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Article

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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,
- Michael J. Garabedian,
- and Richard M. Myers
Genome Res. December 2009 19: 2163-2171; Published in Advance October 2, 2009, doi:10.1101/gr.097022.109
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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,
- Yu Zhang,
- Gerd A. Blobel,
- Mitchell J. Weiss,
- and Ross C. Hardison
Genome Res. December 2009 19: 2172-2184; Published in Advance November 3, 2009, doi:10.1101/gr.098921.109
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Methods

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Predictable dynamic program of timing of DNA replication in human cells
- Romain Desprat,
- Danielle Thierry-Mieg,
- Nathalie Lailler,
- Julien Lajugie,
- Carl Schildkraut,
- Jean Thierry-Mieg,
- and Eric E. Bouhassira
Genome Res. December 2009 19: 2288-2299; Published in Advance September 18, 2009, doi:10.1101/gr.094060.109
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Two-parameter characterization of chromosome-scale recombination rate
- Wentian Li and
- Jan Freudenberg
Genome Res. December 2009 19: 2300-2307; Published in Advance September 14, 2009, doi:10.1101/gr.092676.109
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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,
- Gordon Dougan,
- John Wain,
- Julian Parkhill,
- and A. Keith Turner
Genome Res. December 2009 19: 2308-2316; Published in Advance October 13, 2009, doi:10.1101/gr.097097.109
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Resource

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The NIH Human Microbiome Project
- The NIH HMP Working Group,
- 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,
- Samir Zakhari,
- Jennifer Read,
- Bracie Watson,
- and Mark Guyer
Genome Res. December 2009 19: 2317-2323; Published in Advance October 9, 2009, doi:10.1101/gr.096651.109
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The completion of the Mammalian Gene Collection (MGC)
- The MGC Project Team,
- 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,
- Vanessa E. Wall,
- Ralph F. Hopkins,
- Osamu Ohara,
- and Stefan Wiemann
Genome Res. December 2009 19: 2324-2333; Published in Advance September 18, 2009, doi:10.1101/gr.095976.109
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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,
- Michael E. Cusick,
- Frederick P. Roth,
- David E. Hill,
- and Marc Vidal
Genome Res. December 2009 19: 2334-2342; Published in Advance October 2, 2009, doi:10.1101/gr.098640.109
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Errata

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Errata
Genome Res. December 2009 19: 2343

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

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