Volume 22, Issue 6 | June 2012

Research
- - A genome-wide analysis of common fragile sites: What features determine chromosomal instability in the human genome?
    Arkarachai Fungtammasan
    Erin Walsh
    Francesca Chiaromonte
    Kristin A. Eckert
    Kateryna D. Makova
    First Published March 28, 2012
  - BRAFV600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration
    Ross J. Flockhart
    Dan E. Webster
    Kun Qu
    Nicholas Mascarenhas
    Joanna Kovalski
    Markus Kretz
    Paul A. Khavari
    First Published May 11, 2012
  - Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics
    Housheng Hansen He
    Clifford A. Meyer
    Mei Wei Chen
    V. Craig Jordan
    Myles Brown
    X. Shirley Liu
    First Published April 16, 2012
  - H2B monoubiquitylation is a 5′-enriched active transcription mark and correlates with exon–intron structure in human cells
    Inkyung Jung
    Seung-Kyoon Kim
    Mirang Kim
    Yong-Mahn Han
    Yong Sung Kim
    Dongsup Kim
    Daeyoup Lee
    First Published March 15, 2012
  - The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2
    Mario Ventura
    Claudia R. Catacchio
    Saba Sajjadian
    Laura Vives
    Peter H. Sudmant
    Tomas Marques-Bonet
    Tina A. Graves
    Richard K. Wilson
    Evan E. Eichler
    First Published March 14, 2012
  - Primate segmental duplication creates novel promoters for the LRRC37 gene family within the 17q21.31 inversion polymorphism region
    Cemalettin Bekpen
    Ibrahim Tastekin
    Priscillia Siswara
    Cezmi A. Akdis
    Evan E. Eichler
    First Published March 14, 2012
  - Coding exons function as tissue-specific enhancers of nearby genes
    Ramon Y. Birnbaum
    E. Josephine Clowney
    Orly Agamy
    Mee J. Kim
    Jingjing Zhao
    Takayuki Yamanaka Zachary Pappalardo Shoa L. Clarke Aaron M. Wenger Loan Nguyen Fiorella Gurrieri David B. Everman Charles E. Schwartz
    ...[+8 authors]...,
    Ohad S. Birk
    Gill Bejerano
    Stavros Lomvardas
    Nadav Ahituv
    First Published March 22, 2012
  - Chromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb
    Justin Cotney
    Jing Leng
    Sunghee Oh
    Laura E. DeMare
    Steven K. Reilly
    Mark B. Gerstein
    James P. Noonan
    First Published March 15, 2012
  - Genome-wide phosphoacetylation of histone H3 at Drosophila enhancers and promoters
    Wendy A. Kellner
    Edward Ramos
    Kevin Van Bortle
    Naomi Takenaka
    Victor G. Corces
    First Published April 16, 2012
  - A systematic study of gene expression variation at single-nucleotide resolution reveals widespread regulatory roles for uAUGs
    Yue Yun
    T.M. Ayodele Adesanya
    Robi D. Mitra
    First Published March 27, 2012
  - Unusual combinatorial involvement of poly-A/T tracts in organizing genes and chromatin in Dictyostelium
    Gue Su Chang
    Angelika A. Noegel
    Travis N. Mavrich
    Rolf Müller
    Lynn Tomsho
    Elissa Ward Marius Felder Cizhong Jiang
    ...[+3 authors]...,
    Ludwig Eichinger
    Gernot Glöckner
    Stephan C. Schuster
    B. Franklin Pugh
    First Published March 20, 2012
  - Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB)
    Sünje J. Pamp
    Eoghan D. Harrington
    Stephen R. Quake
    David A. Relman
    Paul C. Blainey
    First Published March 20, 2012
Methods
- - Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA
    Aaron L. Statham
    Mark D. Robinson
    Jenny Z. Song
    Marcel W. Coolen
    Clare Stirzaker
    Susan J. Clark
    First Published March 30, 2012
  - Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk
    Brinkman Arie B.
    Gu Hongcang
    Bartels Stefanie J.J.
    Zhang Yingying
    Matarese Filomena
    Simmer Femke Marks Hendrik
    ...[+2 authors]...,
    Bock Christoph
    Gnirke Andreas
    Meissner Alexander
    Stunnenberg Hendrik G.
    First Published March 30, 2012
  - Ultra-low-input, tagmentation-based whole-genome bisulfite sequencing
    Andrew Adey
    Jay Shendure
    First Published March 30, 2012
  - The origin, global distribution, and functional impact of the human 8p23 inversion polymorphism
    Maximilian P.A. Salm
    Stuart D. Horswell
    Claire E. Hutchison
    Helen E. Speedy
    Xia Yang
    Liming Liang Eric E. Schadt
    ...[+2 authors]...,
    William O. Cookson
    Anthony S. Wierzbicki
    Rossi P. Naoumova
    Carol C. Shoulders
    First Published March 7, 2012
  - lobSTR: A short tandem repeat profiler for personal genomes
    Melissa Gymrek
    David Golan
    Saharon Rosset
    Yaniv Erlich
    First Published April 20, 2012
  - Identification of microRNA-regulated gene networks by expression analysis of target genes
    Vincenzo Alessandro Gennarino
    Giovanni D'Angelo
    Gopuraja Dharmalingam
    Serena Fernandez
    Giorgio Russolillo
    Remo Sanges Margherita Mutarelli Vincenzo Belcastro
    ...[+3 authors]...,
    Andrea Ballabio
    Pasquale Verde
    Marco Sardiello
    Sandro Banfi
    First Published February 15, 2012
Resources
- - A quantitative atlas of polyadenylation in five mammals
    Adnan Derti
    Philip Garrett-Engele
    Kenzie D. MacIsaac
    Richard C. Stevens
    Shreedharan Sriram
    Ronghua Chen
    Carol A. Rohl
    Jason M. Johnson
    Tomas Babak
    First Published March 27, 2012
  - Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis
    Yamile Marquez
    John W.S. Brown
    Craig Simpson
    Andrea Barta
    Maria Kalyna
    First Published March 5, 2012
Erratum
- - Erratum
    First Published June 1, 2012

Table of Contents

Volume 22, Issue 6 | June 2012

Research

A genome-wide analysis of common fragile sites: What features determine chromosomal instability in the human genome?

BRAFV600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration

Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics

H2B monoubiquitylation is a 5′-enriched active transcription mark and correlates with exon–intron structure in human cells

The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2

Primate segmental duplication creates novel promoters for the LRRC37 gene family within the 17q21.31 inversion polymorphism region

Coding exons function as tissue-specific enhancers of nearby genes

Chromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb

Genome-wide phosphoacetylation of histone H3 at Drosophila enhancers and promoters

A systematic study of gene expression variation at single-nucleotide resolution reveals widespread regulatory roles for uAUGs

Unusual combinatorial involvement of poly-A/T tracts in organizing genes and chromatin in Dictyostelium

Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB)

Methods

Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA

Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk

Ultra-low-input, tagmentation-based whole-genome bisulfite sequencing

The origin, global distribution, and functional impact of the human 8p23 inversion polymorphism

lobSTR: A short tandem repeat profiler for personal genomes

Identification of microRNA-regulated gene networks by expression analysis of target genes

Resources

A quantitative atlas of polyadenylation in five mammals

Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis

Erratum

Erratum

Table of Contents

Volume 22, Issue 6 | June 2012

Share this issue

Research

Methods

Resources

Erratum