Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability

CAPRI enables comparison of evolutionarily conserved RNA interacting regions

(2019) Amol Panhale et al.   Nature Communications

Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element

(2018) Seung Woo Cho et al.   CELL

Chromatin Remodeling Proteins in Epilepsy: Lessons From CHD2-Associated Epilepsy

(2018) Kay-Marie J. Lamar et al.   Frontiers in Molecular Neuroscience

Box C/D snoRNP Autoregulation by a cis-Acting snoRNA in the NOP56 Pre-mRNA

(2018) Søren Lykke-Andersen et al.   MOLECULAR CELL

Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome capture

(2018) Joel I. Perez-Perri et al.   Nature Communications

Chd2 regulates chromatin for proper gene expression toward differentiation in mouse embryonic stem cells

(2017) Yuichiro Semba et al.   NUCLEIC ACIDS RESEARCH

Regulatory networks specifying cortical interneurons from human embryonic stem cells reveal roles for CHD2 in interneuron development

(2017) Kesavan Meganathan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq

(2017) Bin Li et al.   Scientific Reports

The Properties of Long Noncoding RNAs That Regulate Chromatin

(2016) Michael Rutenberg-Schoenberg et al.   Annual Review of Genomics and Human Genetics

The functions of long noncoding RNAs in development and stem cells

(2016) Rotem Ben-Tov Perry et al.   DEVELOPMENT

Investigating long noncoding RNAs using animal models

(2016) Michael Feyder et al.   JOURNAL OF CLINICAL INVESTIGATION

PARP1 Links CHD2-Mediated Chromatin Expansion and H3.3 Deposition to DNA Repair by Non-homologous End-Joining

(2016) Martijn S. Luijsterburg et al.   MOLECULAR CELL

High-throughput discovery of novel developmental phenotypes

(2016) Mary E. Dickinson et al.   NATURE

Genome-wide nucleosome specificity and function of chromatin remodellers in ES cells

(2016) Maud de Dieuleveult et al.   NATURE

Capturing pairwise and multi-way chromosomal conformations using chromosomal walks

(2016) Pedro Olivares-Chauvet et al.   NATURE

UMI-4C for quantitative and targeted chromosomal contact profiling

(2016) Omer Schwartzman et al.   NATURE METHODS

Evolution to the rescue: using comparative genomics to understand long non-coding RNAs

(2016) Igor Ulitsky   NATURE REVIEWS GENETICS

The landscape of long noncoding RNAs in the human transcriptome

(2015) Matthew K Iyer et al.   NATURE GENETICS

Long non-coding RNA and chromatin remodeling

(2015) Pei Han et al.   RNA Biology

CHD2 is Required for Embryonic Neurogenesis in the Developing Cerebral Cortex

(2015) Tianjin Shen et al.   STEM CELLS

Transcription-coupled recruitment of human CHD1 and CHD2 influences chromatin accessibility and histone H3 and H3.3 occupancy at active chromatin regions

(2015) Lee Siggens et al.   Epigenetics & Chromatin

Principles of Long Noncoding RNA Evolution Derived from Direct Comparison of Transcriptomes in 17 Species

(2015) Hadas Hezroni et al.   Cell Reports

Rbfox2 controls autoregulation in RNA-binding protein networks

(2014) M. Jangi et al.   GENES & DEVELOPMENT

Global Analyses of the Effect of Different Cellular Contexts on MicroRNA Targeting

(2014) Jin-Wu Nam et al.   MOLECULAR CELL

A promoter-level mammalian expression atlas

(2014)   NATURE

Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector

(2014) Ami M. Kabadi et al.   NUCLEIC ACIDS RESEARCH

CHOPCHOP: a CRISPR/Cas9 and TALEN web tool for genome editing

(2014) Tessa G. Montague et al.   NUCLEIC ACIDS RESEARCH

The nucleosomal barrier to promoter escape by RNA polymerase II is overcome by the chromatin remodeler Chd1

(2014) Peter J Skene et al.   eLife

Mechanisms and Functions of ATP-Dependent Chromatin-Remodeling Enzymes

(2013) Geeta J. Narlikar et al.   CELL

lincRNAs: Genomics, Evolution, and Mechanisms

(2013) Igor Ulitsky et al.   CELL

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

(2013) Luke A. Gilbert et al.   CELL

Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

(2013) Linn Fagerberg et al.   MOLECULAR & CELLULAR PROTEOMICS

Genome-wide recessive genetic screening in mammalian cells with a lentiviral CRISPR-guide RNA library

(2013) Hiroko Koike-Yusa et al.   NATURE BIOTECHNOLOGY

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

High-throughput chromatin immunoprecipitation for genome-wide mapping of in vivo protein-DNA interactions and epigenomic states

(2013) Ronnie Blecher-Gonen et al.   Nature Protocols

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

The Conserved Intronic Cleavage and Polyadenylation Site of CstF-77 Gene Imparts Control of 3′ End Processing Activity through Feedback Autoregulation and by U1 snRNP

(2013) Wenting Luo et al.   PLoS Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Chd2 interacts with H3.3 to determine myogenic cell fate

(2012) Akihito Harada et al.   EMBO JOURNAL

The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts

(2012) Alexander G. Baltz et al.   MOLECULAR CELL

Preparation of Mouse Embryonic Fibroblast Cells Suitable for Culturing Human Embryonic and Induced Pluripotent Stem Cells

(2012) Justyna Jozefczuk et al.   Jove-Journal of Visualized Experiments

PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions

(2011) M. F. Lin et al.   BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Conserved Function of lincRNAs in Vertebrate Embryonic Development despite Rapid Sequence Evolution

(2011) Igor Ulitsky et al.   CELL

The Paf1 Complex Represses SER3 Transcription in Saccharomyces cerevisiae by Facilitating Intergenic Transcription-Dependent Nucleosome Occupancy of the SER3 Promoter

(2011) Justin A. Pruneski et al.   EUKARYOTIC CELL

Transcription Regulation by the Noncoding RNA SRG1 Requires Spt2-Dependent Chromatin Deposition in the Wake of RNA Polymerase II

(2011) P. Thebault et al.   MOLECULAR AND CELLULAR BIOLOGY

A conditional knockout resource for the genome-wide study of mouse gene function

(2011) William C. Skarnes et al.   NATURE

Single-molecule transcript counting of stem-cell markers in the mouse intestine

(2011) Shalev Itzkovitz et al.   NATURE CELL BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Intergenic transcription causes repression by directing nucleosome assembly

(2010) S. J. Hainer et al.   GENES & DEVELOPMENT

Generation of a Rat Monoclonal Antibody Specific for Chd2

(2010) Akihito Harada et al.   HYBRIDOMA

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Transcriptional autoregulation in development

(2009) Stephen T. Crews et al.   CURRENT BIOLOGY

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

ChIP–seq: advantages and challenges of a maturing technology

(2009) Peter J. Park   NATURE REVIEWS GENETICS

Role of chromodomain helicase DNA-binding protein 2 in DNA damage response signaling and tumorigenesis

(2009) P Nagarajan et al.   ONCOGENE

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Disruption of chromodomain helicase DNA binding protein 2 (CHD2) causes scoliosis

(2008) Shashikant Kulkarni et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Imaging individual mRNA molecules using multiple singly labeled probes

(2008) Arjun Raj et al.   NATURE METHODS

Global Chromatin Domain Organization of the Drosophila Genome

(2008) Elzo de Wit et al.   PLoS Genetics

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY