Volume 28, Issue 2 | February 2018

Research
- - Evolutionary expansion of DNA hypomethylation in the mammalian germline genome
    Jianghan Qu
    Emily Hodges
    Antoine Molaro
    Pascal Gagneux
    Matthew D. Dean
    First Published December 19, 2017
  - Enhancer transcription reveals subtype-specific gene expression programs controlling breast cancer pathogenesis
    Hector L. Franco
    Anusha Nagari
    Venkat S. Malladi
    Wenqian Li
    Yuanxin Xi
    Dana Richardson Kendra L. Allton Kaori Tanaka Jing Li Shino Murakami Khandan Keyomarsi Mark T. Bedford Xiaobing Shi
    ...[+8 authors]...,
    Wei Li
    Michelle C. Barton
    Sharon Y.R. Dent
    W. Lee Kraus
    First Published December 22, 2017
  - Local sequence features that influence AP-1 cis-regulatory activity
    Hemangi G. Chaudhari
    Barak A. Cohen
    First Published January 5, 2018
  - Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs
    Jake Yeung
    Jérôme Mermet
    Céline Jouffe
    Julien Marquis
    Aline Charpagne
    First Published December 18, 2017
  - The nuclear matrix protein HNRNPU maintains 3D genome architecture globally in mouse hepatocytes
    Hui Fan
    Pin Lv
    Xiangru Huo
    Jicheng Wu
    Qianfeng Wang
    Lu Cheng Yun Liu Qi-Qun Tang Ling Zhang
    ...[+4 authors]...,
    Feng Zhang
    Xiaoqi Zheng
    Hao Wu
    Bo Wen
    First Published December 22, 2017
  - Transcription rate strongly affects splicing fidelity and cotranscriptionality in budding yeast
    Vahid Aslanzadeh
    Yuanhua Huang
    Guido Sanguinetti
    Jean D. Beggs
    First Published December 18, 2017
  - Conserved non-AUG uORFs revealed by a novel regression analysis of ribosome profiling data
    Pieter Spealman
    Armaghan W. Naik
    Gemma E. May
    Scott Kuersten
    Lindsay Freeberg
    First Published December 18, 2017
Methods
- - Precise and efficient nucleotide substitution near genomic nick via noncanonical homology-directed repair
    Kazuhiro Nakajima
    Yue Zhou
    Akiko Tomita
    Yoshihiro Hirade
    Channabasavaiah B. Gurumurthy
    First Published December 22, 2017
  - Microfluidic isoform sequencing shows widespread splicing coordination in the human transcriptome
    Hagen Tilgner
    Fereshteh Jahanbani
    Ishaan Gupta
    Paul Collier
    Eric Wei
    First Published December 1, 2017
  - Integrated analysis of motif activity and gene expression changes of transcription factors
    Jesper Grud Skat Madsen
    Alexander Rauch
    Elvira Laila Van Hauwaert
    Søren Fisker Schmidt
    Marc Winnefeld
    First Published December 12, 2017
  - Detecting differential copy number variation between groups of samples
    Craig B. Lowe
    Nicelio Sanchez-Luege
    Timothy R. Howes
    Shannon D. Brady
    Rhea R. Daugherty
    First Published December 11, 2017
  - MinION-based long-read sequencing and assembly extends the Caenorhabditis elegans reference genome
    John R. Tyson
    Nigel J. O'Neil
    Miten Jain
    Hugh E. Olsen
    Philip Hieter
    First Published December 22, 2017

Table of Contents

Volume 28, Issue 2 | February 2018

Research

Evolutionary expansion of DNA hypomethylation in the mammalian germline genome

Enhancer transcription reveals subtype-specific gene expression programs controlling breast cancer pathogenesis

Local sequence features that influence AP-1 cis-regulatory activity

Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs

The nuclear matrix protein HNRNPU maintains 3D genome architecture globally in mouse hepatocytes

Transcription rate strongly affects splicing fidelity and cotranscriptionality in budding yeast

Conserved non-AUG uORFs revealed by a novel regression analysis of ribosome profiling data

Methods

Precise and efficient nucleotide substitution near genomic nick via noncanonical homology-directed repair

Microfluidic isoform sequencing shows widespread splicing coordination in the human transcriptome

Integrated analysis of motif activity and gene expression changes of transcription factors

Detecting differential copy number variation between groups of samples

MinION-based long-read sequencing and assembly extends the Caenorhabditis elegans reference genome

Table of Contents

Volume 28, Issue 2 | February 2018

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Research

Methods