Volume 15, Issue 8 | August 2005

ARTICLES
- - Genome sequence of Blochmannia pennsylvanicus indicates parallel evolutionary trends among bacterial mutualists of insects
    Patrick H. Degnan
    Adam B. Lazarus
    Jennifer J. Wernegreen
    First Published August 2, 2005
  - Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
    Adam Siepel
    Gill Bejerano
    Jakob S. Pedersen
    Angie S. Hinrichs
    Minmei Hou
    Kate Rosenbloom Hiram Clawson John Spieth LaDeana W. Hillier Stephen Richards George M. Weinstock Richard K. Wilson
    ...[+7 authors]...,
    Richard A. Gibbs
    W. James Kent
    Webb Miller
    David Haussler
    First Published July 15, 2005
LETTERS
- - Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
    David C. King
    James Taylor
    Laura Elnitski
    Francesca Chiaromonte
    Webb Miller
    Ross C. Hardison
    First Published July 15, 2005
  - A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts
    Elisa de la Calle-Mustienes
    Cármen Gloria Feijóo
    Miguel Manzanares
    Juan J. Tena
    Elisa Rodríguez-Seguel
    Annalisa Letizia
    Miguel L. Allende
    José Luis Gómez-Skarmeta
    First Published July 15, 2005
  - Gene-breaking: A new paradigm for human retrotransposon-mediated gene evolution
    Sarah J. Wheelan
    Yasunori Aizawa
    Jeffrey S. Han
    Jef D. Boeke
    First Published July 15, 2005
  - Human ribosomal RNA gene arrays display a broad range of palindromic structures
    Sandrine Caburet
    Chiara Conti
    Catherine Schurra
    Ronald Lebofsky
    Stuart J. Edelstein
    Aaron Bensimon
    First Published July 15, 2005
  - The scale of mutational variation in the murid genome
    Daniel J. Gaffney
    Peter D. Keightley
    First Published July 15, 2005
  - Random mutagenesis of proximal mouse chromosome 5 uncovers predominantly embryonic lethal mutations
    Lawriston Wilson
    Yung-Hao Ching
    Michael Farias
    Suzanne A. Hartford
    Gareth Howell
    Hongguang Shao
    Maja Bucan
    John C. Schimenti
    First Published July 15, 2005
  - An extraordinary retrotransposon family encoding dual endonucleases
    Kenji K. Kojima
    Haruhiko Fujiwara
    First Published August 2, 2005
  - Mass spectrometry of the M. smegmatis proteome: Protein expression levels correlate with function, operons, and codon bias
    Rong Wang
    John T. Prince
    Edward M. Marcotte
    First Published August 2, 2005
Methods
- - Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi
    Vinson Jade P.
    Jaffe David B.
    O'Neill Keith
    Karlsson Elinor K.
    Stange-Thomann Nicole
    Anderson Scott Mesirov Jill P. Satoh Nori Satou Yutaka
    ...[+4 authors]...,
    Nusbaum Chad
    Birren Bruce
    Galagan James E.
    Lander Eric S.
    First Published August 2, 2005
  - Identification of novel mammalian growth regulatory factors by genome-scale quantitative image analysis
    Josephine N. Harada
    Kristen E. Bower
    Anthony P. Orth
    Scott Callaway
    Christian G. Nelson
    Casey Laris
    John B. Hogenesch
    Peter K. Vogt
    Sumit K. Chanda
    First Published July 15, 2005
  - Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics
    Jason Gertz
    Linda Riles
    Peter Turnbaugh
    Su-Wen Ho
    Barak A. Cohen
    First Published August 2, 2005
  - Estimating the tempo and mode of gene family evolution from comparative genomic data
    Hahn Matthew W.
    De Bie Tijl
    Stajich Jason E.
    Nguyen Chi
    Cristianini Nello
    First Published August 2, 2005
  - Recovering the geographic origin of early modern humans by realistic and spatially explicit simulations
    Ray Nicolas
    Currat Mathias
    Berthier Pierre
    Excoffier Laurent
    First Published August 2, 2005
  - Region-specific detection of neuroblastoma loss of heterozygosity at multiple loci simultaneously using a SNP-based tag-array platform
    John M. Maris
    George Hii
    Craig A. Gelfand
    Shobha Varde
    Peter S. White
    Eric Rappaport
    Saul Surrey
    Paolo Fortina
    First Published August 2, 2005

Table of Contents

Volume 15, Issue 8 | August 2005

ARTICLES

Genome sequence of Blochmannia pennsylvanicus indicates parallel evolutionary trends among bacterial mutualists of insects

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

LETTERS

Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts

Gene-breaking: A new paradigm for human retrotransposon-mediated gene evolution

Human ribosomal RNA gene arrays display a broad range of palindromic structures

The scale of mutational variation in the murid genome

Random mutagenesis of proximal mouse chromosome 5 uncovers predominantly embryonic lethal mutations

An extraordinary retrotransposon family encoding dual endonucleases

Mass spectrometry of the M. smegmatis proteome: Protein expression levels correlate with function, operons, and codon bias

Methods

Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi

Identification of novel mammalian growth regulatory factors by genome-scale quantitative image analysis

Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics

Estimating the tempo and mode of gene family evolution from comparative genomic data

Recovering the geographic origin of early modern humans by realistic and spatially explicit simulations

Region-specific detection of neuroblastoma loss of heterozygosity at multiple loci simultaneously using a SNP-based tag-array platform

Table of Contents

Volume 15, Issue 8 | August 2005

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ARTICLES

LETTERS

Methods