Volume 25, Issue 2 | February 2015

Research
- - BRF1 mutations alter RNA polymerase III–dependent transcription and cause neurodevelopmental anomalies
    Guntram Borck
    Friederike Hög
    Maria Lisa Dentici
    Perciliz L. Tan
    Nadine Sowada
    Ana Medeira Lucie Gueneau Holger Thiele Maria Kousi Francesca Lepri Larissa Wenzeck Ian Blumenthal Antonio Radicioni Tito Livio Schwarzenberg Barbara Mandriani Rita Fischetto Deborah J. Morris-Rosendahl Janine Altmüller Alexandre Reymond Peter Nürnberg Giuseppe Merla
    ...[+16 authors]...,
    Bruno Dallapiccola
    Nicholas Katsanis
    Patrick Cramer
    Christian Kubisch
    First Published January 5, 2015
  - Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals
    Emily S. Wong
    David Thybert
    Bianca M. Schmitt
    Klara Stefflova
    Duncan T. Odom
    First Published November 13, 2014
  - TP53 engagement with the genome occurs in distinct local chromatin environments via pioneer factor activity
    Morgan A. Sammons
    Jiajun Zhu
    Adam M. Drake
    Shelley L. Berger
    First Published November 12, 2014
  - Large transcription units unify copy number variants and common fragile sites arising under replication stress
    Thomas E. Wilson
    Martin F. Arlt
    So Hae Park
    Sountharia Rajendran
    Michelle Paulsen
    First Published November 4, 2014
  - A novel role for the Pol I transcription factor UBTF in maintaining genome stability through the regulation of highly transcribed Pol II genes
    Elaine Sanij
    Jeannine Diesch
    Analia Lesmana
    Gretchen Poortinga
    Nadine Hein
    Grace Lidgerwood Donald P. Cameron Jason Ellul Gregory J. Goodall Lee H. Wong Amardeep S. Dhillon Nourdine Hamdane Lawrence I. Rothblum
    ...[+8 authors]...,
    Richard B. Pearson
    Izhak Haviv
    Tom Moss
    Ross D. Hannan
    First Published December 1, 2014
  - Genome accessibility is widely preserved and locally modulated during mitosis
    Chris C.-S. Hsiung
    Christapher S. Morrissey
    Maheshi Udugama
    Christopher L. Frank
    Cheryl A. Keller
    Songjoon Baek Belinda Giardine
    ...[+2 authors]...,
    Gregory E. Crawford
    Myong-Hee Sung
    Ross C. Hardison
    Gerd A. Blobel
    First Published November 4, 2014
  - Violation of the 12/23 rule of genomic V(D)J recombination is common in lymphocytes
    Nicholas J. Parkinson
    Matthew Roddis
    Ben Ferneyhough
    Gang Zhang
    Adam J. Marsden
    Siarhei Maslau Yasmin Sanchez-Pearson Thomas Barthlott Ian R. Humphreys Kristin Ladell
    ...[+5 authors]...,
    David A. Price
    Chris P. Ponting
    Georg Hollander
    Michael D. Fischer
    First Published November 3, 2014
  - Detection of Pol IV/RDR2-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis
    Shaofang Li
    Lee E. Vandivier
    Bin Tu
    Lei Gao
    So Youn Won
    First Published November 20, 2014
  - Genome-wide analysis of local chromatin packing in Arabidopsis thaliana
    Congmao Wang
    Chang Liu
    Damian Roqueiro
    Dominik Grimm
    Rebecca Schwab
    First Published November 3, 2014
Methods
- - Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks
    Hua-Sheng Chiu
    David Llobet-Navas
    Xuerui Yang
    Wei-Jen Chung
    Alberto Ambesi-Impiombato
    Archana Iyer Hyunjae Ryan Kim Elena G. Seviour Zijun Luo Vasudha Sehgal Tyler Moss Yiling Lu Prahlad Ram
    ...[+8 authors]...,
    José Silva
    Gordon B. Mills
    Andrea Califano
    Pavel Sumazin
    First Published November 5, 2014
  - Efficient inference of population size histories and locus-specific mutation rates from large-sample genomic variation data
    Anand Bhaskar
    Y.X. Rachel Wang
    Yun S. Song
    First Published January 6, 2015
  - Parente2: a fast and accurate method for detecting identity by descent
    Jesse M. Rodriguez
    Sivan Bercovici
    Lin Huang
    Roy Frostig
    Serafim Batzoglou
    First Published October 1, 2014
Resource
- - Genome-wide discovery of human splicing branchpoints
    Tim R. Mercer
    Michael B. Clark
    Stacey B. Andersen
    Marion E. Brunck
    Wilfried Haerty
    Joanna Crawford
    ...[+1 authors]...,
    Ryan J. Taft
    Lars K. Nielsen
    Marcel E. Dinger
    John S. Mattick
    First Published January 5, 2015

Table of Contents

Volume 25, Issue 2 | February 2015

Research

BRF1 mutations alter RNA polymerase III–dependent transcription and cause neurodevelopmental anomalies

Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals

TP53 engagement with the genome occurs in distinct local chromatin environments via pioneer factor activity

Large transcription units unify copy number variants and common fragile sites arising under replication stress

A novel role for the Pol I transcription factor UBTF in maintaining genome stability through the regulation of highly transcribed Pol II genes

Genome accessibility is widely preserved and locally modulated during mitosis

Violation of the 12/23 rule of genomic V(D)J recombination is common in lymphocytes

Detection of Pol IV/RDR2-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis

Genome-wide analysis of local chromatin packing in Arabidopsis thaliana

Methods

Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks

Efficient inference of population size histories and locus-specific mutation rates from large-sample genomic variation data

Parente2: a fast and accurate method for detecting identity by descent

Resource

Genome-wide discovery of human splicing branchpoints

Table of Contents

Volume 25, Issue 2 | February 2015

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Research

Methods

Resource