Expression analysis suggests that DNMT3L is required for oocyte de novo DNA methylation only in Muridae and Cricetidae rodents

Mechanisms and function of de novo DNA methylation in placental development reveals an essential role for DNMT3B

(2023) Simon Andrews et al.   Nature Communications

Functional profiling of stage-specific proteome and translational transition across human pre-implantation embryo development at a single-cell resolution

(2023) Yujiao Dang et al.   Cell Discovery

Beginner's Guide on the Use of PAML to Detect Positive Selection

(2023) Sandra Álvarez-Carretero et al.   MOLECULAR BIOLOGY AND EVOLUTION

Insights into mammalian TE diversity through the curation of 248 genome assemblies

(2023) Austin B. Osmanski et al.   SCIENCE

The DNMT3A ADD domain is required for efficient de novo DNA methylation and maternal imprinting in mouse oocytes

(2023) Ryuji Uehara et al.   PLoS Genetics

Loss of histone methyltransferase SETD1B in oogenesis results in the redistribution of genomic histone 3 lysine 4 trimethylation

(2022) Courtney W Hanna et al.   NUCLEIC ACIDS RESEARCH

Search and sequence analysis tools services from EMBL-EBI in 2022

(2022) Fábio Madeira et al.   NUCLEIC ACIDS RESEARCH

Histone H3K36me2 and H3K36me3 form a chromatin platform essential for DNMT3A-dependent DNA methylation in mouse oocytes

(2022) Seiichi Yano et al.   Nature Communications

Noncanonical imprinting: intergenerational epigenetic inheritance mediated by Polycomb complexes

(2022) Azusa Inoue   CURRENT OPINION IN GENETICS & DEVELOPMENT

Structural and biochemical insight into the mechanism of dual CpG site binding and methylation by the DNMT3A DNA methyltransferase

(2021) Max Emperle et al.   NUCLEIC ACIDS RESEARCH

The DNMT3A PWWP domain is essential for the normal DNA methylation landscape in mouse somatic cells and oocytes

(2021) Kanako Kibe et al.   PLoS Genetics

Evolutionary epigenomic analyses in mammalian early embryos reveal species-specific innovations and conserved principles of imprinting

(2021) Xukun Lu et al.   Science Advances

The inactive Dnmt3b3 isoform preferentially enhances Dnmt3b-mediated DNA methylation

(2020) Yang Zeng et al.   GENES & DEVELOPMENT

Animal models of human pregnancy and placentation: alternatives to the mouse

(2020) Anthony M Carter   REPRODUCTION

TBPL2/TFIIA complex establishes the maternal transcriptome through oocyte-specific promoter usage

(2020) Changwei Yu et al.   Nature Communications

A phylogenomic rodent tree reveals the repeated evolution of masseter architectures

(2019) Mark T. Swanson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The role and mechanisms of DNA methylation in the oocyte

(2019) Gintarė Sendžikaitė et al.   Essays in Biochemistry

Role of Mammalian DNA Methyltransferases in Development

(2019) Zhiyuan Chen et al.   Annual Review of Biochemistry

Inferring the mammal tree: Species-level sets of phylogenies for questions in ecology, evolution, and conservation

(2019) Nathan S. Upham et al.   PLOS BIOLOGY

The molecular characterisation of mitochondrial DNA deficient oocytes using a pig model

(2018) Te-Sha Tsai et al.   HUMAN REPRODUCTION

Epigenetic regulation in development: is the mouse a good model for the human?

(2018) Courtney W Hanna et al.   HUMAN REPRODUCTION UPDATE

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

MACSE v2: Toolkit for the Alignment of Coding Sequences Accounting for Frameshifts and Stop Codons

(2018) Vincent Ranwez et al.   MOLECULAR BIOLOGY AND EVOLUTION

Chromatin analysis in human early development reveals epigenetic transition during ZGA

(2018) Jingyi Wu et al.   NATURE

LTR retrotransposons transcribed in oocytes drive species-specific and heritable changes in DNA methylation

(2018) Julie Brind’Amour et al.   Nature Communications

PhastWeb: a web interface for evolutionary conservation scoring of multiple sequence alignments using phastCons and phyloP

(2018) Ritika Ramani et al.   BIOINFORMATICS

Transcriptome analyses of rhesus monkey preimplantation embryos reveal a reduced capacity for DNA double-strand break repair in primate oocytes and early embryos

(2017) Xinyi Wang et al.   GENOME RESEARCH

Long terminal repeats power evolution of genes and gene expression programs in mammalian oocytes and zygotes

(2017) Vedran Franke et al.   GENOME RESEARCH

Transcription and chromatin determinants of de novo DNA methylation timing in oocytes

(2017) Lenka Gahurova et al.   Epigenetics & Chromatin

The DNA methyltransferase DNMT3C protects male germ cells from transposon activity

(2016) Joan Barau et al.   SCIENCE

Establishment and functions of DNA methylation in the germline

(2016) Kathleen R Stewart et al.   Epigenomics

DNMT3B isoforms without catalytic activity stimulate gene body methylation as accessory proteins in somatic cells

(2016) Christopher E. Duymich et al.   Nature Communications

TEtranscripts: a package for including transposable elements in differential expression analysis of RNA-seq datasets

(2015) Ying Jin et al.   BIOINFORMATICS

Dynamic changes in histone modifications precede de novo DNA methylation in oocytes

(2015) Kathleen R. Stewart et al.   GENES & DEVELOPMENT

RNA-Seq profiling of single bovine oocyte transcript abundance and its modulation by cytoplasmic polyadenylation

(2015) Juan M Reyes et al.   MOLECULAR REPRODUCTION AND DEVELOPMENT

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package

(2015) Sonia Tarazona et al.   NUCLEIC ACIDS RESEARCH

Epigenetic inheritance through the female germ-line: The known, the unknown, and the possible

(2015) Hugh J. Clarke et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Dynamic regulation of DNA methyltransferases in human oocytes and preimplantation embryos after assisted reproductive technologies

(2014) Laetitia Petrussa et al.   MOLECULAR HUMAN REPRODUCTION

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

(2013) Liying Yan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genomic responses in mouse models poorly mimic human inflammatory diseases

(2013) Junhee Seok et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mouse Oocyte Methylomes at Base Resolution Reveal Genome-Wide Accumulation of Non-CpG Methylation and Role of DNA Methyltransferases

(2013) Kenjiro Shirane et al.   PLoS Genetics

Contribution of Intragenic DNA Methylation in Mouse Gametic DNA Methylomes to Establish Oocyte-Specific Heritable Marks

(2012) Hisato Kobayashi et al.   PLoS Genetics

Dynamic CpG island methylation landscape in oocytes and preimplantation embryos

(2011) Sébastien A Smallwood et al.   NATURE GENETICS

MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons

(2011) Vincent Ranwez et al.   PLoS One

De novo DNA methylation: a germ cell perspective

(2011) Sébastien A. Smallwood et al.   TRENDS IN GENETICS

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

The Dnmt3a PWWP Domain Reads Histone 3 Lysine 36 Trimethylation and Guides DNA Methylation

(2010) Arunkumar Dhayalan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Chromatin methylation activity of Dnmt3a and Dnmt3a/3L is guided by interaction of the ADD domain with the histone H3 tail

(2010) Yingying Zhang et al.   NUCLEIC ACIDS RESEARCH

Proteome of mouse oocytes at different developmental stages

(2010) Shufang Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Can Animal Models of Disease Reliably Inform Human Studies?

(2010) H. Bart van der Worp et al.   PLOS MEDICINE

Structural basis for recognition of H3K4 methylation status by the DNA methyltransferase 3A ATRX–DNMT3–DNMT3L domain

(2009) Junji Otani et al.   EMBO REPORTS

KDM1B is a histone H3K4 demethylase required to establish maternal genomic imprints

(2009) David N. Ciccone et al.   NATURE