Search | Genome Research

Your search for returned 6,373 results

LETTER

Novel patterns of genome rearrangement and their association with survival in breast cancer

James Hicks
Alexander Krasnitz
B. Lakshmi
Nicholas E. Navin
Michael Riggs
Evan Leibu Diane Esposito Joan Alexander Jen Troge Vladimir Grubor Seungtai Yoon Michael Wigler Kenny Ye Anne-Lise Børresen-Dale Bjørn Naume Ellen Schlicting Larry Norton Torsten Hägerström Lambert Skoog
... [+14 authors] ...,
Gert Auer
Susanne Månér
Pär Lundin
Anders Zetterberg

First Published December 1, 2006

Methods

Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns

Tae-young Roh
Gang Wei
Catherine M. Farrell
Keji Zhao

First Published November 29, 2006

Methods

cis-regulatory element of IL13 by allelic transcript ratio mapping" > Localization of a long-range cis-regulatory element of IL13 by allelic transcript ratio mapping

Julian T. Forton
Irina A. Udalova
Susana Campino
Kirk A. Rockett
Jeremy Hull
Dominic P. Kwiatkowski

First Published November 29, 2006

Methods

Large-scale production of SAGE libraries from microdissected tissues, flow-sorted cells, and cell lines

Jaswinder Khattra
Allen D. Delaney
Yongjun Zhao
Asim Siddiqui
Jennifer Asano
Helen McDonald Pawan Pandoh Noreen Dhalla Anna-liisa Prabhu Kevin Ma Stephanie Lee Adrian Ally Angela Tam Danne Sa Sean Rogers David Charest Jeff Stott Scott Zuyderduyn Richard Varhol Connie Eaves Steven Jones
... [+16 authors] ...,
Robert Holt
Martin Hirst
Pamela A. Hoodless
Marco A. Marra

First Published November 29, 2006

Methods

Accurate and reliable high-throughput detection of copy number variation in the human genome

Heike Fiegler
Richard Redon
Dan Andrews
Carol Scott
Robert Andrews
Carol Carder Richard Clark Oliver Dovey Peter Ellis Lars Feuk Lisa French Paul Hunt Dimitrios Kalaitzopoulos James Larkin Lyndal Montgomery George H. Perry Bob W. Plumb Keith Porter Rachel E. Rigby Diane Rigler Armand Valsesia Cordelia Langford Sean J. Humphray
... [+18 authors] ...,
Stephen W. Scherer
Charles Lee
Matthew E. Hurles
Nigel P. Carter

First Published November 22, 2006

Methods

Genome-wide detection of human copy number variations using high-density DNA oligonucleotide arrays

Daisuke Komura
Fan Shen
Shumpei Ishikawa
Karen R. Fitch
Wenwei Chen
Jane Zhang Guoying Liu Sigeo Ihara Hiroshi Nakamura Matthew E. Hurles Charles Lee Stephen W. Scherer
... [+7 authors] ...,
Keith W. Jones
Michael H. Shapero
Jing Huang
Hiroyuki Aburatani

First Published November 22, 2006

Methods

Assessing the performance of different high-density tiling microarray strategies for mapping transcribed regions of the human genome

Olof Emanuelsson
Ugrappa Nagalakshmi
Deyou Zheng
Joel S. Rozowsky
Alexander E. Urban
Jiang Du Zheng Lian
... [+2 authors] ...,
Viktor Stolc
Sherman Weissman
Michael Snyder
Mark B. Gerstein

First Published November 21, 2006

LETTER

Characterization of intron loss events in mammals

Jasmin Coulombe-Huntington
Jacek Majewski

First Published November 15, 2006

Methods

A model-based approach to capture genetic variation for future association studies

Susana Eyheramendy
Jonathan Marchini
Gilean McVean
Simon Myers
Peter Donnelly

First Published November 9, 2006

LETTER

CDC2L2" > Novel noncoding RNA from human Y distal heterochromatic block (Yq12) generates testis-specific chimeric CDC2L2

Zeenath Jehan
Sambandam Vallinayagam
Shrish Tiwari
Suman Pradhan
Lalji Singh
Amritha Suresh
Hemakumar M. Reddy
Y.R. Ahuja
Rachel A. Jesudasan

First Published November 9, 2006

LETTER

Human-specific insertions and deletions inferred from mammalian genome sequences

Feng-Chi Chen
Chueng-Jong Chen
Wen-Hsiung Li
Trees-Juen Chuang

First Published November 9, 2006

Methods

Gene discovery and annotation using LCM-454 transcriptome sequencing

Scott J. Emrich
W. Brad Barbazuk
Li Li
Patrick S. Schnable

First Published November 9, 2006

LETTER

Chlamydia trachomatis diversity occurs by widespread interstrain recombination involving hotspots" > Evolution of Chlamydia trachomatis diversity occurs by widespread interstrain recombination involving hotspots

João P. Gomes
William J. Bruno
Alexandra Nunes
Nicole Santos
Carlos Florindo
Maria J. Borrego
Deborah Dean

First Published November 7, 2006

LETTER

Salmonella Paratyphi A and Typhi genomes: Convergence or divergence by homologous recombination?" > A bimodal pattern of relatedness between the Salmonella Paratyphi A and Typhi genomes: Convergence or divergence by homologous recombination?

Xavier Didelot
Mark Achtman
Julian Parkhill
Nicholas R. Thomson
Daniel Falush

First Published November 7, 2006

ERRATUM

Erratum

First Published November 1, 2006

LETTER

Identification of an infectious progenitor for the multiple-copy HERV-K human endogenous retroelements

Marie Dewannieux
Francis Harper
Aurélien Richaud
Claire Letzelter
David Ribet
Gérard Pierron
Thierry Heidmann

First Published October 31, 2006

LETTER

Similar compositional biases are caused by very different mutational effects

Eduardo P.C. Rocha
Marie Touchon
Edward J. Feil

First Published October 26, 2006

LETTER

Exceptionally high levels of recombination across the honey bee genome

Martin Beye
Irene Gattermeier
Martin Hasselmann
Tanja Gempe
Morten Schioett
John F. Baines David Schlipalius Florence Mougel Christine Emore Olav Rueppell Anu Sirviö
... [+6 authors] ...,
Ernesto Guzmán-Novoa
Greg Hunt
Michel Solignac
Robert E. Page

First Published October 25, 2006

COMMENTARY

Community annotation: Procedures, protocols, and supporting tools

Christine G. Elsik
Kim C. Worley
Lan Zhang
Natalia V. Milshina
Huaiyang Jiang
Justin T. Reese Kevin L. Childs
... [+2 authors] ...,
Anand Venkatraman
C. Michael Dickens
George M. Weinstock
Richard A. Gibbs

First Published October 25, 2006

LETTER

Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects

Joël Savard
Diethard Tautz
Stephen Richards
George M. Weinstock
Richard A. Gibbs
John H. Werren
Hervé Tettelin
Martin J. Lercher

First Published October 25, 2006

LETTER

Patterns of conservation and change in honey bee developmental genes

Peter K. Dearden
Megan J. Wilson
Lisha Sablan
Peter W. Osborne
Melanie Havler
Euan McNaughton Kiyoshi Kimura Natalia V. Milshina Martin Hasselmann Tanja Gempe Morten Schioett Susan J. Brown
... [+7 authors] ...,
Christine G. Elsik
Peter W.H. Holland
Tatsuhiko Kadowaki
Martin Beye

First Published October 25, 2006

LETTER

Apis mellifera) and shed new light on the molecular evolution of the circadian clock" > Molecular and phylogenetic analyses reveal mammalian-like clockwork in the honey bee (Apis mellifera) and shed new light on the molecular evolution of the circadian clock

Elad B. Rubin
Yair Shemesh
Mira Cohen
Sharona Elgavish
Hugh M. Robertson
Guy Bloch

First Published October 25, 2006

LETTER

Apis mellifera)" > Function and evolution of a gene family encoding odorant binding-like proteins in a social insect, the honey bee (Apis mellifera)

Sylvain Forêt
Ryszard Maleszka

First Published October 25, 2006

LETTER

Apis mellifera " > Canonical TTAGG-repeat telomeres and telomerase in the honey bee, Apis mellifera

Hugh M. Robertson
Karl H.J. Gordon

First Published October 25, 2006

LETTER

A highly divergent gene cluster in honey bees encodes a novel silk family

Tara D. Sutherland
Peter M. Campbell
Sarah Weisman
Holly E. Trueman
Alagacone Sriskantha
Wolfgang J. Wanjura
Victoria S. Haritos

First Published October 25, 2006

LETTER

Apis mellifera: Expansion of the odorant, but not gustatory, receptor family" > The chemoreceptor superfamily in the honey bee, Apis mellifera: Expansion of the odorant, but not gustatory, receptor family

Hugh M. Robertson
Kevin W. Wanner

First Published October 25, 2006

LETTER

Evolution of the Yellow/Major Royal Jelly Protein family and the emergence of social behavior in honey bees

Mark David Drapeau
Stefan Albert
Robert Kucharski
Carsten Prusko
Ryszard Maleszka

First Published October 25, 2006

RESOURCE

ProtoBee: Hierarchical classification and annotation of the honey bee proteome

Noam Kaplan
Michal Linial

First Published October 25, 2006

LETTER

Evolution of the complementary sex-determination gene of honey bees: Balancing selection and trans-species polymorphisms

Soochin Cho
Zachary Y. Huang
Daniel R. Green
Deborah R. Smith
Jianzhi Zhang

First Published October 25, 2006

LETTER

Apis mellifera " > The nicotinic acetylcholine receptor gene family of the honey bee, Apis mellifera

Andrew K. Jones
Valerie Raymond-Delpech
Steeve H. Thany
Monique Gauthier
David B. Sattelle

First Published October 25, 2006

PERSPECTIVE

Ancestral genomes reconstruction: An integrated, multi-disciplinary approach is needed

Mariano Rocchi
Nicoletta Archidiacono
Roscoe Stanyon

First Published October 19, 2006

LETTER

Whole-genome comparison of Leu3 binding in vitro and in vivo reveals the importance of nucleosome occupancy in target site selection

Xiao Liu
Cheol-Koo Lee
Joshua A. Granek
Neil D. Clarke
Jason D. Lieb

First Published October 19, 2006

Methods

cis-regulatory modules from chromatin immunoprecipitation microarray data—A case study using E2F1" > A computational genomics approach to identify cis-regulatory modules from chromatin immunoprecipitation microarray data—A case study using E2F1

Victor X. Jin
Alina Rabinovich
Sharon L. Squazzo
Roland Green
Peggy J. Farnham

First Published October 19, 2006

LETTER

Origins and impact of constraints in evolution of gene families

Boris E. Shakhnovich
Eugene V. Koonin

First Published October 19, 2006

REVIEW

Unraveling transcription regulatory networks by protein–DNA and protein–protein interaction mapping

Albertha J.M. Walhout

First Published October 19, 2006

REVIEW

Locating mammalian transcription factor binding sites: A survey of computational and experimental techniques

Laura Elnitski
Victor X. Jin
Peggy J. Farnham
Steven J.M. Jones

First Published October 19, 2006

Methods

ESPERR: Learning strong and weak signals in genomic sequence alignments to identify functional elements

James Taylor
Svitlana Tyekucheva
David C. King
Ross C. Hardison
Webb Miller
Francesca Chiaromonte

First Published October 19, 2006

LETTER

Human heterochromatin proteins form large domains containing KRAB-ZNF genes

Maartje J. Vogel
Lars Guelen
Elzo de Wit
Daniel Peric Hupkes
Martin Lodén
Wendy Talhout
... [+1 authors] ...,
Marike Feenstra
Ben Abbas
Anne-Kathrin Classen
Bas van Steensel

First Published October 12, 2006

LETTER

Caenorhabditis elegans chromatin" > Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin

Steven M. Johnson
Frederick J. Tan
Heather L. McCullough
Daniel P. Riordan
Andrew Z. Fire

First Published October 12, 2006

LETTER

Contrasting evolution of expression differences in the testis between species and subspecies of the house mouse

Christian Voolstra
Diethard Tautz
Patrick Farbrother
Ludwig Eichinger
Bettina Harr

First Published October 12, 2006

LETTER

cis-regulatory modules" > Experimental validation of predicted mammalian erythroid cis-regulatory modules

Hao Wang
Ying Zhang
Yong Cheng
Yuepin Zhou
David C. King
James Taylor Francesca Chiaromonte Jyotsna Kasturi Hanna Petrykowska Brian Gibb Christine Dorman Webb Miller
... [+7 authors] ...,
Louis C. Dore
John Welch
Mitchell J. Weiss
Ross C. Hardison

First Published October 12, 2006

Forum

Mouse SNPs for evolutionary biology: Beware of ascertainment biases

Pierre Boursot
Khalid Belkhir

First Published October 2, 2006

Forum

Regions of high differentiation—Worth a check

Bettina Harr

First Published October 2, 2006

Methods

Reconstructing contiguous regions of an ancestral genome

Jian Ma
Louxin Zhang
Bernard B. Suh
Brian J. Raney
Richard C. Burhans
W. James Kent
Mathieu Blanchette
David Haussler
Webb Miller

First Published September 18, 2006

LETTER

Comparative genomics modeling of the NRSF/REST repressor network: From single conserved sites to genome-wide repertoire

Ali Mortazavi
Evonne Chen Leeper Thompson
Sarah T. Garcia
Richard M. Myers
Barbara Wold

First Published September 8, 2006

LETTER

Oryza australiensis, a wild relative of rice" > Doubling genome size without polyploidization: Dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice

Benoit Piegu
Romain Guyot
Nathalie Picault
Anne Roulin
Abhijit Saniyal
Hyeran Kim Kristi Collura
... [+2 authors] ...,
Darshan S. Brar
Scott Jackson
Rod A. Wing
Olivier Panaud

First Published September 8, 2006

LETTER

Drosophila telomere retrotransposable elements" > Genomic organization of the Drosophila telomere retrotransposable elements

Janet A. George
P. Gregory DeBaryshe
Karen L. Traverse
Susan E. Celniker
Mary-Lou Pardue

First Published September 8, 2006

Methods

Identifying gene regulatory elements by genomic microarray mapping of DNaseI hypersensitive sites

George A. Follows
Pawan Dhami
Berthold Göttgens
Alexander W. Bruce
Peter J. Campbell
Shane C. Dillon Aileen M. Smith Christoph Koch Ian J. Donaldson Mike A. Scott
... [+5 authors] ...,
Ian Dunham
Mary E. Janes
David Vetrie
Anthony R. Green

First Published September 8, 2006

LETTER

Large-scale intron conservation and order-of-magnitude variation in intron loss/gain rates in apicomplexan evolution

Scott William Roy
David Penny

First Published September 8, 2006

LETTER

Mapping of the juxtacentromeric heterochromatin-euchromatin frontier of human chromosome 21

Christoph Grunau
Jérome Buard
Marie-Elisabeth Brun
Albertina De Sario

First Published September 8, 2006

PERSPECTIVE

Ultrasensitive RNA profiling: Counting single molecules on microarrays

Kalim U. Mir

First Published September 8, 2006

Methods

Many novel mammalian microRNA candidates identified by extensive cloning and RAKE analysis

Eugene Berezikov
Geert van Tetering
Mark Verheul
Jose van de Belt
Linda van Laake
Joost Vos Robert Verloop Marc van de Wetering Victor Guryev Shuji Takada
... [+5 authors] ...,
Anton Jan van Zonneveld
Hiroyuki Mano
Ronald Plasterk
Edwin Cuppen

First Published September 5, 2006

LETTER

Gossypium " > Differential lineage-specific amplification of transposable elements is responsible for genome size variation in Gossypium

Jennifer S. Hawkins
HyeRan Kim
John D. Nason
Rod A. Wing
Jonathan F. Wendel

First Published September 5, 2006

LETTER

Common fragile sites are conserved features of human and mouse chromosomes and relate to large active genes

Anne Helmrich
Karen Stout-Weider
Klaus Hermann
Evelin Schrock
Thomas Heiden

First Published September 5, 2006

Methods

Inference of population genetic parameters in metagenomics: A clean look at messy data

Philip L.F. Johnson
Montgomery Slatkin

First Published September 5, 2006

LETTER

Arabidopsis RNA-dependent RNA polymerase-2 mutant" > MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant

Cheng Lu
Karthik Kulkarni
Frédéric F. Souret
Ramesh MuthuValliappan
Shivakundan Singh Tej
R. Scott Poethig Ian R. Henderson
... [+2 authors] ...,
Steven E. Jacobsen
Wenzhong Wang
Pamela J. Green
Blake C. Meyers

First Published September 5, 2006

Methods

Chromosome Conformation Capture Carbon Copy (5C): A massively parallel solution for mapping interactions between genomic elements

Josée Dostie
Todd A. Richmond
Ramy A. Arnaout
Rebecca R. Selzer
William L. Lee
Tracey A. Honan Eric D. Rubio Anton Krumm
... [+3 authors] ...,
Justin Lamb
Chad Nusbaum
Roland D. Green
Job Dekker

First Published September 5, 2006

Methods

SyMAP: A system for discovering and viewing syntenic regions of FPC maps

Carol Soderlund
William Nelson
Austin Shoemaker
Andrew Paterson

First Published September 1, 2006

RESOURCE

An initial map of insertion and deletion (INDEL) variation in the human genome

Ryan E. Mills
Christopher T. Luttig
Christine E. Larkins
Adam Beauchamp
Circe Tsui
W. Stephen Pittard
Scott E. Devine

First Published August 10, 2006

LETTER

Identification of potential regulatory motifs in odorant receptor genes by analysis of promoter sequences

Jussara S. Michaloski
Pedro A.F. Galante
Bettina Malnic

First Published August 10, 2006

LETTER

Toxoplasma gondii" > Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii

Asis Khan
Ulrike Böhme
Krystyna A. Kelly
Ellen Adlem
Karen Brooks
Mark Simmonds Karen Mungall Michael A. Quail Claire Arrowsmith Tracey Chillingworth Carol Churcher David Harris Matthew Collins Nigel Fosker Audrey Fraser Zahra Hance Kay Jagels Sharon Moule Lee Murphy Susan O'Neil Marie-Adele Rajandream David Saunders Kathy Seeger Sally Whitehead Thomas Mayr Xuenan Xuan Junichi Watanabe Yutaka Suzuki Hiroyuki Wakaguri Sumio Sugano Chihiro Sugimoto Ian Paulsen Aaron J. Mackey David S. Roos Neil Hall
... [+30 authors] ...,
Matthew Berriman
Bart Barrell
L. David Sibley
James W. Ajioka

First Published August 10, 2006

LETTER

Uneven chromosome contraction and expansion in the maize genome

Rémy Bruggmann
Arvind K. Bharti
Heidrun Gundlach
Jinsheng Lai
Sarah Young
Ana C. Pontaroli Fusheng Wei Georg Haberer Galina Fuks Chunguang Du Christina Raymond Matt C. Estep Renyi Liu Jeffrey L. Bennetzen Agnes P. Chan Pablo D. Rabinowicz John Quackenbush W. Brad Barbazuk Rod A. Wing Bruce Birren
... [+15 authors] ...,
Chad Nusbaum
Steve Rounsley
Klaus F.X. Mayer
Joachim Messing

First Published August 10, 2006

Methods

STAC: A method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments

Sharon J. Diskin
Thomas Eck
Joel Greshock
Yael P. Mosse
Tara Naylor
Christian J. Stoeckert
Barbara L. Weber
John M. Maris
Gregory R. Grant

First Published August 9, 2006

Methods

Predicting essential genes in fungal genomes

Michael Seringhaus
Alberto Paccanaro
Anthony Borneman
Michael Snyder
Mark Gerstein

First Published August 9, 2006

LETTER

Hemizygous subtelomeres of an African trypanosome chromosome may account for over 75% of chromosome length

Sergio Callejas
Vanessa Leech
Christopher Reitter
Sara Melville

First Published August 9, 2006

Methods

Græmlin: General and robust alignment of multiple large interaction networks

Jason Flannick
Antal Novak
Balaji S. Srinivasan
Harley H. McAdams
Serafim Batzoglou

First Published August 9, 2006

LETTER

LIX1 function for motor neuron survival" > An ~140-kb deletion associated with feline spinal muscular atrophy implies an essential LIX1 function for motor neuron survival

John C. Fyfe
Marilyn Menotti-Raymond
Victor A. David
Lars Brichta
Alejandro A. Schäffer
Richa Agarwala William J. Murphy William J. Wedemeyer Brittany L. Gregory
... [+4 authors] ...,
Bethany G. Buzzell
Meghan C. Drummond
Brunhilde Wirth
Stephen J. O'Brien

First Published August 9, 2006

LETTER

Human embryonic stem cells have a unique epigenetic signature

Marina Bibikova
Eugene Chudin
Bonnie Wu
Lixin Zhou
Eliza Wickham Garcia
Ying Liu Soojung Shin Todd W. Plaia Jonathan M. Auerbach Dan E. Arking Rodolfo Gonzalez Jeremy Crook Bruce Davidson Thomas C. Schulz Allan Robins Aparna Khanna Peter Sartipy Johan Hyllner Padmavathy Vanguri Smita Savant-Bhonsale Alan K. Smith Aravinda Chakravarti Anirban Maitra
... [+18 authors] ...,
Mahendra Rao
David L. Barker
Jeanne F. Loring
Jian-Bing Fan

First Published August 9, 2006

LETTER

Phylogenetic analyses of cyanobacterial genomes: Quantification of horizontal gene transfer events

Olga Zhaxybayeva
J. Peter Gogarten
Robert L. Charlebois
W. Ford Doolittle
R. Thane Papke

First Published August 9, 2006

Methods

High-resolution genomic profiling of chromosomal aberrations using Infinium whole-genome genotyping

Daniel A. Peiffer
Jennie M. Le
Frank J. Steemers
Weihua Chang
Tony Jenniges
Francisco Garcia Kirt Haden Jiangzhen Li Chad A. Shaw John Belmont
... [+5 authors] ...,
Sau Wai Cheung
Richard M. Shen
David L. Barker
Kevin L. Gunderson

First Published August 9, 2006

ERRATUM

Erratum

First Published August 1, 2006

Retraction

Retraction

First Published August 1, 2006

LETTER

Adaptive evolution in two large families of ubiquitin-ligase adapters in nematodes and plants

James H. Thomas

First Published July 6, 2006

LETTER

Genomic signatures of positive selection in humans and the limits of outlier approaches

Joanna L. Kelley
Jennifer Madeoy
John C. Calhoun
Willie Swanson
Joshua M. Akey

First Published July 6, 2006

LETTER

Tissue-specific expression and regulation of sexually dimorphic genes in mice

Xia Yang
Eric E. Schadt
Susanna Wang
Hui Wang
Arthur P. Arnold
Leslie Ingram-Drake
Thomas A. Drake
Aldons J. Lusis

First Published July 6, 2006

LETTER

Clostridium perfringens" > Skewed genomic variability in strains of the toxigenic bacterial pathogen, Clostridium perfringens

Garry S.A. Myers
David A. Rasko
Jackie K. Cheung
Jacques Ravel
Rekha Seshadri
Robert T. DeBoy Qinghu Ren John Varga Milena M. Awad Lauren M. Brinkac Sean C. Daugherty Daniel H. Haft Robert J. Dodson Ramana Madupu William C. Nelson M.J. Rosovitz Steven A. Sullivan Hoda Khouri George I. Dimitrov Kisha L. Watkins Stephanie Mulligan Jonathan Benton Diana Radune Derek J. Fisher Helen S. Atkins Tom Hiscox B. Helen Jost Stephen J. Billington J. Glenn Songer Bruce A. McClane
... [+25 authors] ...,
Richard W. Titball
Julian I. Rood
Stephen B. Melville
Ian T. Paulsen

First Published July 6, 2006

RESOURCE

A molecular-properties-based approach to understanding PDZ domain proteins and PDZ ligands

Cosmas Giallourakis
Zhifang Cao
Todd Green
Heather Wachtel
Xiaohui Xie
Marco Lopez-Illasaca
Mark Daly
John Rioux
Ramnik Xavier

First Published July 6, 2006

ERRATUM

Erratum

First Published July 3, 2006

ERRATUM

Erratum

First Published July 3, 2006

PERSPECTIVE

Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity

Michael Freeling
Brian C. Thomas

First Published July 3, 2006

ARTICLE

Phytophthora" > Amplification generates modular diversity at an avirulence locus in the pathogen Phytophthora

Rays H.Y. Jiang
Rob Weide
Peter J.I. van de Vondervoort
Francine Govers

First Published July 3, 2006

Methods

RNA expression profiling at the single molecule level

Jan Hesse
Jaroslaw Jacak
Maria Kasper
Gerhard Regl
Thomas Eichberger
Martina Winklmayr Fritz Aberger Max Sonnleitner Robert Schlapak
... [+4 authors] ...,
Stefan Howorka
Leila Muresan
Anna-Maria Frischauf
Gerhard J. Schütz

First Published June 29, 2006

ARTICLE

Extensive low-affinity transcriptional interactions in the yeast genome

Amos Tanay

First Published June 29, 2006

LETTER

Relaxation of selective constraint on dog mitochondrial DNA following domestication

Susanne Björnerfeldt
Matthew T. Webster
Carles Vilà

First Published June 29, 2006

REVIEW

Copy number variation: New insights in genome diversity

Jennifer L. Freeman
George H. Perry
Lars Feuk
Richard Redon
Steven A. McCarroll
David M. Altshuler Hiroyuki Aburatani Keith W. Jones Chris Tyler-Smith
... [+4 authors] ...,
Matthew E. Hurles
Nigel P. Carter
Stephen W. Scherer
Charles Lee

First Published June 29, 2006

LETTER

C. elegans with M. nematophilum" > Genomic clusters, putative pathogen recognition molecules, and antimicrobial genes are induced by infection of C. elegans with M. nematophilum

Delia O’Rourke
Dilair Baban
Maria Demidova
Richard Mott
Jonathan Hodgkin

First Published June 29, 2006

Methods

Comparative isoschizomer profiling of cytosine methylation: The HELP assay

Batbayar Khulan
Reid F. Thompson
Kenny Ye
Melissa J. Fazzari
Masako Suzuki
Edyta Stasiek Maria E. Figueroa Jacob L. Glass Quan Chen Cristina Montagna Eli Hatchwell Rebecca R. Selzer
... [+7 authors] ...,
Todd A. Richmond
Roland D. Green
Ari Melnick
John M. Greally

First Published June 29, 2006

LETTER

Heterozygous carriers of Nijmegen Breakage Syndrome have a distinct gene expression phenotype

Vivian G. Cheung
Warren J. Ewens

First Published June 29, 2006

LETTER

cis-regulatory elements" > Close sequence comparisons are sufficient to identify human cis-regulatory elements

Shyam Prabhakar
Francis Poulin
Malak Shoukry
Veena Afzal
Edward M. Rubin
Olivier Couronne
Len A. Pennacchio

First Published June 12, 2006

LETTER

Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcription and organismic complexity

Miao Sun
Laurence D. Hurst
Gordon G. Carmichael
Jianjun Chen

First Published June 12, 2006

LETTER

Genomic localization of RNA binding proteins reveals links between pre-mRNA processing and transcription

Ian A. Swinburne
Clifford A. Meyer
X. Shirley Liu
Pamela A. Silver
Alexander S. Brodsky

First Published June 12, 2006

LETTER

Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes" > Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes

Brian C. Thomas
Brent Pedersen
Michael Freeling

First Published June 7, 2006

LETTER

Identification of clustered YY1 binding sites in imprinting control regions

Jeong Do Kim
Angela K. Hinz
Anne Bergmann
Jennifer M. Huang
Ivan Ovcharenko
Lisa Stubbs
Joomyeong Kim

First Published June 7, 2006

ARTICLE

Genomic organization of the sex-determining and adjacent regions of the sex chromosomes of medaka

Mariko Kondo
Ute Hornung
Indrajit Nanda
Shuichiro Imai
Takashi Sasaki
Atsushi Shimizu Shuichi Asakawa
... [+2 authors] ...,
Hiroshi Hori
Michael Schmid
Nobuyoshi Shimizu
Manfred Schartl

First Published June 2, 2006

LETTER

Drosophila genome revealed by a genome-wide interspecies comparison" > Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison

Daniel L. Halligan
Peter D. Keightley

First Published June 2, 2006

ARTICLE

A systems view of haloarchaeal strategies to withstand stress from transition metals

Amardeep Kaur
Min Pan
Megan Meislin
Marc T. Facciotti
Raafat El-Gewely
Nitin S. Baliga

First Published June 2, 2006

LETTER

Thousands of corresponding human and mouse genomic regions unalignable in primary sequence contain common RNA structure

Elfar Torarinsson
Milena Sawera
Jakob H. Havgaard
Merete Fredholm
Jan Gorodkin

First Published June 2, 2006

LETTER

Suz12 binds to silenced regions of the genome in a cell-type-specific manner

Sharon L. Squazzo
Henriette O’Geen
Vitalina M. Komashko
Sheryl R. Krig
Victor X. Jin
Sung-wook Jang
... [+1 authors] ...,
Raphael Margueron
Danny Reinberg
Roland Green
Peggy J. Farnham

First Published June 2, 2006

ERRATUM

Erratum

First Published June 1, 2006

Methods

Physical map-assisted whole-genome shotgun sequence assemblies

René L. Warren
Dmitry Varabei
Darren Platt
Xiaoqiu Huang
David Messina
Shiaw-Pyng Yang James W. Kronstad Martin Krzywinski Wesley C. Warren John W. Wallis LaDeana W. Hillier Asif T. Chinwalla Jacqueline E. Schein
... [+8 authors] ...,
Asim S. Siddiqui
Marco A. Marra
Richard K. Wilson
Steven J.M. Jones

First Published June 1, 2006

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