Histone H3 lysine 4 trimethylation in sperm is transmitted to the embryo and associated with diet-induced phenotypes in the offspring

Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains

(2020) Amanda Khoury et al.   Nature Communications

Sperm histone H3 lysine 4 trimethylation is altered in a genetic mouse model of transgenerational epigenetic inheritance

(2020) Ariane Lismer et al.   NUCLEIC ACIDS RESEARCH

Extensive Recovery of Embryonic Enhancer and Gene Memory Stored in Hypomethylated Enhancer DNA

(2019) Unmesh Jadhav et al.   MOLECULAR CELL

The Impact of One Carbon Metabolism on Histone Methylation

(2019) Magdalini Serefidou et al.   Frontiers in Genetics

The oocyte-to-embryo transition in mouse: past, present, and future†

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Dynamics of the epigenetic landscape during the maternal-to-zygotic transition

(2018) Melanie A. Eckersley-Maslin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

MLL2 conveys transcription-independent H3K4 trimethylation in oocytes

(2018) Courtney W. Hanna et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

MLL2 conveys transcription-independent H3K4 trimethylation in oocytes

(2018) Courtney W. Hanna et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Re-evaluating the Localization of Sperm-Retained Histones Revealed the Modification-Dependent Accumulation in Specific Genome Regions

(2018) Kosuke Yamaguchi et al.   Cell Reports

Strain Differences in Mice Highlight the Role of DNA Damage in Neoplasia Induced by Low Dietary Folate

(2018) Erin Knock et al.   JOURNAL OF NUTRITION

Epigenetic reprogramming enables the transition from primordial germ cell to gonocyte

(2018) Peter W. S. Hill et al.   NATURE

Enhancer redundancy provides phenotypic robustness in mammalian development

(2018) Marco Osterwalder et al.   NATURE

Paternal diet programs offspring health through sperm- and seminal plasma-specific pathways in mice

(2018) Adam J. Watkins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The UCSC Genome Browser database: 2019 update

(2018) Maximilian Haeussler et al.   NUCLEIC ACIDS RESEARCH

Intergenerational impact of paternal lifetime exposures to both folic acid deficiency and supplementation on reproductive outcomes and imprinted gene methylation

(2017) Lundi Ly et al.   MOLECULAR HUMAN REPRODUCTION

Dynamic reorganization of open chromatin underlies diverse transcriptomes during spermatogenesis

(2017) So Maezawa et al.   NUCLEIC ACIDS RESEARCH

Chromatin States in Mouse Sperm Correlate with Embryonic and Adult Regulatory Landscapes

(2017) Yoon Hee Jung et al.   Cell Reports

Sperm is epigenetically programmed to regulate gene transcription in embryos

(2016) Marta Teperek et al.   GENOME RESEARCH

Distinct features of H3K4me3 and H3K27me3 chromatin domains in pre-implantation embryos

(2016) Xiaoyu Liu et al.   NATURE

Allelic reprogramming of the histone modification H3K4me3 in early mammalian development

(2016) Bingjie Zhang et al.   NATURE

Broad histone H3K4me3 domains in mouse oocytes modulate maternal-to-zygotic transition

(2016) John Arne Dahl et al.   NATURE

Parallel evolution of male germline epigenetic poising and somatic development in animals

(2016) Bluma J Lesch et al.   NATURE GENETICS

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

The Epidemiology of Global Micronutrient Deficiencies

(2015) Regan L. Bailey et al.   ANNALS OF NUTRITION AND METABOLISM

Paternal H3K4 methylation is required for minor zygotic gene activation and early mouse embryonic development

(2015) K. Aoshima et al.   EMBO REPORTS

The histone demethylase KDM1A is essential for the maintenance and differentiation of spermatogonial stem cells and progenitors

(2015) Romain Lambrot et al.   FASEB JOURNAL

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows

(2015) Aaron T.L. Lun et al.   NUCLEIC ACIDS RESEARCH

Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder

(2015) Q. Chen et al.   SCIENCE

Disruption of histone methylation in developing sperm impairs offspring health transgenerationally

(2015) K. Siklenka et al.   SCIENCE

Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals

(2015) U. Sharma et al.   SCIENCE

An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations

(2015) Julie Brind’Amour et al.   Nature Communications

Conclusions of a WHO Technical Consultation on Folate and Vitamin B12 Deficiencies

(2015) Bruno de Benoist   FOOD AND NUTRITION BULLETIN

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

High-Resolution Mapping of Chromatin Packaging in Mouse Embryonic Stem Cells and Sperm

(2014) Benjamin R. Carone et al.   DEVELOPMENTAL CELL

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(2014) Ryan P. Welch et al.   NUCLEIC ACIDS RESEARCH

In utero undernourishment perturbs the adult sperm methylome and intergenerational metabolism

(2014) E. J. Radford et al.   SCIENCE

Paternal heterochromatin formation in human embryos is H3K9/HP1 directed and primed by sperm-derived histone modifications

(2014) Christine van de Werken et al.   Nature Communications

Mutation in Folate Metabolism Causes Epigenetic Instability and Transgenerational Effects on Development

(2013) Nisha Padmanabhan et al.   CELL

The relationship between male BMI and waist circumference on semen quality: data from the LIFE study

(2013) M. L. Eisenberg et al.   HUMAN REPRODUCTION

Paternal Stress Exposure Alters Sperm MicroRNA Content and Reprograms Offspring HPA Stress Axis Regulation

(2013) A. B. Rodgers et al.   JOURNAL OF NEUROSCIENCE

Modification of Enhancer Chromatin: What, How, and Why?

(2013) Eliezer Calo et al.   MOLECULAR CELL

Genome-wide chromatin analysis in mature mouse and human spermatozoa

(2013) Mizue Hisano et al.   Nature Protocols

Chromatin modifiers and remodellers: regulators of cellular differentiation

(2013) Taiping Chen et al.   NATURE REVIEWS GENETICS

Molecular determinants of nucleosome retention at CpG-rich sequences in mouse spermatozoa

(2013) Serap Erkek et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Fine Tuning of Craniofacial Morphology by Distant-Acting Enhancers

(2013) C. Attanasio et al.   SCIENCE

Low paternal dietary folate alters the mouse sperm epigenome and is associated with negative pregnancy outcomes

(2013) R. Lambrot et al.   Nature Communications

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

A map of the cis-regulatory sequences in the mouse genome

(2012) Yin Shen et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Repressive and active histone methylation mark distinct promoters in human and mouse spermatozoa

(2010) Urszula Brykczynska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

rtracklayer: an R package for interfacing with genome browsers

(2009) M. Lawrence et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

CTCF: Master Weaver of the Genome

(2009) Jennifer E. Phillips et al.   CELL

Distinctive chromatin in human sperm packages genes for embryo development

(2009) Saher Sue Hammoud et al.   NATURE

Chromatin dynamics during epigenetic reprogramming in the mouse germ line

(2008) Petra Hajkova et al.   NATURE