Volume 20, Issue 10 | October 2010

Review
- - Origins, evolution, and phenotypic impact of new genes
    Henrik Kaessmann
    First Published July 22, 2010
Research
- - Signatures of positive selection apparent in a small sample of human exomes
    Jacob A. Tennessen
    Jennifer Madeoy
    Joshua M. Akey
    First Published August 6, 2010
  - Massive turnover of functional sequence in human and other mammalian genomes
    Stephen Meader
    Chris P. Ponting
    Gerton Lunter
    First Published August 6, 2010
  - Founder population-specific HapMap panel increases power in GWA studies through improved imputation accuracy and CNV tagging
    Ida Surakka
    Kati Kristiansson
    Verneri Anttila
    Michael Inouye
    Chris Barnes
    Loukas Moutsianas Veikko Salomaa
    ...[+2 authors]...,
    Mark Daly
    Aarno Palotie
    Leena Peltonen
    Samuli Ripatti
    First Published September 1, 2010
  - A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution
    Sreeram V. Ramagopalan
    Andreas Heger
    Antonio J. Berlanga
    Narelle J. Maugeri
    Matthew R. Lincoln
    Amy Burrell Lahiru Handunnetthi Adam E. Handel Giulio Disanto Sarah-Michelle Orton Corey T. Watson Julia M. Morahan
    ...[+7 authors]...,
    Gavin Giovannoni
    Chris P. Ponting
    George C. Ebers
    Julian C. Knight
    First Published August 24, 2010
  - p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy
    Efrat Lidor Nili
    Yair Field
    Yaniv Lubling
    Jonathan Widom
    Moshe Oren
    Eran Segal
    First Published August 17, 2010
  - Genome architecture marked by retrotransposons modulates predisposition to DNA methylation in cancer
    Marcos R.H. Estécio
    Juan Gallegos
    Céline Vallot
    Ryan J. Castoro
    Woonbok Chung
    Shinji Maegawa Yasuhiro Oki Yutaka Kondo Jaroslav Jelinek Lanlan Shen Helge Hartung
    ...[+6 authors]...,
    Peter D. Aplan
    Bogdan A. Czerniak
    Shoudan Liang
    Jean-Pierre J. Issa
    First Published August 17, 2010
  - Changes in H2A.Z occupancy and DNA methylation during B-cell lymphomagenesis
    Melissa L. Conerly
    Sheila S. Teves
    Daniel Diolaiti
    Michelle Ulrich
    Robert N. Eisenman
    Steven Henikoff
    First Published August 13, 2010
  - TATA is a modular component of synthetic promoters
    Ilaria Mogno
    Francesco Vallania
    Robi D. Mitra
    Barak A. Cohen
    First Published July 13, 2010
  - A comprehensive survey of 3′ animal miRNA modification events and a possible role for 3′ adenylation in modulating miRNA targeting effectiveness
    Burroughs A. Maxwell
    Ando Yoshinari
    de Hoon Michiel J.L.
    Tomaru Yasuhiro
    Nishibu Takahiro
    Ukekawa Ryo Funakoshi Taku
    ...[+2 authors]...,
    Kurokawa Tsutomu
    Suzuki Harukazu
    Hayashizaki Yoshihide
    Daub Carsten O.
    First Published August 18, 2010
  - Reshaping the gut microbiome with bacterial transplantation and antibiotic intake
    Chaysavanh Manichanh
    Jens Reeder
    Prudence Gibert
    Encarna Varela
    Marta Llopis
    Maria Antolin
    Roderic Guigo
    Rob Knight
    Francisco Guarner
    First Published August 24, 2010
Methods
- - Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing
    Jamie K. Teer
    Lori L. Bonnycastle
    Peter S. Chines
    Nancy F. Hansen
    Natsuyo Aoyama
    Amy J. Swift Hatice Ozel Abaan Thomas J. Albert Elliott H. Margulies
    ...[+4 authors]...,
    Eric D. Green
    Francis S. Collins
    James C. Mullikin
    Leslie G. Biesecker
    First Published September 1, 2010
  - Optimization of de novo transcriptome assembly from next-generation sequencing data
    Yann Surget-Groba
    Juan I. Montoya-Burgos
    First Published August 6, 2010
  - Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage
    Lukas Chavez
    Justyna Jozefczuk
    Christina Grimm
    Jörn Dietrich
    Bernd Timmermann
    Hans Lehrach
    Ralf Herwig
    James Adjaye
    First Published August 27, 2010
Resources
- - Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq
    Vincent M. Bruno
    Zhong Wang
    Sadie L. Marjani
    Ghia M. Euskirchen
    Jeffrey Martin
    Gavin Sherlock
    Michael Snyder
    First Published September 1, 2010
  - The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program
    Tassy Olivier
    Dauga Delphine
    Daian Fabrice
    Sobral Daniel
    Robin François
    Khoueiry Pierre Salgado David Fox Vanessa Caillol Danièle Schiappa Renaud Laporte Baptiste Rios Anne Luxardi Guillaume Kusakabe Takehiro Joly Jean-Stéphane Darras Sébastien Christiaen Lionel Contensin Magali Auger Hélène Lamy Clément Hudson Clare Rothbächer Ute Gilchrist Michael J. Makabe Kazuhiro W. Hotta Kohji
    ...[+20 authors]...,
    Fujiwara Shigeki
    Satoh Nori
    Satou Yutaka
    Lemaire Patrick
    First Published July 20, 2010

Table of Contents

Volume 20, Issue 10 | October 2010

Review

Origins, evolution, and phenotypic impact of new genes

Research

Signatures of positive selection apparent in a small sample of human exomes

Massive turnover of functional sequence in human and other mammalian genomes

Founder population-specific HapMap panel increases power in GWA studies through improved imputation accuracy and CNV tagging

A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution

p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy

Genome architecture marked by retrotransposons modulates predisposition to DNA methylation in cancer

Changes in H2A.Z occupancy and DNA methylation during B-cell lymphomagenesis

TATA is a modular component of synthetic promoters

A comprehensive survey of 3′ animal miRNA modification events and a possible role for 3′ adenylation in modulating miRNA targeting effectiveness

Reshaping the gut microbiome with bacterial transplantation and antibiotic intake

Methods

Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing

Optimization of de novo transcriptome assembly from next-generation sequencing data

Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage

Resources

Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq

The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program

Table of Contents

Volume 20, Issue 10 | October 2010

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Review

Research

Methods

Resources