PERSPECTIVE:

Robert L. Strausberg and Samuel Levy

Promoting transcriptome diversity
Genome Res. 2007 17: 965-968. [Abstract] [Full Text] [PDF]  

LETTERS:

Leo Goodstadt, Andreas Heger, Caleb Webber, and Chris P. Ponting

An analysis of the gene complement of a marsupial, Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes
Genome Res. 2007 17: 969-981. Published in Advance May 10, 2007, 10.1101/gr.6093907 [Abstract] [Full Text] [PDF] [Monodelphis domestica Genome] [Supplemental Research Data]  

Katherine Belov, Claire E. Sanderson, Janine E. Deakin, Emily S.W. Wong, Daniel Assange, Kaighin A. McColl, Alex Gout, Bernard de Bono, Alexander D. Barrow, Terence P. Speed, John Trowsdale, and Anthony T. Papenfuss

Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system
Genome Res. 2007 17: 982-991. Published in Advance May 10, 2007, 10.1101/gr.6121807 [Abstract] [Full Text] [PDF] [Monodelphis domestica Genome] [Supplemental Research Data] OPEN ACCESS ARTICLE  

Andrew J. Gentles, Matthew J. Wakefield, Oleksiy Kohany, Wanjun Gu, Mark A. Batzer, David D. Pollock, and Jerzy Jurka

Evolutionary dynamics of transposable elements in the short-tailed opossum Monodelphis domestica
Genome Res. 2007 17: 992-1004. Published in Advance May 10, 2007, 10.1101/gr.6070707 [Abstract] [Full Text] [PDF] [Monodelphis domestica Genome] [Supplemental Research Data]  

Katsuki Tsuritani, Takuma Irie, Riu Yamashita, Yuta Sakakibara, Hiroyuki Wakaguri, Akinori Kanai, Junko Mizushima-Sugano, Sumio Sugano, Kenta Nakai, and Yutaka Suzuki

Distinct class of putative "non-conserved" promoters in humans: Comparative studies of alternative promoters of human and mouse genes
Genome Res. 2007 17: 1005-1014. Published in Advance June 13, 2007, 10.1101/gr.6030107 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Kavita Garg and Phil Green

Differing patterns of selection in alternative and constitutive splice sites
Genome Res. 2007 17: 1015-1022. Published in Advance June 7, 2007, 10.1101/gr.6347907 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

Rodger B. Voelker and J. Andrew Berglund

A comprehensive computational characterization of conserved mammalian intronic sequences reveals conserved motifs associated with constitutive and alternative splicing
Genome Res. 2007 17: 1023-1033. Published in Advance May 24, 2007, 10.1101/gr.6017807 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Liran Carmel, Yuri I. Wolf, Igor B. Rogozin, and Eugene V. Koonin

Three distinct modes of intron dynamics in the evolution of eukaryotes
Genome Res. 2007 17: 1034-1044. Published in Advance May 10, 2007, 10.1101/gr.6438607 [Abstract] [Full Text] [PDF] [Supplementary Research Data] OPEN ACCESS ARTICLE  

Liran Carmel, Igor B. Rogozin, Yuri I. Wolf, and Eugene V. Koonin

Evolutionarily conserved genes preferentially accumulate introns
Genome Res. 2007 17: 1045-1050. Published in Advance May 10, 2007, 10.1101/gr.5978207 [Abstract] [Full Text] [PDF] [Supplementary Research Data] OPEN ACCESS ARTICLE  

Guglielmo Roma, Gilda Cobellis, Pamela Claudiani, Francesco Maione, Pedro Cruz, Gaetano Tripoli, Marco Sardiello, Ivana Peluso, and Elia Stupka

A novel view of the transcriptome revealed from gene trapping in mouse embryonic stem cells
Genome Res. 2007 17: 1051-1060. Published in Advance May 31, 2007, 10.1101/gr.5720807 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Vanessa Vermeirssen, M. Inmaculada Barrasa, César A. Hidalgo, Jenny Aurielle B. Babon, Reynaldo Sequerra, Lynn Doucette-Stamm, Albert-László Barabási, and Albertha J.M. Walhout

Transcription factor modularity in a gene-centered C. elegans core neuronal protein–DNA interaction network
Genome Res. 2007 17: 1061-1071. Published in Advance May 18, 2007, 10.1101/gr.6148107 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Thomas Wicker and Beat Keller

Genome-wide comparative analysis of copia retrotransposons in Triticeae, rice, and Arabidopsis reveals conserved ancient evolutionary lineages and distinct dynamics of individual copia families
Genome Res. 2007 17: 1072-1081. Published in Advance June 7, 2007, 10.1101/gr.6214107 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Mohammed Sebaihia, Michael W. Peck, Nigel P. Minton, Nicholas R. Thomson, Matthew T.G. Holden, Wilfrid J. Mitchell, Andrew T. Carter, Stephen D. Bentley, David R. Mason, Lisa Crossman, Catherine J. Paul, Alasdair Ivens, Marjon H.J. Wells-Bennik, Ian J. Davis, Ana M. Cerdeño-Tárraga, Carol Churcher, Michael A. Quail, Tracey Chillingworth, Theresa Feltwell, Audrey Fraser, Ian Goodhead, Zahra Hance, Kay Jagels, Natasha Larke, Mark Maddison, Sharon Moule, Karen Mungall, Halina Norbertczak, Ester Rabbinowitsch, Mandy Sanders, Mark Simmonds, Brian White, Sally Whithead, and Julian Parkhill

Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes
Genome Res. 2007 17: 1082-1092. Published in Advance May 22, 2007, 10.1101/gr.6282807 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

METHODS:

Sangkyun Jeong, Yoonsoo Hahn, Qi Rong, and Karl Pfeifer

Accurate quantitation of allele-specific expression patterns by analysis of DNA melting
Genome Res. 2007 17: 1093-1100. Published in Advance June 1, 2007, 10.1101/gr.6028507 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Jong Hyun Kim, Michael S. Waterman, and Lei M. Li

Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi
Genome Res. 2007 17: 1101-1110. Published in Advance June 13, 2007, 10.1101/gr.5894107 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

RESOURCES:

Jinghui Zhang, Richard P. Finney, William Rowe, Michael Edmonson, Sei Hoon Yang, Tatiana Dracheva, Jin Jen, Jeffery P. Struewing, and Kenneth H. Buetow

Systematic analysis of genetic alterations in tumors using Cancer Genome WorkBench (CGWB)
Genome Res. 2007 17: 1111-1117. Published in Advance May 24, 2007, 10.1101/gr.5963407 [Abstract] [Full Text] [PDF] [Supplemental Research Data]  

Noel G. Faux, Gavin A. Huttley, Khalid Mahmood, Geoffrey I. Webb, Maria Garcia de la Banda, and James C. Whisstock

RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins
Genome Res. 2007 17: 1118-1127. Published in Advance June 13, 2007, 10.1101/gr.6255407 [Abstract] [Full Text] [PDF] [Supplemental Research Data] OPEN ACCESS ARTICLE  

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