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  1. Article: Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis
    • Ichiro Hiratani,
    • Tyrone Ryba,
    • Mari Itoh,
    • Joy Rathjen,
    • Michael Kulik,
    • Bernadett Papp,
    • Eden Fussner,
    • David P. Bazett-Jones,
    • Kathrin Plath,
    • Stephen Dalton,
    • Peter D. Rathjen,
    • and David M. Gilbert
    Genome Res. February 2010 20: 155-169; Published in Advance December 1, 2009, doi:10.1101/gr.099796.109
  2. 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,
    • 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
    OPEN ACCESS ARTICLE
  3. Article: 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
    OPEN ACCESS ARTICLE
  4. Article: Comparative genomics of protoploid Saccharomycetaceae
    • The Génolevures Consortium,
    • Jean-Luc Souciet,
    • Bernard Dujon,
    • Claude Gaillardin,
    • Mark Johnston,
    • Philippe V. Baret,
    • Paul Cliften,
    • David J. Sherman,
    • Jean Weissenbach,
    • Eric Westhof,
    • Patrick Wincker,
    • Claire Jubin,
    • Julie Poulain,
    • Valérie Barbe,
    • Béatrice Ségurens,
    • François Artiguenave,
    • Véronique Anthouard,
    • Benoit Vacherie,
    • Marie-Eve Val,
    • Robert S. Fulton,
    • Patrick Minx,
    • Richard Wilson,
    • Pascal Durrens,
    • Géraldine Jean,
    • Christian Marck,
    • Tiphaine Martin,
    • Macha Nikolski,
    • Thomas Rolland,
    • Marie-Line Seret,
    • Serge Casarégola,
    • Laurence Despons,
    • Cécile Fairhead,
    • Gilles Fischer,
    • Ingrid Lafontaine,
    • Véronique Leh,
    • Marc Lemaire,
    • Jacky de Montigny,
    • Cécile Neuvéglise,
    • Agnès Thierry,
    • Isabelle Blanc-Lenfle,
    • Claudine Bleykasten,
    • Julie Diffels,
    • Emilie Fritsch,
    • Lionel Frangeul,
    • Adrien Goëffon,
    • Nicolas Jauniaux,
    • Rym Kachouri-Lafond,
    • Célia Payen,
    • Serge Potier,
    • Lenka Pribylova,
    • Christophe Ozanne,
    • Guy-Franck Richard,
    • Christine Sacerdot,
    • Marie-Laure Straub,
    • and Emmanuel Talla
    Genome Res. October 2009 19: 1696-1709; Published in Advance June 12, 2009, doi:10.1101/gr.091546.109
    OPEN ACCESS ARTICLE
  5. Article: Meiotic recombination generates rich diversity in NK cell receptor genes, alleles, and haplotypes
    • Paul J. Norman,
    • Laurent Abi-Rached,
    • Ketevan Gendzekhadze,
    • John A. Hammond,
    • Achim K. Moesta,
    • Deepti Sharma,
    • Thorsten Graef,
    • Karina L. McQueen,
    • Lisbeth A. Guethlein,
    • Christine V.F. Carrington,
    • Dasdayanee Chandanayingyong,
    • Yih-Hsin Chang,
    • Catalina Crespí,
    • Güher Saruhan-Direskeneli,
    • Kamran Hameed,
    • Giorgi Kamkamidze,
    • Kwadwo A. Koram,
    • Zulay Layrisse,
    • Nuria Matamoros,
    • Joan Milà,
    • Myoung Hee Park,
    • Ramasamy M. Pitchappan,
    • D. Dan Ramdath,
    • Ming-Yuh Shiau,
    • Henry A.F. Stephens,
    • Siske Struik,
    • Dolly Tyan,
    • David H. Verity,
    • Robert W. Vaughan,
    • Ronald W. Davis,
    • Patricia A. Fraser,
    • Eleanor M. Riley,
    • Mostafa Ronaghi,
    • and Peter Parham
    Genome Res. May 2009 19: 757-769; doi:10.1101/gr.085738.108
  6. Article: High-resolution DNA-binding specificity analysis of yeast transcription factors
    • Cong Zhu,
    • Kelsey J.R.P. Byers,
    • Rachel Patton McCord,
    • Zhenwei Shi,
    • Michael F. Berger,
    • Daniel E. Newburger,
    • Katrina Saulrieta,
    • Zachary Smith,
    • Mita V. Shah,
    • Mathangi Radhakrishnan,
    • Anthony A. Philippakis,
    • Yanhui Hu,
    • Federico De Masi,
    • Marcin Pacek,
    • Andreas Rolfs,
    • Tal Murthy,
    • Joshua LaBaer,
    • and Martha L. Bulyk
    Genome Res. April 2009 19: 556-566; Published in Advance January 21, 2009, doi:10.1101/gr.090233.108
    OPEN ACCESS ARTICLE
  7. Article: Diverse cis factors controlling Alu retrotransposition: What causes Alu elements to die?
    • Matthew S. Comeaux,
    • Astrid M. Roy-Engel,
    • Dale J. Hedges,
    • and Prescott L. Deininger
    Genome Res. April 2009 19: 545-555; Published in Advance March 9, 2009, doi:10.1101/gr.089789.108
    OPEN ACCESS ARTICLE
  8. Article: Human gamma-satellite DNA maintains open chromatin structure and protects a transgene from epigenetic silencing
    • Jung-Hyun Kim,
    • Thomas Ebersole,
    • Natalay Kouprina,
    • Vladimir N. Noskov,
    • Jun-Ichirou Ohzeki,
    • Hiroshi Masumoto,
    • Brankica Mravinac,
    • Beth A. Sullivan,
    • Adam Pavlicek,
    • Sinisa Dovat,
    • Svetlana D. Pack,
    • Yoo-Wook Kwon,
    • Patrick T. Flanagan,
    • Dmitri Loukinov,
    • Victor Lobanenkov,
    • and Vladimir Larionov
    Genome Res. April 2009 19: 533-544; Published in Advance January 13, 2009, doi:10.1101/gr.086496.108
  9. Article: A canonical promoter organization of the transcription machinery and its regulators in the Saccharomyces genome
    • Bryan J. Venters and
    • B. Franklin Pugh
    Genome Res. March 2009 19: 360-371; Published in Advance January 5, 2009, doi:10.1101/gr.084970.108
  10. Article: MEN ε/β nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles
    • Hongjae Sunwoo,
    • Marcel E. Dinger,
    • Jeremy E. Wilusz,
    • Paulo P. Amaral,
    • John S. Mattick,
    • and David L. Spector
    Genome Res. March 2009 19: 347-359; Published in Advance December 22, 2008, doi:10.1101/gr.087775.108
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