Volume 23, Issue 4 | April 2013

Research
- - A genome-wide RNA interference screen identifies new regulators of androgen receptor function in prostate cancer cells
    Keren Imberg-Kazdan
    Susan Ha
    Alex Greenfield
    Christopher S. Poultney
    Richard Bonneau
    First Published February 12, 2013
  - Temporal mapping of CEBPA and CEBPB binding during liver regeneration reveals dynamic occupancy and specific regulatory codes for homeostatic and cell cycle gene batteries
    Janus Schou Jakobsen
    Johannes Waage
    Nicolas Rapin
    Hanne Cathrine Bisgaard
    Fin Stolze Larsen
    First Published February 12, 2013
  - Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation
    Jean Hausser
    Afzal Pasha Syed
    Biter Bilen
    Mihaela Zavolan
    First Published January 18, 2013
  - High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice
    Hisato Kobayashi
    Takayuki Sakurai
    Fumihito Miura
    Misaki Imai
    Kentaro Mochiduki
    Eikichi Yanagisawa Akihiko Sakashita Takuya Wakai
    ...[+3 authors]...,
    Yutaka Suzuki
    Takashi Ito
    Yasuhisa Matsui
    Tomohiro Kono
    First Published February 14, 2013
  - CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize
    Jonathan I. Gent
    Nathanael A. Ellis
    Lin Guo
    Alex E. Harkess
    Yingyin Yao
    First Published December 26, 2012
  - Efficient neocentromere formation is suppressed by gene conversion to maintain centromere function at native physical chromosomal loci in Candida albicans
    Jitendra Thakur
    Kaustuv Sanyal
    First Published February 25, 2013
  - A genomic portrait of the emergence, evolution, and global spread of a methicillin-resistant Staphylococcus aureus pandemic
    Matthew T.G. Holden
    Li-Yang Hsu
    Kevin Kurt
    Lucy A. Weinert
    Alison E. Mather
    Simon R. Harris Birgit Strommenger Franziska Layer Wolfgang Witte Herminia de Lencastre Robert Skov Henrik Westh Helena Žemličková Geoffrey Coombs Angela M. Kearns Robert L.R. Hill Jonathan Edgeworth Ian Gould Vanya Gant Jonathan Cooke Giles F. Edwards Paul R. McAdam Kate E. Templeton Angela McCann Zhemin Zhou Santiago Castillo-Ramírez Edward J. Feil Lyndsey O. Hudson Mark C. Enright Francois Balloux David M. Aanensen Brian G. Spratt J. Ross Fitzgerald
    ...[+28 authors]...,
    Julian Parkhill
    Mark Achtman
    Stephen D. Bentley
    Ulrich Nübel
    First Published January 8, 2013
Methods
- - ATARiS: Computational quantification of gene suppression phenotypes from multisample RNAi screens
    Diane D. Shao
    Aviad Tsherniak
    Shuba Gopal
    Barbara A. Weir
    Pablo Tamayo
    Nicolas Stransky Steven E. Schumacher Travis I. Zack Rameen Beroukhim Levi A. Garraway
    ...[+5 authors]...,
    Adam A. Margolin
    David E. Root
    William C. Hahn
    Jill P. Mesirov
    First Published December 26, 2012
  - RNA-seq–based mapping and candidate identification of mutations from forward genetic screens
    Adam C. Miller
    Nikolaus D. Obholzer
    Arish N. Shah
    Sean G. Megason
    Cecilia B. Moens
    First Published January 8, 2013
  - MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq
    Jonathon T. Hill
    Bradley L. Demarest
    Brent W. Bisgrove
    Bushra Gorsi
    Yi-Chu Su
    First Published January 8, 2013
  - High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast
    Ivan Liachko
    Rachel A. Youngblood
    Uri Keich
    Maitreya J. Dunham
    First Published December 12, 2012
  - Mapping genomic hotspots of DNA damage by a single-strand-DNA-compatible and strand-specific ChIP-seq method
    Zhi-Xiong Zhou
    Mei-Jun Zhang
    Xu Peng
    Yuko Takayama
    Xing-Ya Xu
    First Published December 17, 2012
Resources
- - A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines
    Liming Liang
    Nilesh Morar
    Anna L. Dixon
    G. Mark Lathrop
    Goncalo R. Abecasis
    First Published January 23, 2013
  - A large-scale zebrafish gene knockout resource for the genome-wide study of gene function
    Gaurav K. Varshney
    Jing Lu
    Derek E. Gildea
    Haigen Huang
    Wuhong Pei
    Zhongan Yang Sunny C. Huang David Schoenfeld Nam H. Pho David Casero Takashi Hirase Deborah Mosbrook-Davis Suiyuan Zhang Li-En Jao Bo Zhang Ian G. Woods Steven Zimmerman Alexander F. Schier
    ...[+13 authors]...,
    Tyra G. Wolfsberg
    Matteo Pellegrini
    Shawn M. Burgess
    Shuo Lin
    First Published February 4, 2013
  - Genome-wide bimolecular fluorescence complementation analysis of SUMO interactome in yeast
    Min-Kyung Sung
    Gyubum Lim
    Dae-Gwan Yi
    Yeon Ji Chang
    Eun Bin Yang
    First Published February 12, 2013
Erratum
- - Erratum
    First Published April 1, 2013

Table of Contents

Volume 23, Issue 4 | April 2013

Research

A genome-wide RNA interference screen identifies new regulators of androgen receptor function in prostate cancer cells

Temporal mapping of CEBPA and CEBPB binding during liver regeneration reveals dynamic occupancy and specific regulatory codes for homeostatic and cell cycle gene batteries

Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation

High-resolution DNA methylome analysis of primordial germ cells identifies gender-specific reprogramming in mice

CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize

Efficient neocentromere formation is suppressed by gene conversion to maintain centromere function at native physical chromosomal loci in Candida albicans

A genomic portrait of the emergence, evolution, and global spread of a methicillin-resistant Staphylococcus aureus pandemic

Methods

ATARiS: Computational quantification of gene suppression phenotypes from multisample RNAi screens

RNA-seq–based mapping and candidate identification of mutations from forward genetic screens

MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq

High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast

Mapping genomic hotspots of DNA damage by a single-strand-DNA-compatible and strand-specific ChIP-seq method

Resources

A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines

A large-scale zebrafish gene knockout resource for the genome-wide study of gene function

Genome-wide bimolecular fluorescence complementation analysis of SUMO interactome in yeast

Erratum

Erratum

Table of Contents

Volume 23, Issue 4 | April 2013

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Research

Methods

Resources

Erratum