Volume 19, Issue 1 | January 2009

ARTICLES
- - Allele-specific gene expression patterns in primary leukemic cells reveal regulation of gene expression by CpG site methylation
    Lili Milani
    Anders Lundmark
    Jessica Nordlund
    Anna Kiialainen
    Trond Flaegstad
    Gudmundur Jonmundsson Jukka Kanerva
    ...[+2 authors]...,
    Kjeld Schmiegelow
    Kevin L. Gunderson
    Gudmar Lönnerholm
    Ann-Christine Syvänen
    First Published November 7, 2008
  - Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa
    Craig Winstanley
    Morgan G.I. Langille
    Joanne L. Fothergill
    Irena Kukavica-Ibrulj
    Catherine Paradis-Bleau
    François Sanschagrin Nicholas R. Thomson Geoff L. Winsor Michael A. Quail Nicola Lennard Alexandra Bignell Louise Clarke Kathy Seeger David Saunders David Harris
    ...[+10 authors]...,
    Julian Parkhill
    Robert E.W. Hancock
    Fiona S.L. Brinkman
    Roger C. Levesque
    First Published December 1, 2008
LETTERS
- - Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains
    Suresh Cuddapah
    Raja Jothi
    Dustin E. Schones
    Tae-Young Roh
    Kairong Cui
    First Published December 3, 2008
  - Comparative sequence analysis of primate subtelomeres originating from a chromosome fission event
    M. Katharine Rudd
    RaeLynn M. Endicott
    Cynthia Friedman
    Megan Walker
    Janet M. Young
    First Published October 24, 2008
  - Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: New functional implications for MITEs
    Hanhui Kuang
    Chellappan Padmanabhan
    Feng Li
    Ayako Kamei
    Pudota B. Bhaskar
    First Published November 26, 2008
  - Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responses
    Besma Ben Amor
    Sonia Wirth
    Francisco Merchan
    Philippe Laporte
    Yves d’Aubenton-Carafa
    Judith Hirsch Alexis Maizel Allison Mallory Antoine Lucas
    ...[+4 authors]...,
    Jean Marc Deragon
    Herve Vaucheret
    Claude Thermes
    Martin Crespi
    First Published November 7, 2008
  - Genome-wide identification and analysis of small RNAs originated from natural antisense transcripts in Oryza sativa
    Xuefeng Zhou
    Ramanjulu Sunkar
    Hailing Jin
    Jian-Kang Zhu
    Weixiong Zhang
    First Published October 29, 2008
  - Principles of transcriptional regulation and evolution of the metabolic system in E. coli
    Aswin S.N. Seshasayee
    Gillian M. Fraser
    M. Madan Babu
    Nicholas M. Luscombe
    First Published October 3, 2008
Methods
- - Most mammalian mRNAs are conserved targets of microRNAs
    Robin C. Friedman
    Kyle Kai-How Farh
    Christopher B. Burge
    David P. Bartel
    First Published October 27, 2008
  - MSB: A mean-shift-based approach for the analysis of structural variation in the genome
    Lu-yong Wang
    Alexej Abyzov
    Jan O. Korbel
    Michael Snyder
    Mark Gerstein
    First Published November 26, 2008
  - Targeted screening of cis-regulatory variation in human haplotypes
    Dominique J. Verlaan
    Bing Ge
    Elin Grundberg
    Rose Hoberman
    Kevin C.L. Lam
    Vonda Koka Joana Dias Scott Gurd Nicolas W. Martin Hans Mallmin Olof Nilsson
    ...[+6 authors]...,
    Eef Harmsen
    Ken Dewar
    Tony Kwan
    Tomi Pastinen
    First Published October 29, 2008
  - Ortho-proteogenomics: Multiple proteomes investigation through orthology and a new MS-based protocol
    Sébastien Gallien
    Emmanuel Perrodou
    Christine Carapito
    Caroline Deshayes
    Jean-Marc Reyrat
    First Published October 27, 2008
RESOURCES
- - Fast and flexible simulation of DNA sequence data
    Gary K. Chen
    Paul Marjoram
    Jeffrey D. Wall
    First Published November 24, 2008
  - genBlastA: Enabling BLAST to identify homologous gene sequences
    Rong She
    Jeffrey S.-C. Chu
    Ke Wang
    Jian Pei
    Nansheng Chen
    First Published October 6, 2008
  - A resource for the simultaneous high-resolution mapping of multiple quantitative trait loci in rats: The NIH heterogeneous stock
    Martina Johannesson
    Regina Lopez-Aumatell
    Pernilla Stridh
    Margarita Diez
    Jonatan Tuncel
    Gloria Blázquez Esther Martinez-Membrives Toni Cañete Elia Vicens-Costa Delyth Graham Richard R. Copley Polinka Hernandez-Pliego Amennai D. Beyeen Johan Öckinger Cristina Fernández-Santamaría Percio S. Gulko Max Brenner Adolf Tobeña Marc Guitart-Masip Lydia Giménez-Llort Anna Dominiczak Rikard Holmdahl Dominique Gauguier Tomas Olsson Richard Mott
    ...[+20 authors]...,
    William Valdar
    Eva E. Redei
    Alberto Fernández-Teruel
    Jonathan Flint
    First Published October 29, 2008
  - Dissecting the effects of mtDNA variations on complex traits using mouse conplastic strains
    Xinhua Yu
    Ulrike Gimsa
    Lena Wester-Rosenlöf
    Ellen Kanitz
    Winfried Otten
    First Published November 26, 2008

Table of Contents

Volume 19, Issue 1 | January 2009

ARTICLES

Allele-specific gene expression patterns in primary leukemic cells reveal regulation of gene expression by CpG site methylation

Newly introduced genomic prophage islands are critical determinants of in vivo competitiveness in the Liverpool Epidemic Strain of Pseudomonas aeruginosa

LETTERS

Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains

Comparative sequence analysis of primate subtelomeres originating from a chromosome fission event

Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: New functional implications for MITEs

Novel long non-protein coding RNAs involved in Arabidopsis differentiation and stress responses

Genome-wide identification and analysis of small RNAs originated from natural antisense transcripts in Oryza sativa

Principles of transcriptional regulation and evolution of the metabolic system in E. coli

Methods

Most mammalian mRNAs are conserved targets of microRNAs

MSB: A mean-shift-based approach for the analysis of structural variation in the genome

Targeted screening of cis-regulatory variation in human haplotypes

Ortho-proteogenomics: Multiple proteomes investigation through orthology and a new MS-based protocol

RESOURCES

Fast and flexible simulation of DNA sequence data

genBlastA: Enabling BLAST to identify homologous gene sequences

A resource for the simultaneous high-resolution mapping of multiple quantitative trait loci in rats: The NIH heterogeneous stock

Dissecting the effects of mtDNA variations on complex traits using mouse conplastic strains

Table of Contents

Volume 19, Issue 1 | January 2009

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ARTICLES

LETTERS

Methods

RESOURCES