MBD5 and MBD6 couple DNA methylation to gene silencing through the J-domain protein SILENZIO

Co-targeting RNA Polymerases IV and V Promotes Efficient De Novo DNA Methylation in Arabidopsis

(2019) Javier Gallego-Bartolomé et al.   CELL

The Hsp70 chaperone network

(2019) Rina Rosenzweig et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The EMBL-EBI search and sequence analysis tools APIs in 2019

(2019) Fábio Madeira et al.   NUCLEIC ACIDS RESEARCH

Arabidopsis SWR1-associated protein methyl-CpG-binding domain 9 is required for histone H2A.Z deposition

(2019) Magdalena E. Potok et al.   Nature Communications

MeCP2 Represses the Rate of Transcriptional Initiation of Highly Methylated Long Genes

(2019) Lisa D. Boxer et al.   MOLECULAR CELL

Analysis of Genetically Diverse Macrophages Reveals Local and Domain-wide Mechanisms that Control Transcription Factor Binding and Function

(2018) Verena M. Link et al.   CELL

Large-scale comparative epigenomics reveals hierarchical regulation of non-CG methylation inArabidopsis

(2018) Yu Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanistic insights into plant SUVH family H3K9 methyltransferases and their binding to context-biased non-CG DNA methylation

(2018) Xueqin Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A methylated-DNA-binding complex required for plant development mediates transcriptional activation of promoter methylated genes

(2018) Qiang-Qiang Zhao et al.   Journal of Integrative Plant Biology

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

A DNA methylation reader complex that enhances gene transcription

(2018) C. Jake Harris et al.   SCIENCE

Mapping genome-wide transcription-factor binding sites using DAP-seq

(2017) Anna Bartlett et al.   Nature Protocols

Novel DNAJ-related proteins in Arabidopsis thaliana

(2017) Pablo Pulido et al.   NEW PHYTOLOGIST

Database resources of the National Center for Biotechnology Information

(2017) et al.   NUCLEIC ACIDS RESEARCH

The MBD7 complex promotes expression of methylated transgenes without significantly altering their methylation status

(2017) Dongming Li et al.   eLife

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

(2016) Zuguang Gu et al.   BIOINFORMATICS

A subclass of HSP70s regulate development and abiotic stress responses in Arabidopsis thaliana

(2016) Linna Leng et al.   JOURNAL OF PLANT RESEARCH

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Nascent RNA sequencing reveals distinct features in plant transcription

(2016) Jonathan Hetzel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-Efficiency Genome Editing in Arabidopsis Using YAO Promoter-Driven CRISPR/Cas9 System

(2015) Liuhua Yan et al.   Molecular Plant

Disruption of DNA-methylation-dependent long gene repression in Rett syndrome

(2015) Harrison W. Gabel et al.   NATURE

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation

(2014) Lianna M. Johnson et al.   NATURE

Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers

(2014) G. Moissiard et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Methylation-Dependent and -Independent Genomic Targeting Principles of the MBD Protein Family

(2013) Tuncay Baubec et al.   CELL

Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome

(2013) Hume Stroud et al.   CELL

Rett syndrome mutations abolish the interaction of MeCP2 with the NCoR/SMRT co-repressor

(2013) Matthew J Lyst et al.   NATURE NEUROSCIENCE

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

(2013) Hume Stroud et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A common mode of recognition for methylated CpG

(2013) Yiwei Liu et al.   TRENDS IN BIOCHEMICAL SCIENCES

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants

(2011) R. J. Schmitz et al.   SCIENCE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Meta-analysis of heat- and chemically upregulated chaperone genes in plant and human cells

(2010) Andrija Finka et al.   CELL STRESS & CHAPERONES

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Arabidopsis thaliana J-class heat shock proteins: cellular stress sensors

(2009) Vinoth Babu V. Rajan et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Multimegabase Silencing in Nucleolar Dominance Involves siRNA-Directed DNA Methylation and Specific Methylcytosine-Binding Proteins

(2008) Sasha B. Preuss et al.   MOLECULAR CELL

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY