Volume 17, Issue 7 | July 2007

PERSPECTIVE
- - Promoting transcriptome diversity
    Robert L. Strausberg
    Samuel Levy
    First Published July 2, 2007
LETTERS
- - An analysis of the gene complement of a marsupial, Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes
    Leo Goodstadt
    Andreas Heger
    Caleb Webber
    Chris P. Ponting
    First Published May 10, 2007
  - Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system
    Katherine Belov
    Claire E. Sanderson
    Janine E. Deakin
    Emily S.W. Wong
    Daniel Assange
    Kaighin A. McColl Alex Gout Bernard de Bono
    ...[+3 authors]...,
    Alexander D. Barrow
    Terence P. Speed
    John Trowsdale
    Anthony T. Papenfuss
    First Published May 10, 2007
  - Evolutionary dynamics of transposable elements in the short-tailed opossum Monodelphis domestica
    Andrew J. Gentles
    Matthew J. Wakefield
    Oleksiy Kohany
    Wanjun Gu
    Mark A. Batzer
    First Published May 10, 2007
  - Distinct class of putative “non-conserved” promoters in humans: Comparative studies of alternative promoters of human and mouse genes
    Katsuki Tsuritani
    Takuma Irie
    Riu Yamashita
    Yuta Sakakibara
    Hiroyuki Wakaguri
    Akinori Kanai
    ...[+1 authors]...,
    Junko Mizushima-Sugano
    Sumio Sugano
    Kenta Nakai
    Yutaka Suzuki
    First Published June 13, 2007
  - Differing patterns of selection in alternative and constitutive splice sites
    Kavita Garg
    Phil Green
    First Published June 7, 2007
  - A comprehensive computational characterization of conserved mammalian intronic sequences reveals conserved motifs associated with constitutive and alternative splicing
    Rodger B. Voelker
    J. Andrew Berglund
    First Published May 24, 2007
  - Three distinct modes of intron dynamics in the evolution of eukaryotes
    Liran Carmel
    Yuri I. Wolf
    Igor B. Rogozin
    Eugene V. Koonin
    First Published May 10, 2007
  - Evolutionarily conserved genes preferentially accumulate introns
    Liran Carmel
    Igor B. Rogozin
    Yuri I. Wolf
    Eugene V. Koonin
    First Published May 10, 2007
  - A novel view of the transcriptome revealed from gene trapping in mouse embryonic stem cells
    Guglielmo Roma
    Gilda Cobellis
    Pamela Claudiani
    Francesco Maione
    Pedro Cruz
    First Published May 31, 2007
  - Transcription factor modularity in a gene-centered C. elegans core neuronal protein–DNA interaction network
    Vanessa Vermeirssen
    M. Inmaculada Barrasa
    César A. Hidalgo
    Jenny Aurielle B. Babon
    Reynaldo Sequerra
    First Published May 18, 2007
  - Genome-wide comparative analysis of copia retrotransposons in Triticeae, rice, and Arabidopsis reveals conserved ancient evolutionary lineages and distinct dynamics of individual copia families
    Thomas Wicker
    Beat Keller
    First Published June 7, 2007
  - Genome sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes
    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
    ...[+25 authors]...,
    Mark Simmonds
    Brian White
    Sally Whithead
    Julian Parkhill
    First Published May 22, 2007
Methods
- - Accurate quantitation of allele-specific expression patterns by analysis of DNA melting
    Sangkyun Jeong
    Yoonsoo Hahn
    Qi Rong
    Karl Pfeifer
    First Published June 1, 2007
  - Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi
    Jong Hyun Kim
    Michael S. Waterman
    Lei M. Li
    First Published June 13, 2007
RESOURCES
- - Systematic analysis of genetic alterations in tumors using Cancer Genome WorkBench (CGWB)
    Jinghui Zhang
    Richard P. Finney
    William Rowe
    Michael Edmonson
    Sei Hoon Yang
    First Published May 24, 2007
  - RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins
    Noel G. Faux
    Gavin A. Huttley
    Khalid Mahmood
    Geoffrey I. Webb
    Maria Garcia de la Banda
    First Published June 13, 2007

Table of Contents

Volume 17, Issue 7 | July 2007

PERSPECTIVE

Promoting transcriptome diversity

LETTERS

An analysis of the gene complement of a marsupial, Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes

Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system

Evolutionary dynamics of transposable elements in the short-tailed opossum Monodelphis domestica

Distinct class of putative “non-conserved” promoters in humans: Comparative studies of alternative promoters of human and mouse genes

Differing patterns of selection in alternative and constitutive splice sites

A comprehensive computational characterization of conserved mammalian intronic sequences reveals conserved motifs associated with constitutive and alternative splicing

Three distinct modes of intron dynamics in the evolution of eukaryotes

Evolutionarily conserved genes preferentially accumulate introns

A novel view of the transcriptome revealed from gene trapping in mouse embryonic stem cells

Transcription factor modularity in a gene-centered C. elegans core neuronal protein–DNA interaction network

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 sequence of a proteolytic (Group I) Clostridium botulinum strain Hall A and comparative analysis of the clostridial genomes

Methods

Accurate quantitation of allele-specific expression patterns by analysis of DNA melting

Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi

RESOURCES

Systematic analysis of genetic alterations in tumors using Cancer Genome WorkBench (CGWB)

RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins

Table of Contents

Volume 17, Issue 7 | July 2007

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PERSPECTIVE

LETTERS

Methods

RESOURCES