the human genome

Annette Damert
Julija Raiz
Axel V. Horn
Johannes Löwer
Hui Wang
Jinchuan Xing
Mark A. Batzer
Roswitha Löwer
Gerald G. Schumann

First Published August 3, 2009

Letter

Exon-trapping mediated by the human retrotransposon SVA

Dustin C. Hancks
Adam D. Ewing
Jesse E. Chen
Katsushi Tokunaga
Haig H. Kazazian

First Published July 27, 2009

Letter

Profiling the repertoire of phenotypes influenced by environmental cues that occur during asexual reproduction

Aviv Dombrovsky
Laury Arthaud
Terence N. Ledger
Sophie Tares
Alain Robichon

First Published July 27, 2009

Letter

Xenopus tropicalis" > Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis

Javier Armisen
Michael J. Gilchrist
Anna Wilczynska
Nancy Standart
Eric A. Miska

First Published July 23, 2009

Letter

Relaxation of selective constraints on avian mitochondrial DNA following the degeneration of flight ability

Yong-Yi Shen
Peng Shi
Yan-Bo Sun
Ya-Ping Zhang

First Published July 17, 2009

Letter

Unusual composition of a yeast chromosome arm is associated with its delayed replication

Célia Payen
Gilles Fischer
Christian Marck
Caroline Proux
David James Sherman
Jean-Yves Coppée
Mark Johnston
Bernard Dujon
Cécile Neuvéglise

First Published July 10, 2009

Letter

Clusters and superclusters of phased small RNAs in the developing inflorescence of rice

Cameron Johnson
Anna Kasprzewska
Kristin Tennessen
John Fernandes
Guo-Ling Nan
Virginia Walbot
Venkatesan Sundaresan
Vicki Vance
Lewis H. Bowman

First Published July 7, 2009

Letter

Endonuclease-sensitive regions of human spermatozoal chromatin are highly enriched in promoter and CTCF binding sequences

Ali Arpanahi
Martin Brinkworth
David Iles
Stephen A. Krawetz
Agnieszka Paradowska
Adrian E. Platts
... [+1 authors] ...,
Myriam Saida
Klaus Steger
Philip Tedder
David Miller

First Published July 7, 2009

Letter

High-resolution analysis of epigenetic changes associated with X inactivation

Hendrik Marks
Jennifer C. Chow
Sergei Denissov
Kees-Jan Françoijs
Neil Brockdorff
Edith Heard
Hendrik G. Stunnenberg

First Published July 6, 2009

Letter

Escherichia coli O157 genomes" > Inference of the impact of insertion sequence (IS) elements on bacterial genome diversification through analysis of small-size structural polymorphisms in Escherichia coli O157 genomes

Tadasuke Ooka
Yoshitoshi Ogura
Md Asadulghani
Makoto Ohnishi
Keisuke Nakayama
Jun Terajima
Haruo Watanabe
Tetsuya Hayashi

First Published June 29, 2009

Letter

0→G₁ transition" > Epigenetics of human T cells during the G₀→G₁ transition

Alexander E. Smith
Constantinos Chronis
Manolis Christodoulakis
Stephen J. Orr
Nicholas C. Lea
Natalie A. Twine
Akshay Bhinge
Ghulam J. Mufti
N. Shaun B. Thomas

First Published June 22, 2009

Letter

Arabidopsis pollen development and function" > Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function

Monica A. Grobei
Ermir Qeli
Erich Brunner
Hubert Rehrauer
Runxuan Zhang
Bernd Roschitzki
Konrad Basler
Christian H. Ahrens
Ueli Grossniklaus

First Published June 22, 2009

Letter

Epigenetic profiling at mouse imprinted gene clusters reveals novel epigenetic and genetic features at differentially methylated regions

Scott V. Dindot
Richard Person
Mark Strivens
Rejinaldo Garcia
Arthur L. Beaudet

First Published June 19, 2009

Letter

Drosophila ovary cell line" > Abundant primary piRNAs, endo-siRNAs, and microRNAs in a Drosophila ovary cell line

Nelson C. Lau
Nicolas Robine
Raquel Martin
Wei-Jen Chung
Yuzo Niki
Eugene Berezikov
Eric C. Lai

First Published June 18, 2009

Letter

Mammuthus primigenius" > Tracking the past: Interspersed repeats in an extinct Afrotherian mammal, Mammuthus primigenius

Fangqing Zhao
Ji Qi
Stephan C. Schuster

First Published June 9, 2009

Letter

The consequences of genetic drift for bacterial genome complexity

Chih-Horng Kuo
Nancy A. Moran
Howard Ochman

First Published June 5, 2009

Letter

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

Erika M. Kvikstad
Francesca Chiaromonte
Kateryna D. Makova

First Published June 5, 2009

Letter

Lineage-specific DNA methylation in T cells correlates with histone methylation and enhancer activity

Christian Schmidl
Maja Klug
Tina J. Boeld
Reinhard Andreesen
Petra Hoffmann
Matthias Edinger
Michael Rehli

First Published June 3, 2009

Letter

Epigenetic silencing of transposable elements: A trade-off between reduced transposition and deleterious effects on neighboring gene expression

Jesse D. Hollister
Brandon S. Gaut

First Published May 28, 2009

Letter

Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus

Adam Monier
António Pagarete
Colomban de Vargas
Michael J. Allen
Betsy Read
Jean-Michel Claverie
Hiroyuki Ogata

First Published May 18, 2009

Letter

Domain shuffling and the evolution of vertebrates

Takeshi Kawashima
Shuichi Kawashima
Chisaki Tanaka
Miho Murai
Masahiko Yoneda
Nicholas H. Putnam
... [+1 authors] ...,
Daniel S. Rokhsar
Minoru Kanehisa
Nori Satoh
Hiroshi Wada

First Published May 14, 2009

Letter

Evolution of gene function and regulatory control after whole-genome duplication: Comparative analyses in vertebrates

Karin S. Kassahn
Vinh T. Dang
Simon J. Wilkins
Andrew C. Perkins
Mark A. Ragan

First Published May 13, 2009

Letter

Does the human X contain a third evolutionary block? Origin of genes on human Xp11 and Xq28

Margaret L. Delbridge
Hardip R. Patel
Paul D. Waters
Daniel A. McMillan
Jennifer A. Marshall Graves

First Published May 13, 2009

Letter

Mobile elements create structural variation: Analysis of a complete human genome

Jinchuan Xing
Yuhua Zhang
Kyudong Han
Abdel Halim Salem
Shurjo K. Sen
Chad D. Huff Qiong Zhou
... [+2 authors] ...,
Ewen F. Kirkness
Samuel Levy
Mark A. Batzer
Lynn B. Jorde

First Published May 13, 2009

Letter

Drosophila melanogaster spontaneous mutation accumulation lines" > Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines

Peter D. Keightley
Urmi Trivedi
Marian Thomson
Fiona Oliver
Sujai Kumar
Mark L. Blaxter

First Published May 13, 2009

Letter

Large-scale mRNA sequencing determines global regulation of RNA editing during brain development

Helene Wahlstedt
Chammiran Daniel
Mats Ensterö
Marie Öhman

First Published May 6, 2009

Letter

CD44 contribute to acetaminophen-induced liver injury in humans" > Mouse population-guided resequencing reveals that variants in CD44 contribute to acetaminophen-induced liver injury in humans

Alison H. Harrill
Paul B. Watkins
Stephen Su
Pamela K. Ross
David E. Harbourt
Ioannis M. Stylianou Gary A. Boorman Mark W. Russo Richard S. Sackler Stephen C. Harris Philip C. Smith Raymond Tennant Molly Bogue Kenneth Paigen Christopher Harris
... [+10 authors] ...,
Tanupriya Contractor
Timothy Wiltshire
Ivan Rusyn
David W. Threadgill

First Published May 5, 2009

Letter

Fine-scaled human genetic structure revealed by SNP microarrays

Jinchuan Xing
W. Scott Watkins
David J. Witherspoon
Yuhua Zhang
Stephen L. Guthery
Rangaswamy Thara
... [+1 authors] ...,
Bryan J. Mowry
Kazima Bulayeva
Robert B. Weiss
Lynn B. Jorde

First Published May 1, 2009

Letter

Evolutionary descent of a human chromosome 6 neocentromere: A jump back to 17 million years ago

Oronzo Capozzi
Stefania Purgato
Pietro D'Addabbo
Nicoletta Archidiacono
Paola Battaglia
Anna Baroncini
... [+1 authors] ...,
Antonella Capucci
Roscoe Stanyon
Giuliano Della Valle
Mariano Rocchi

First Published May 1, 2009

Letter

Alu repeats in primate genomes" > Comparative analysis of Alu repeats in primate genomes

George E. Liu
Can Alkan
Lu Jiang
Shaying Zhao
Evan E. Eichler

First Published May 1, 2009

Letter

Drosophila" > Proteomic discovery of previously unannotated, rapidly evolving seminal fluid genes in Drosophila

Geoffrey D. Findlay
Michael J. MacCoss
Willie J. Swanson

First Published May 1, 2009

Letter

Adaptive evolution of young gene duplicates in mammals

Mira V. Han
Jeffery P. Demuth
Casey L. McGrath
Claudio Casola
Matthew W. Hahn

First Published May 1, 2009

Letter

The polyadenylation site of Mimivirus transcripts obeys a stringent ‘hairpin rule’

Deborah Byrne
Renata Grzela
Audrey Lartigue
Stéphane Audic
Sabine Chenivesse
Stéphanie Encinas
Jean-Michel Claverie
Chantal Abergel

First Published April 29, 2009

Letter

Functional diversity for REST (NRSF) is defined by in vivo binding affinity hierarchies at the DNA sequence level

Alexander W. Bruce
Andrés J. López-Contreras
Paul Flicek
Thomas A. Down
Pawandeep Dhami
Shane C. Dillon Christoph M. Koch
... [+2 authors] ...,
Cordelia F. Langford
Ian Dunham
Robert M. Andrews
David Vetrie

First Published April 28, 2009

Letter

SMAD7 expression" > The colorectal cancer risk at 18q21 is caused by a novel variant altering SMAD7 expression

Alan M. Pittman
Silvia Naranjo
Emily Webb
Peter Broderick
Esther H. Lips
Tom van Wezel Hans Morreau Kate Sullivan Sarah Fielding Philip Twiss Jayaram Vijayakrishnan
... [+6 authors] ...,
Fernando Casares
Mobshra Qureshi
José Luis Gómez-Skarmeta
Richard S. Houlston

First Published April 24, 2009

Letter

Lack of bystander activation shows that localization exterior to chromosome territories is not sufficient to up-regulate gene expression

Céline Morey
Clémence Kress
Wendy A. Bickmore

First Published April 23, 2009

Letter

Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization

Xiyin Wang
Haibao Tang
John E. Bowers
Andrew H. Paterson

First Published April 16, 2009

Letter

Dynamic reprogramming of transcription factors to and from the subtelomere

H. Craig Mak
Lorraine Pillus
Trey Ideker

First Published April 16, 2009

Letter

The origins of apicomplexan sequence innovation

James Wasmuth
Jennifer Daub
José Manuel Peregrín-Alvarez
Constance A.M. Finney
John Parkinson

First Published April 10, 2009

Letter

Streptococcus pneumoniae mutants reveals novel mechanisms of resistance" > Genome sequencing of linezolid-resistant Streptococcus pneumoniae mutants reveals novel mechanisms of resistance

Jie Feng
Andréanne Lupien
Hélène Gingras
Jessica Wasserscheid
Ken Dewar
Danielle Légaré
Marc Ouellette

First Published April 6, 2009

Letter

Breakpoint regions and homologous synteny blocks in chromosomes have different evolutionary histories

Denis M. Larkin
Greg Pape
Ravikiran Donthu
Loretta Auvil
Michael Welge
Harris A. Lewin

First Published April 2, 2009

Letter

New class of microRNA targets containing simultaneous 5′-UTR and 3′-UTR interaction sites

Inhan Lee
Subramanian S. Ajay
Jong In Yook
Hyun Sil Kim
Su Hyung Hong
Nam Hee Kim
Saravana M. Dhanasekaran
Arul M. Chinnaiyan
Brian D. Athey

First Published March 31, 2009

Letter

Pediculus humanus" > The single mitochondrial chromosome typical of animals has evolved into 18 minichromosomes in the human body louse, Pediculus humanus

Renfu Shao
Ewen F. Kirkness
Stephen C. Barker

First Published March 31, 2009

Letter

Signals of recent positive selection in a worldwide sample of human populations

Joseph K. Pickrell
Graham Coop
John Novembre
Sridhar Kudaravalli
Jun Z. Li
Devin Absher Balaji S. Srinivasan
... [+2 authors] ...,
Gregory S. Barsh
Richard M. Myers
Marcus W. Feldman
Jonathan K. Pritchard

First Published March 23, 2009

Letter

Campylobacter" > Pervasive, genome-wide positive selection leading to functional divergence in the bacterial genus Campylobacter

Tristan Lefébure
Michael J. Stanhope

First Published March 20, 2009

Letter

The apolipoprotein L family of programmed cell death and immunity genes rapidly evolved in primates at discrete sites of host–pathogen interactions

Eric E. Smith
Harmit S. Malik

First Published March 19, 2009

Letter

Darwinian and demographic forces affecting human protein coding genes

Rasmus Nielsen
Melissa J. Hubisz
Ines Hellmann
Dara Torgerson
Aida M. Andrés
Anders Albrechtsen Ryan Gutenkunst Mark D. Adams Michele Cargill
... [+4 authors] ...,
Adam Boyko
Amit Indap
Carlos D. Bustamante
Andrew G. Clark

First Published March 11, 2009

Letter

Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations" > Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations

Ravi D. Barabote
Gary Xie
David H. Leu
Philippe Normand
Anamaria Necsulea
Vincent Daubin Claudine Médigue William S. Adney Xin Clare Xu Alla Lapidus Rebecca E. Parales Chris Detter Petar Pujic David Bruce
... [+9 authors] ...,
Celine Lavire
Jean F. Challacombe
Thomas S. Brettin
Alison M. Berry

First Published March 6, 2009

Letter

Geographical structure and differential natural selection among North European populations

Brian P. McEvoy
Grant W. Montgomery
Allan F. McRae
Samuli Ripatti
Markus Perola
Tim D. Spector Lynn Cherkas Kourosh R. Ahmadi Dorret Boomsma Gonneke Willemsen Jouke J. Hottenga Nancy L. Pedersen Patrik K.E. Magnusson Kirsten Ohm Kyvik Kaare Christensen Jaakko Kaprio Kauko Heikkilä Aarno Palotie Elisabeth Widen Juha Muilu Ann-Christine Syvänen Ulrika Liljedahl Orla Hardiman
... [+18 authors] ...,
Simon Cronin
Leena Peltonen
Nicholas G. Martin
Peter M. Visscher

First Published March 5, 2009

Letter

Mosaic retroposon insertion patterns in placental mammals

Gennady Churakov
Jan Ole Kriegs
Robert Baertsch
Anja Zemann
Jürgen Brosius
Jürgen Schmitz

First Published March 4, 2009

Letter

Genomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns

Michael P. Schnetz
Cynthia F. Bartels
Kuntal Shastri
Dheepa Balasubramanian
Gabriel E. Zentner
Ravishankar Balaji Xiaodong Zhang Lingyun Song
... [+3 authors] ...,
Zhenghe Wang
Thomas LaFramboise
Gregory E. Crawford
Peter C. Scacheri

First Published February 27, 2009

Letter

Drosophila genus" > General gene movement off the X chromosome in the Drosophila genus

Maria D. Vibranovski
Yong Zhang
Manyuan Long

First Published February 27, 2009

Letter

Global diversity in the human salivary microbiome

Ivan Nasidze
Jing Li
Dominique Quinque
Kun Tang
Mark Stoneking

First Published February 27, 2009

Letter

Comparative analysis of H2A.Z nucleosome organization in the human and yeast genomes

Michael Y. Tolstorukov
Peter V. Kharchenko
Joseph A. Goldman
Robert E. Kingston
Peter J. Park

First Published February 26, 2009

Letter

Genomic mapping of binding regions for the Ecdysone receptor protein complex

Zareen Gauhar
Ling V. Sun
Sujun Hua
Christopher E. Mason
Florian Fuchs
Tong-Ruei Li
Michael Boutros
Kevin P. White

First Published February 23, 2009

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