Volume 21, Issue 5 | May 2011

Editorial
- - Scope note
    First Published May 2, 2011
Insight/Outlook
- - Genomic contributions to Mendelian disease
    Aravinda Chakravarti
    First Published May 2, 2011
Perspective
- - Gene regulatory networks and the role of robustness and stochasticity in the control of gene expression
    Lesley T. MacNeil
    Albertha J.M. Walhout
    First Published February 4, 2011
Research
- - Exome sequencing and disease-network analysis of a single family implicate a mutation in KIF1A in hereditary spastic paraparesis
    Yaniv Erlich
    Simon Edvardson
    Emily Hodges
    Shamir Zenvirt
    Pramod Thekkat
    First Published April 12, 2011
  - Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes
    Axel M. Hillmer
    Fei Yao
    Koichiro Inaki
    Wah Heng Lee
    Pramila N. Ariyaratne
    Audrey S.M. Teo Xing Yi Woo Zhenshui Zhang Hao Zhao Leena Ukil Jieqi P. Chen Feng Zhu Jimmy B.Y. So Manuel Salto-Tellez Wan Ting Poh Kelson F.B. Zawack Niranjan Nagarajan Song Gao Guoliang Li Vikrant Kumar Hui Ping J. Lim Yee Yen Sia Chee Seng Chan See Ting Leong Say Chuan Neo Poh Sum D. Choi Hervé Thoreau Patrick B.O. Tan Atif Shahab Xiaoan Ruan Jonas Bergh Per Hall Valère Cacheux-Rataboul Chia-Lin Wei Khay Guan Yeoh
    ...[+30 authors]...,
    Wing-Kin Sung
    Guillaume Bourque
    Edison T. Liu
    Yijun Ruan
    First Published April 5, 2011
  - Transcriptional consequences of genomic structural aberrations in breast cancer
    Koichiro Inaki
    Axel M. Hillmer
    Leena Ukil
    Fei Yao
    Xing Yi Woo
    Leah A. Vardy Kelson Folkvard Braaten Zawack Charlie Wah Heng Lee Pramila Nuwantha Ariyaratne Yang Sun Chan Kartiki Vasant Desai Jonas Bergh Per Hall Thomas Choudary Putti Wai Loon Ong Atif Shahab Valere Cacheux-Rataboul Radha Krishna Murthy Karuturi Wing-Kin Sung
    ...[+14 authors]...,
    Xiaoan Ruan
    Guillaume Bourque
    Yijun Ruan
    Edison T. Liu
    First Published April 5, 2011
  - Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons
    Kazuya Iwamoto
    Miki Bundo
    Junko Ueda
    Michael C. Oldham
    Wataru Ukai
    First Published April 5, 2011
  - Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements
    Ofir Hakim
    Myong-Hee Sung
    Ty C. Voss
    Erik Splinter
    Sam John
    Peter J. Sabo
    ...[+1 authors]...,
    Robert E. Thurman
    John A. Stamatoyannopoulos
    Wouter de Laat
    Gordon L. Hager
    First Published April 6, 2011
  - Core promoter T-blocks correlate with gene expression levels in C. elegans
    Vladislav Grishkevich
    Tamar Hashimshony
    Itai Yanai
    First Published March 2, 2011
  - Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation
    Yuanxin Xi
    Jianhui Yao
    Rui Chen
    Wei Li
    Xiangwei He
    First Published March 1, 2011
  - Genetic architecture of regulatory variation in Arabidopsis thaliana
    Xu Zhang
    Andrew J. Cal
    Justin O. Borevitz
    First Published April 5, 2011
Methods
- - Efficient storage of high throughput DNA sequencing data using reference-based compression
    Markus Hsi-Yang Fritz
    Rasko Leinonen
    Guy Cochrane
    Ewan Birney
    First Published January 18, 2011
  - Differential genome-wide profiling of tandem 3′ UTRs among human breast cancer and normal cells by high-throughput sequencing
    Yonggui Fu
    Yu Sun
    Yuxin Li
    Jie Li
    Xingqiang Rao
    First Published April 7, 2011
  - Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins
    Haoyi Wang
    David Mayhew
    Xuhua Chen
    Mark Johnston
    Robi David Mitra
    First Published April 6, 2011
  - Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and “resurrected” pseudogenes in the mouse genome
    Markus Brosch
    Gary I. Saunders
    Adam Frankish
    Mark O. Collins
    Lu Yu
    James Wright Ruth Verstraten
    ...[+2 authors]...,
    David J. Adams
    Jennifer Harrow
    Jyoti S. Choudhary
    Tim Hubbard
    First Published April 1, 2011
Resources
- - Maximum-likelihood estimation of recent shared ancestry (ERSA)
    Chad D. Huff
    David J. Witherspoon
    Tatum S. Simonson
    Jinchuan Xing
    W. Scott Watkins
    Yuhua Zhang Therese M. Tuohy Deborah W. Neklason
    ...[+3 authors]...,
    Randall W. Burt
    Stephen L. Guthery
    Scott R. Woodward
    Lynn B. Jorde
    First Published February 8, 2011
  - Genome-wide characterization of transcriptional start sites in humans by integrative transcriptome analysis
    Riu Yamashita
    Nuankanya P. Sathira
    Akinori Kanai
    Kousuke Tanimoto
    Takako Arauchi
    Yoshiaki Tanaka
    ...[+1 authors]...,
    Shin-ichi Hashimoto
    Sumio Sugano
    Kenta Nakai
    Yutaka Suzuki
    First Published March 3, 2011
  - Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes
    René L. Warren
    J. Douglas Freeman
    Thomas Zeng
    Gina Choe
    Sarah Munro
    First Published February 24, 2011
  - MicroRNA programs in normal and aberrant stem and progenitor cells
    Christopher P. Arnold
    Ruoying Tan
    Baiyu Zhou
    Si-Biao Yue
    Steven Schaffert
    Joseph R. Biggs Regis Doyonnas Miao-Chia Lo John M. Perry Valérie M. Renault Alessandra Sacco Tim Somervaille Patrick Viatour Anne Brunet Michael L. Cleary Linheng Li Julien Sage
    ...[+12 authors]...,
    Dong-Er Zhang
    Helen M. Blau
    Caifu Chen
    Chang-Zheng Chen
    First Published March 30, 2011
Erratum
- - Erratum
    First Published May 2, 2011

Table of Contents

Volume 21, Issue 5 | May 2011

Editorial

Scope note

Insight/Outlook

Genomic contributions to Mendelian disease

Perspective

Gene regulatory networks and the role of robustness and stochasticity in the control of gene expression

Research

Exome sequencing and disease-network analysis of a single family implicate a mutation in KIF1A in hereditary spastic paraparesis

Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes

Transcriptional consequences of genomic structural aberrations in breast cancer

Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons

Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements

Core promoter T-blocks correlate with gene expression levels in C. elegans

Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation

Genetic architecture of regulatory variation in Arabidopsis thaliana

Methods

Efficient storage of high throughput DNA sequencing data using reference-based compression

Differential genome-wide profiling of tandem 3′ UTRs among human breast cancer and normal cells by high-throughput sequencing

Calling Cards enable multiplexed identification of the genomic targets of DNA-binding proteins

Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and “resurrected” pseudogenes in the mouse genome

Resources

Maximum-likelihood estimation of recent shared ancestry (ERSA)

Genome-wide characterization of transcriptional start sites in humans by integrative transcriptome analysis

Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes

MicroRNA programs in normal and aberrant stem and progenitor cells

Erratum

Erratum

Table of Contents

Volume 21, Issue 5 | May 2011

Share this issue

Editorial

Insight/Outlook

Perspective

Research

Methods

Resources

Erratum