ARTICLES:

Martin C. Frith, Eivind Valen, Anders Krogh, Yoshihide Hayashizaki, Piero Carninci, and Albin Sandelin

A code for transcription initiation in mammalian genomes
Genome Res. 2008 18: 1-12. Published in Advance November 21, 2007, 10.1101/gr.6831208 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

LETTERS:

Dawn M. Stults, Michael W. Killen, Heather H. Pierce, and Andrew J. Pierce

Genomic architecture and inheritance of human ribosomal RNA gene clusters
Genome Res. 2008 18: 13-18. Published in Advance November 19, 2007, 10.1101/gr.6858507 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Yulia Korshunova, Rebecca K. Maloney, Nathan Lakey, Robert W. Citek, Blaire Bacher, Arief Budiman, Jared M. Ordway, W. Richard McCombie, Jorge Leon, Jeffrey A. Jeddeloh, and John D. McPherson

Massively parallel bisulphite pyrosequencing reveals the molecular complexity of breast cancer-associated cytosine-methylation patterns obtained from tissue and serum DNA
Genome Res. 2008 18: 19-29. Published in Advance November 21, 2007, 10.1101/gr.6883307 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

Yogeshwar D. Kelkar, Svitlana Tyekucheva, Francesca Chiaromonte, and Kateryna D. Makova

The genome-wide determinants of human and chimpanzee microsatellite evolution
Genome Res. 2008 18: 30-38. Published in Advance November 21, 2007, 10.1101/gr.7113408 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Andrei Petrov, Jeanne Allinne, Iryna Pirozhkova, Dalila Laoudj, Marc Lipinski, and Yegor S. Vassetzky

A nuclear matrix attachment site in the 4q35 locus has an enhancer-blocking activity in vivo: Implications for the facio-scapulo-humeral dystrophy
Genome Res. 2008 18: 39-45. Published in Advance November 21, 2007, 10.1101/gr.6620908 [Abstract] [Full Text] [PDF]  

Leah O. Barrera, Zirong Li, Andrew D. Smith, Karen C. Arden, Webster K. Cavenee, Michael Q. Zhang, Roland D. Green, and Bing Ren

Genome-wide mapping and analysis of active promoters in mouse embryonic stem cells and adult organs
Genome Res. 2008 18: 46-59. Published in Advance November 27, 2007, 10.1101/gr.6654808 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Dawn E. Watkins-Chow and William J. Pavan

Genomic copy number and expression variation within the C57BL/6J inbred mouse strain
Genome Res. 2008 18: 60-66. Published in Advance November 21, 2007, 10.1101/gr.6927808 [Abstract] [Full Text] [PDF]  

Katherine C. Teeter, Bret A. Payseur, Leslie W. Harris, Margaret A. Bakewell, Lisa M. Thibodeau, Janelle E. O’Brien, James G. Krenz, Maria A. Sans-Fuentes, Michael W. Nachman, and Priscilla K. Tucker

Genome-wide patterns of gene flow across a house mouse hybrid zone
Genome Res. 2008 18: 67-76. Published in Advance November 19, 2007, 10.1101/gr.6757907 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Xavier Roca, Andrew J. Olson, Atmakuri R. Rao, Espen Enerly, Vessela N. Kristensen, Anne-Lise Børresen-Dale, Brage S. Andresen, Adrian R. Krainer, and Ravi Sachidanandam

Features of 5'-splice-site efficiency derived from disease-causing mutations and comparative genomics
Genome Res. 2008 18: 77-87. Published in Advance November 21, 2007, 10.1101/gr.6859308 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

Schraga Schwartz, João Silva, David Burstein, Tal Pupko, Eduardo Eyras, and Gil Ast

Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes
Genome Res. 2008 18: 88-103. Published in Advance November 21, 2007, 10.1101/gr.6818908 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Guo-Qing Tang and E. Stuart Maxwell

Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation
Genome Res. 2008 18: 104-112. Published in Advance November 21, 2007, 10.1101/gr.6539108 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Bin Li, Reinhard Predel, Susanne Neupert, Frank Hauser, Yoshiaki Tanaka, Giuseppe Cazzamali, Michael Williamson, Yasuyuki Arakane, Peter Verleyen, Liliane Schoofs, Joachim Schachtner, Cornelis J.P. Grimmelikhuijzen, and Yoonseong Park

Genomics, transcriptomics, and peptidomics of neuropeptides and protein hormones in the red flour beetle Tribolium castaneum
Genome Res. 2008 18: 113-122. Published in Advance November 19, 2007, 10.1101/gr.6714008 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Jian Chen, Xiaoying Shi, Ranjani Padmanabhan, Qiong Wang, Zhidan Wu, Susan C. Stevenson, Marc Hild, Dan Garza, and Hao Li

Identification of novel modulators of mitochondrial function by a genome-wide RNAi screen in Drosophila melanogaster
Genome Res. 2008 18: 123-136. Published in Advance November 27, 2007, 10.1101/gr.6940108 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Devin R. Scannell and Kenneth H. Wolfe

A burst of protein sequence evolution and a prolonged period of asymmetric evolution follow gene duplication in yeast
Genome Res. 2008 18: 137-147. Published in Advance November 19, 2007, 10.1101/gr.6341207 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Nacho Molina and Erik van Nimwegen

Universal patterns of purifying selection at noncoding positions in bacteria
Genome Res. 2008 18: 148-160. Published in Advance November 21, 2007, 10.1101/gr.6759507 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Nicholas R. Thomson, Matthew T.G. Holden, Caroline Carder, Nicola Lennard, Sarah J. Lockey, Pete Marsh, Paul Skipp, C. David O’Connor, Ian Goodhead, Halina Norbertzcak, Barbara Harris, Doug Ormond, Richard Rance, Michael A. Quail, Julian Parkhill, Richard S. Stephens, and Ian N. Clarke

Chlamydia trachomatis: Genome sequence analysis of lymphogranuloma venereum isolates
Genome Res. 2008 18: 161-171. Published in Advance November 21, 2007, 10.1101/gr.7020108 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

METHODS:

Tatiana Teixeira Torres, Muralidhar Metta, Birgit Ottenwälder, and Christian Schlötterer

Gene expression profiling by massively parallel sequencing
Genome Res. 2008 18: 172-177. Published in Advance November 21, 2007, 10.1101/gr.6984908 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

Xiangjun Du, Zhuo Wang, Aiping Wu, Lin Song, Yang Cao, Haiying Hang, and Taijiao Jiang

Networks of genomic co-occurrence capture characteristics of human influenza A (H3N2) evolution
Genome Res. 2008 18: 178-187. Published in Advance November 21, 2007, 10.1101/gr.6969007 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

RESOURCES:

Brandi L. Cantarel, Ian Korf, Sofia M.C. Robb, Genis Parra, Eric Ross, Barry Moore, Carson Holt, Alejandro Sánchez Alvarado, and Mark Yandell

MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes
Genome Res. 2008 18: 188-196. Published in Advance November 19, 2007, 10.1101/gr.6743907 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

ERRATUM:

Erratum
Genome Res. 2008 18: 197. [Full Text] [PDF]  

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