Mapping the zebrafish brain methylome using reduced representation bisulfite sequencing

On the presence and role of human gene-body DNA methylation

(2015) Daudi Jjingo et al.   Oncotarget

Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing

(2013) Junwen Wang et al.   BMC GENOMICS

Reprogramming the Maternal Zebrafish Genome after Fertilization to Match the Paternal Methylation Pattern

(2013) Magdalena E. Potok et al.   CELL

Sperm, but Not Oocyte, DNA Methylome Is Inherited by Zebrafish Early Embryos

(2013) Lan Jiang et al.   CELL

A systematic genome-wide analysis of zebrafish protein-coding gene function

(2013) Ross N. W. Kettleborough et al.   NATURE

The zebrafish reference genome sequence and its relationship to the human genome

(2013) Kerstin Howe et al.   NATURE

Long distance relationships: Enhancer–promoter communication and dynamic gene transcription

(2012) Judith Marsman et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Base-Resolution Analyses of Sequence and Parent-of-Origin Dependent DNA Methylation in the Mouse Genome

(2012) Wei Xie et al.   CELL

5-Hydroxymethylcytosine – the elusive epigenetic mark in mammalian DNA

(2012) Edita Kriukienė et al.   CHEMICAL SOCIETY REVIEWS

Diametrically opposite methylome-transcriptome relationships in high- and low-CpG promoter genes in postmitotic neural rat tissue

(2012) Theresa Hartung et al.   Epigenetics

Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis

(2012) O. Bogdanovic et al.   GENOME RESEARCH

Technical Considerations for Reduced Representation Bisulfite Sequencing with Multiplexed Libraries

(2012) Aniruddha Chatterjee et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

DNA Methylation Dynamics during In Vivo Differentiation of Blood and Skin Stem Cells

(2012) Christoph Bock et al.   MOLECULAR CELL

Comparison of alignment software for genome-wide bisulphite sequence data

(2012) Aniruddha Chatterjee et al.   NUCLEIC ACIDS RESEARCH

CTCF/cohesin-mediated DNA looping is required for protocadherin   promoter choice

(2012) Y. Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles

(2012) Altuna Akalin et al.   GENOME BIOLOGY

Developmental features of DNA methylation during activation of the embryonic zebrafish genome

(2012) Ingrid S Andersen et al.   GENOME BIOLOGY

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

(2011) Felix Krueger et al.   BIOINFORMATICS

Comprehensive profiling of zebrafish hepatic proximal promoter CpG island methylation and its modification during chemical carcinogenesis

(2011) Leda Mirbahai et al.   BMC GENOMICS

Reference Maps of Human ES and iPS Cell Variation Enable High-Throughput Characterization of Pluripotent Cell Lines

(2011) Christoph Bock et al.   CELL

Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons

(2011) K. Iwamoto et al.   GENOME RESEARCH

Genes methylated by DNA methyltransferase 3b are similar in mouse intestine and human colon cancer

(2011) Eveline J. Steine et al.   JOURNAL OF CLINICAL INVESTIGATION

Complexities of Rett Syndrome and MeCP2

(2011) R. C. Samaco et al.   JOURNAL OF NEUROSCIENCE

CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing

(2011) Sanjeev Shukla et al.   NATURE

MethylomeDB: a database of DNA methylation profiles of the brain

(2011) Yurong Xin et al.   NUCLEIC ACIDS RESEARCH

Relationship between Gene Body DNA Methylation and Intragenic H3K9me3 and H3K36me3 Chromatin Marks

(2011) Maria A. Hahn et al.   PLoS One

Analysis of DNA Methylation in a Three-Generation Family Reveals Widespread Genetic Influence on Epigenetic Regulation

(2011) Jason Gertz et al.   PLoS Genetics

Dynamic changes in the human methylome during differentiation

(2010) L. Laurent et al.   GENOME RESEARCH

Replication timing-related and gene body-specific methylation of active human genes

(2010) Dvir Aran et al.   HUMAN MOLECULAR GENETICS

Epigenetic choreographers of neurogenesis in the adult mammalian brain

(2010) Dengke K Ma et al.   NATURE NEUROSCIENCE

Principles and challenges of genome-wide DNA methylation analysis

(2010) Peter W. Laird   NATURE REVIEWS GENETICS

Conservation and divergence of methylation patterning in plants and animals

(2010) S. Feng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptional Silencing and Reactivation in Transgenic Zebrafish

(2009) M. G. Goll et al.   GENETICS

High-throughput bisulfite sequencing in mammalian genomes

(2009) Zachary D. Smith et al.   METHODS

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts

(2009) Akiko Doi et al.   NATURE GENETICS

The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores

(2009) Rafael A Irizarry et al.   NATURE GENETICS

Epigenomic Profiling Reveals DNA-Methylation Changes Associated with Major Psychosis

(2008) Jonathan Mill et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Quantitative analysis of human tissue-specific differences in methylation

(2008) Jun Igarashi et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

DNA Demethylation in Zebrafish Involves the Coupling of a Deaminase, a Glycosylase, and Gadd45

(2008) Kunal Rai et al.   CELL

Epigenetic Regulation of bdnf Gene Transcription in the Consolidation of Fear Memory

(2008) F. D. Lubin et al.   JOURNAL OF NEUROSCIENCE

DNA Methylation and Structural and Functional Bimodality of Vertebrate Promoters

(2008) N. Elango et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetics, environmental factors and the emerging role of epigenetics in neurodegenerative diseases

(2008) Lucia Migliore et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

DNA methylation landscapes: provocative insights from epigenomics

(2008) Miho M. Suzuki et al.   NATURE REVIEWS GENETICS