Volume 19, Issue 12 | December 2009

Article
- - Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation
    Timothy E. Reddy
    Florencia Pauli
    Rebekka O. Sprouse
    Norma F. Neff
    Kimberly M. Newberry
    First Published October 2, 2009
  - Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression
    Yong Cheng
    Weisheng Wu
    Swathi Ashok Kumar
    Duonan Yu
    Wulan Deng
    Tamara Tripic David C. King Kuan-Bei Chen Ying Zhang Daniela Drautz Belinda Giardine Stephan C. Schuster Webb Miller Francesca Chiaromonte
    ...[+9 authors]...,
    Yu Zhang
    Gerd A. Blobel
    Mitchell J. Weiss
    Ross C. Hardison
    First Published November 3, 2009
Letter
- - Human capacitance to dosage imbalance: Coping with inefficient selection
    Ariel Fernández
    Jianping Chen
    First Published October 9, 2009
  - DNA methylation programming and reprogramming in primate embryonic stem cells
    Netta Mendelson Cohen
    Vikas Dighe
    Gilad Landan
    Sigrún Reynisdóttir
    Arnar Palsson
    First Published November 3, 2009
  - 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
  - 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
  - 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
    First Published September 29, 2009
  - 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
  - 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
  - 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
  - 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
  - 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
Methods
- - Predictable dynamic program of timing of DNA replication in human cells
    Romain Desprat
    Danielle Thierry-Mieg
    Nathalie Lailler
    Julien Lajugie
    Carl Schildkraut
    First Published September 18, 2009
  - Two-parameter characterization of chromosome-scale recombination rate
    Wentian Li
    Jan Freudenberg
    First Published September 14, 2009
  - Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants
    Gemma C. Langridge
    Minh-Duy Phan
    Daniel J. Turner
    Timothy T. Perkins
    Leopold Parts
    Jana Haase Ian Charles Duncan J. Maskell Sarah E. Peters
    ...[+4 authors]...,
    Gordon Dougan
    John Wain
    Julian Parkhill
    A. Keith Turner
    First Published October 13, 2009
Resource
- - The NIH Human Microbiome Project
    Jane Peterson
    Susan Garges
    Maria Giovanni
    Pamela McInnes
    Lu Wang
    Jeffery A. Schloss Vivien Bonazzi Jean E. McEwen Kris A. Wetterstrand Carolyn Deal Carl C. Baker Valentina Di Francesco T. Kevin Howcroft Robert W. Karp R. Dwayne Lunsford Christopher R. Wellington Tsegahiwot Belachew Michael Wright Christina Giblin Hagit David Melody Mills Rachelle Salomon Christopher Mullins Beena Akolkar Lisa Begg Cindy Davis Lindsey Grandison Michael Humble Jag Khalsa A. Roger Little Hannah Peavy Carol Pontzer Matthew Portnoy Michael H. Sayre Pamela Starke-Reed
    ...[+30 authors]...,
    Samir Zakhari
    Jennifer Read
    Bracie Watson
    Mark Guyer
    First Published October 9, 2009
  - The completion of the Mammalian Gene Collection (MGC)
    Gary Temple
    Daniela S. Gerhard
    Rebekah Rasooly
    Elise A. Feingold
    Peter J. Good
    Cristen Robinson Allison Mandich Jeffrey G. Derge Jeanne Lewis Debonny Shoaf Francis S. Collins Wonhee Jang Lukas Wagner Carolyn M. Shenmen Leonie Misquitta Carl F. Schaefer Kenneth H. Buetow Tom I. Bonner Linda Yankie Ming Ward Lon Phan Alex Astashyn Garth Brown Catherine Farrell Jennifer Hart Melissa Landrum Bonnie L. Maidak Michael Murphy Terence Murphy Bhanu Rajput Lillian Riddick David Webb Janet Weber Wendy Wu Kim D. Pruitt Donna Maglott Adam Siepel Brona Brejova Mark Diekhans Rachel Harte Robert Baertsch Jim Kent David Haussler Michael Brent Laura Langton Charles L.G. Comstock Michael Stevens Chaochun Wei Marijke J. van Baren Kourosh Salehi-Ashtiani Ryan R. Murray Lila Ghamsari Elizabeth Mello Chenwei Lin Christa Pennacchio Kirsten Schreiber Nicole Shapiro Amber Marsh Elizabeth Pardes Troy Moore Anita Lebeau Mike Muratet Blake Simmons David Kloske Stephanie Sieja James Hudson Praveen Sethupathy Michael Brownstein Narayan Bhat Joseph Lazar Howard Jacob Chris E. Gruber Mark R. Smith John McPherson Angela M. Garcia Preethi H. Gunaratne Jiaqian Wu Donna Muzny Richard A. Gibbs Alice C. Young Gerard G. Bouffard Robert W. Blakesley Jim Mullikin Eric D. Green Mark C. Dickson Alex C. Rodriguez Jane Grimwood Jeremy Schmutz Richard M. Myers Martin Hirst Thomas Zeng Kane Tse Michelle Moksa Merinda Deng Kevin Ma Diana Mah Johnson Pang Greg Taylor Eric Chuah Athena Deng Keith Fichter Anne Go Stephanie Lee Jing Wang Malachi Griffith Ryan Morin Richard A. Moore Michael Mayo Sarah Munro Susan Wagner Steven J.M. Jones Robert A. Holt Marco A. Marra Sun Lu Shuwei Yang James Hartigan Marcus Graf Ralf Wagner Stanley Letovksy Jacqueline C. Pulido Keith Robison Dominic Esposito James Hartley
    ...[+118 authors]...,
    Vanessa E. Wall
    Ralph F. Hopkins
    Osamu Ohara
    Stefan Wiemann
    First Published September 18, 2009
  - Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome
    Kourosh Salehi-Ashtiani
    Chenwei Lin
    Tong Hao
    Yun Shen
    David Szeto
    Xinping Yang Lila Ghamsari HanJoo Lee Changyu Fan Ryan R. Murray Stuart Milstein Nenad Svrzikapa
    ...[+7 authors]...,
    Michael E. Cusick
    Frederick P. Roth
    David E. Hill
    Marc Vidal
    First Published October 2, 2009
Errata
- - Errata
    First Published December 1, 2009

Table of Contents

Volume 19, Issue 12 | December 2009

Article

Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation

Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression

Letter

Human capacitance to dosage imbalance: Coping with inefficient selection

DNA methylation programming and reprogramming in primate embryonic stem cells

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

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

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

Comparative genomics of the fungal pathogens Candida dubliniensis and Candida albicans

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

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

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

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

Methods

Predictable dynamic program of timing of DNA replication in human cells

Two-parameter characterization of chromosome-scale recombination rate

Simultaneous assay of every Salmonella Typhi gene using one million transposon mutants

Resource

The NIH Human Microbiome Project

The completion of the Mammalian Gene Collection (MGC)

Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome

Errata

Errata

Table of Contents

Volume 19, Issue 12 | December 2009

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Article

Letter

Methods

Resource

Errata