Volume 15, Issue 1 | January 2005

ARTICLE
- - Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution
    Stephen Richards
    Yue Liu
    Brian R. Bettencourt
    Pavel Hradecky
    Stan Letovsky
    Rasmus Nielsen Kevin Thornton Melissa J. Hubisz Rui Chen Richard P. Meisel Olivier Couronne Sujun Hua Mark A. Smith Peili Zhang Jing Liu Harmen J. Bussemaker Marinus F. van Batenburg Sally L. Howells Steven E. Scherer Erica Sodergren Beverly B. Matthews Madeline A. Crosby Andrew J. Schroeder Daniel Ortiz-Barrientos Catharine M. Rives Michael L. Metzker Donna M. Muzny Graham Scott David Steffen David A. Wheeler Kim C. Worley Paul Havlak K. James Durbin Amy Egan Rachel Gill Jennifer Hume Margaret B. Morgan George Miner Cerissa Hamilton Yanmei Huang Lenée Waldron Daniel Verduzco Kerstin P. Clerc-Blankenburg Inna Dubchak Mohamed A.F. Noor Wyatt Anderson Kevin P. White Andrew G. Clark
    ...[+43 authors]...,
    Stephen W. Schaeffer
    William Gelbart
    George M. Weinstock
    Richard A. Gibbs
    First Published January 3, 2005
LETTERS
- - High-resolution mtDNA evidence for the late-glacial resettlement of Europe from an Iberian refugium
    Luísa Pereira
    Martin Richards
    Ana Goios
    Antonio Alonso
    Cristina Albarrán
    Oscar Garcia Doron M. Behar Mukaddes Gölge Jiři Hatina
    ...[+4 authors]...,
    Lihadh Al-Gazali
    Daniel G. Bradley
    Vincent Macaulay
    António Amorim
    First Published January 3, 2005
  - Single haplotype analysis demonstrates rapid evolution of the killer immunoglobulin-like receptor (KIR) loci in primates
    Jennifer G. Sambrook
    Arman Bashirova
    Sophie Palmer
    Sarah Sims
    John Trowsdale
    First Published January 3, 2005
  - Functional mapping of a trypanosome centromere by chromosome fragmentation identifies a 16-kb GC-rich transcriptional “strand-switch” domain as a major feature
    Samson O. Obado
    Martin C. Taylor
    Shane R. Wilkinson
    Elizabeth V. Bromley
    John M. Kelly
    First Published January 3, 2005
Methods
- - High-throughput functional screen of mouse gastrula cDNA libraries reveals new components of endoderm and mesoderm specification
    Eric Chiao
    Jeff Leonard
    Kari Dickinson
    Julie C. Baker
    First Published January 3, 2005
  - Gene and alternative splicing annotation with AIR
    Liliana Florea
    Valentina Di Francesco
    Jason Miller
    Russell Turner
    Alison Yao
    Michael Harris Brian Walenz Clark Mobarry Gennady V. Merkulov Rosane Charlab Ian Dew
    ...[+6 authors]...,
    Zuoming Deng
    Sorin Istrail
    Peter Li
    Granger Sutton
    First Published January 3, 2005
  - Identification of polymorphic motifs using probabilistic search algorithms
    Analabha Basu
    Probal Chaudhuri
    Partha P. Majumder
    First Published January 3, 2005
  - Computational prediction of miRNAs in Arabidopsis thaliana
    Alex Adai
    Cameron Johnson
    Sizolwenkosi Mlotshwa
    Sarah Archer-Evans
    Varun Manocha
    First Published January 3, 2005
  - Linkage group selection: Rapid gene discovery in malaria parasites
    Richard Culleton
    Axel Martinelli
    Paul Hunt
    Richard Carter
    First Published January 3, 2005
Chicken Special/Letters
- - Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages
    Guillaume Bourque
    Evgeny M. Zdobnov
    Peer Bork
    Pavel A. Pevzner
    Glenn Tesler
    First Published December 8, 2004
  - Comparison of splice sites in mammals and chicken
    Josep F. Abril
    Robert Castelo
    Roderic Guigó
    First Published December 8, 2004
  - Comparison of the chicken and turkey genomes reveals a higher rate of nucleotide divergence on microchromosomes than macrochromosomes
    Erik Axelsson
    Matthew T. Webster
    Nick G.C. Smith
    David W. Burt
    Hans Ellegren
    First Published December 8, 2004
  - The repetitive landscape of the chicken genome
    Thomas Wicker
    Jon S. Robertson
    Stefan R. Schulze
    F. Alex Feltus
    Vincent Magrini
    Jason A. Morrison Elaine R. Mardis
    ...[+2 authors]...,
    Richard K. Wilson
    Daniel G. Peterson
    Andrew H. Paterson
    Robert Ivarie
    First Published July 15, 2004
  - Evolution and functional classification of vertebrate gene deserts
    Ivan Ovcharenko
    Gabriela G. Loots
    Marcelo A. Nobrega
    Ross C. Hardison
    Webb Miller
    First Published December 8, 2004
  - Evolution of the Beckwith-Wiedemann syndrome region in vertebrates
    Martina Paulsen
    Tarang Khare
    Christopher Burgard
    Sascha Tierling
    Jörn Walter
    First Published December 8, 2004
  - Structural and functional analysis of a 0.5-Mb chicken region orthologous to the imprinted mammalian Ascl2/Mash2–Igf2–H19 region
    Takaaki Yokomine
    Hisao Shirohzu
    Wahyu Purbowasito
    Atsushi Toyoda
    Hisakazu Iwama
    Kazuho Ikeo Tetsuya Hori Shigeki Mizuno Masaoki Tsudzuki
    ...[+4 authors]...,
    Yoh-ichi Matsuda
    Masahira Hattori
    Yoshiyuki Sakaki
    Hiroyuki Sasaki
    First Published December 8, 2004
Chicken Special/Resources
- - Uprobe: A genome-wide universal probe resource for comparative physical mapping in vertebrates
    Wendy A. Kellner
    Robert T. Sullivan
    Brian H. Carlson
    James W. Thomas
    First Published December 8, 2004
  - Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags
    Simon J. Hubbard
    Darren V. Grafham
    Kevin J. Beattie
    Ian M. Overton
    Stuart R. McLaren
    Michael D.R. Croning Paul E. Boardman James K. Bonfield Joan Burnside Robert M. Davies Elizabeth R. Farrell Matthew D. Francis Sam Griffiths-Jones Sean J. Humphray Christopher Hyland Carol E. Scott Haizhou Tang Ruth G. Taylor Cheryll Tickle
    ...[+14 authors]...,
    William R.A. Brown
    Ewan Birney
    Jane Rogers
    Stuart A. Wilson
    First Published December 8, 2004
  - Mulan: Multiple-sequence local alignment and visualization for studying function and evolution
    Ivan Ovcharenko
    Gabriela G. Loots
    Belinda M. Giardine
    Minmei Hou
    Jian Ma
    First Published December 8, 2004

Table of Contents

Volume 15, Issue 1 | January 2005

ARTICLE

Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution

LETTERS

High-resolution mtDNA evidence for the late-glacial resettlement of Europe from an Iberian refugium

Single haplotype analysis demonstrates rapid evolution of the killer immunoglobulin-like receptor (KIR) loci in primates

Functional mapping of a trypanosome centromere by chromosome fragmentation identifies a 16-kb GC-rich transcriptional “strand-switch” domain as a major feature

Methods

High-throughput functional screen of mouse gastrula cDNA libraries reveals new components of endoderm and mesoderm specification

Gene and alternative splicing annotation with AIR

Identification of polymorphic motifs using probabilistic search algorithms

Computational prediction of miRNAs in Arabidopsis thaliana

Linkage group selection: Rapid gene discovery in malaria parasites

Chicken Special/Letters

Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages

Comparison of splice sites in mammals and chicken

Comparison of the chicken and turkey genomes reveals a higher rate of nucleotide divergence on microchromosomes than macrochromosomes

The repetitive landscape of the chicken genome

Evolution and functional classification of vertebrate gene deserts

Evolution of the Beckwith-Wiedemann syndrome region in vertebrates

Structural and functional analysis of a 0.5-Mb chicken region orthologous to the imprinted mammalian Ascl2/Mash2–Igf2–H19 region

Chicken Special/Resources

Uprobe: A genome-wide universal probe resource for comparative physical mapping in vertebrates

Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags

Mulan: Multiple-sequence local alignment and visualization for studying function and evolution

Table of Contents

Volume 15, Issue 1 | January 2005

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ARTICLE

LETTERS

Methods

Chicken Special/Letters

Chicken Special/Resources