Regulation of DNA methylation during the testicular development of Shaziling pigs

Structural and functional characterization of the Spo11 core complex

(2021) Corentin Claeys Bouuaert et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genes Regulating Spermatogenesis and Sperm Function Associated With Rare Disorders

(2021) Emma Linn et al.   Frontiers in Cell and Developmental Biology

The histone variant H2A.W and linker histone H1 co-regulate heterochromatin accessibility and DNA methylation

(2021) Pierre Bourguet et al.   Nature Communications

Sequence determinants, function, and evolution of CpG islands

(2021) Allegra Angeloni et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Spo11 generates gaps through concerted cuts at sites of topological stress

(2021) Silvia Prieler et al.   NATURE

Concerted cutting by Spo11 illuminates meiotic DNA break mechanics

(2021) Dominic Johnson et al.   NATURE

KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis

(2021) Dechao Bu et al.   NUCLEIC ACIDS RESEARCH

Structure of AMH bound to AMHR2 provides insight into a unique signaling pair in the TGF-β family

(2021) Kaitlin N. Hart et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Whole-genome methylation analysis of testicular germ cells from cryptozoospermic men points to recurrent and functionally relevant DNA methylation changes

(2021) Sara Di Persio et al.   Clinical Epigenetics

Aberrant levels of DNA methylation and H3K9 acetylation in the testicular cells of crossbred cattle–yak showing infertility

(2021) Praopilas Phakdeedindan et al.   REPRODUCTION IN DOMESTIC ANIMALS

INHBA transfection regulates proliferation, apoptosis and hormone synthesis in sheep granulosa cells

(2021) Yongjin Bao et al.   THERIOGENOLOGY

X Chromosome Inactivation during Grasshopper Spermatogenesis

(2021) Alberto Viera et al.   Genes

The Initiation of Meiotic Sex Chromosome Inactivation Sequesters DNA Damage Signaling from Autosomes in Mouse Spermatogenesis

(2020) Hironori Abe et al.   CURRENT BIOLOGY

Unraveling epigenomic abnormality in azoospermic human males by WGBS, RNA-Seq, and transcriptome profiling analyses

(2020) Xiaolong Wu et al.   JOURNAL OF ASSISTED REPRODUCTION AND GENETICS

Two distinct modes of DNMT1 recruitment ensure stable maintenance DNA methylation

(2020) Atsuya Nishiyama et al.   Nature Communications

TGF-β/SMAD signaling regulation of mesenchymal stem cells in adipocyte commitment

(2020) Sheng-Nan Li et al.   Stem Cell Research & Therapy

Single-Cell RNA Sequencing of Human, Macaque, and Mouse Testes Uncovers Conserved and Divergent Features of Mammalian Spermatogenesis

(2020) Adrienne Niederriter Shami et al.   DEVELOPMENTAL CELL

Single-Cell RNA Sequencing of the Cynomolgus Macaque Testis Reveals Conserved Transcriptional Profiles during Mammalian Spermatogenesis

(2020) Xianzhong Lau et al.   DEVELOPMENTAL CELL

LOTUS domain is a novel class of G-rich and G-quadruplex RNA binding domain

(2020) Deqiang Ding et al.   NUCLEIC ACIDS RESEARCH

miR‐130a promotes immature porcine Sertoli cell growth by activating SMAD5 through the TGF‐β‐PI3K/AKT signaling pathway

(2020) Hui Luo et al.   FASEB JOURNAL

The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets

(2020) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

DNA Methylation Reprogramming during Mammalian Development

(2019) Yang Zeng et al.   Genes

An Epigenome-Wide DNA Methylation Map of Testis in Pigs for Study of Complex Traits

(2019) Xiao Wang et al.   Frontiers in Genetics

Pan-cancer genomic analysis links 3’UTR DNA methylation with increased gene expression in T cells

(2019) Michael H. McGuire et al.   EBioMedicine

Three-Dimensional Genomic Structure and Cohesin Occupancy Correlate with Transcriptional Activity during Spermatogenesis

(2019) Covadonga Vara et al.   Cell Reports

Roles for Golgi Glycans in Oogenesis and Spermatogenesis

(2019) Ayodele Akintayo et al.   Frontiers in Cell and Developmental Biology

Smad linker region phosphorylation is a signalling pathway in its own right and not only a modulator of canonical TGF-β signalling

(2019) Danielle Kamato et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Simultaneous profiling of 3D genome structure and DNA methylation in single human cells

(2019) Dong-Sung Lee et al.   NATURE METHODS

The diverse roles of DNA methylation in mammalian development and disease

(2019) Maxim V. C. Greenberg et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Prenatal Exposure to Bisphenol A, E, and S Induces Transgenerational Effects on Male Reproductive Functions in Mice

(2019) Mingxin Shi et al.   TOXICOLOGICAL SCIENCES

HS6ST1 insufficiency causes self-limited delayed puberty in contrast with other GnRH deficiency genes

(2018) Sasha R Howard et al.   JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

Genome-wide DNA methylation profile of prepubertal porcine testis

(2018) Xi Chen et al.   REPRODUCTION FERTILITY AND DEVELOPMENT

Primary transcripts: from the discovery of RNA processing to current concepts of gene expression - Review

(2018) Klaus Scherrer   EXPERIMENTAL CELL RESEARCH

Peripheral DNA methylation of HPA axis-related genes in humans: Cross-tissue convergence, two-year stability and behavioural and neural correlates

(2018) Jessica Di Sante et al.   PSYCHONEUROENDOCRINOLOGY

A microRNA cluster in the Fragile‐X region expressed during spermatogenesis targets FMR1

(2018) Madhuvanthi Ramaiah et al.   EMBO REPORTS

Testis development

(2018) Juho-Antti Mäkelä et al.   ENDOCRINE REVIEWS

The UCSC Genome Browser database: 2019 update

(2018) Maximilian Haeussler et al.   NUCLEIC ACIDS RESEARCH

DNMT3L facilitates DNA methylation partly by maintaining DNMT3A stability in mouse embryonic stem cells

(2018) Nicolas Veland et al.   NUCLEIC ACIDS RESEARCH

Activin A in Mammalian Physiology

(2018) Enrrico Bloise et al.   PHYSIOLOGICAL REVIEWS

SYCP3 regulates strand invasion activities of RAD51 and DMC1

(2017) Wataru Kobayashi et al.   GENES TO CELLS

Genome-wide analysis of long non-coding RNAs and their role in postnatal porcine testis development

(2017) Bo Weng et al.   GENOMICS

Genome-wide DNA methylation analysis reveals molecular subtypes of pancreatic cancer

(2017) Nitish Kumar Mishra et al.   Oncotarget

Differential methylation analysis for BS-seq data under general experimental design

(2016) Yongseok Park et al.   BIOINFORMATICS

Meiotic DNA break formation requires the unsynapsed chromosome axis-binding protein IHO1 (CCDC36) in mice

(2016) Marcello Stanzione et al.   NATURE CELL BIOLOGY

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

(2016) Mihaela Pertea et al.   Nature Protocols

Methyl-CpG-binding protein MBD2 plays a key role in maintenance and spread of DNA methylation at CpG islands and shores in cancer

(2016) C Stirzaker et al.   ONCOGENE

Histological and transcriptome analyses of testes from Duroc and Meishan boars

(2016) Haisheng Ding et al.   Scientific Reports

Epigenetic Enhancement of the Post-replicative DNA Mismatch Repair of Mammalian Genomes by a Hemi-mCpG-Np95-Dnmt1 Axis

(2016) Keh-Yang Wang et al.   Scientific Reports

DNA damage and Repair Modify DNA methylation and Chromatin Domain of the Targeted Locus: Mechanism of allele methylation polymorphism

(2016) Giusi Russo et al.   Scientific Reports

DNA methylation and gene expression dynamics during spermatogonial stem cell differentiation in the early postnatal mouse testis

(2015) Naoki Kubo et al.   BMC GENOMICS

TGF-β superfamily signaling in testis formation and early male germline development

(2015) Julia C. Young et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

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

(2015) Daudi Jjingo et al.   Oncotarget

Upregulated INHBA Expression May Promote Cell Proliferation and Is Associated with Poor Survival in Lung Adenocarcinoma

(2015) Christopher W. Seder et al.   NEOPLASIA

cytoHubba: identifying hub objects and sub-networks from complex interactome

(2014) Chia-Hao Chin et al.   BMC Systems Biology

Landscape of DNA methylation on the X chromosome reflects CpG density, functional chromatin state and X-chromosome inactivation

(2014) Allison M. Cotton et al.   HUMAN MOLECULAR GENETICS

A Bayesian hierarchical model to detect differentially methylated loci from single nucleotide resolution sequencing data

(2014) Hao Feng et al.   NUCLEIC ACIDS RESEARCH

Polymorphism in DNMT1 may modify the susceptibility to oligospermia

(2014) Pan Cheng et al.   REPRODUCTIVE BIOMEDICINE ONLINE

MOABS: model based analysis of bisulfite sequencing data

(2014) Deqiang Sun et al.   GENOME BIOLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Dynamic DNA methylation across diverse human cell lines and tissues

(2013) K. E. Varley et al.   GENOME RESEARCH

DNA methylation: roles in mammalian development

(2013) Zachary D. Smith et al.   NATURE REVIEWS GENETICS

Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements

(2012) Lucy W. Barrett et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

DNA methylation imprinting marks and DNA methyltransferase expression in human spermatogenic cell stages

(2012) C. Joana Marques et al.   Epigenetics

Activins and inhibins in mammalian testis development: New models, new insights

(2012) B. Barakat et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

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

(2012) Christoph Bock et al.   MOLECULAR CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

DNA Methylation and Its Basic Function

(2012) Lisa D Moore et al.   NEUROPSYCHOPHARMACOLOGY

DNA methylation dynamics during the mammalian life cycle

(2012) J. A. Hackett et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

An atlas of DNA methylomes in porcine adipose and muscle tissues

(2012) Mingzhou Li et al.   Nature Communications

Alcohol Alters DNA Methylation Patterns and Inhibits Neural Stem Cell Differentiation

(2011) Feng C. Zhou et al.   ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH

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

(2011) Felix Krueger et al.   BIOINFORMATICS

Testicular Somatic Cells, not Gonocytes, Are the Major Source of Functional Activin A during Testis Morphogenesis

(2011) Denise R. Archambeault et al.   ENDOCRINOLOGY

TDRD5 is required for retrotransposon silencing, chromatoid body assembly, and spermiogenesis in mice

(2011) Yukihiro Yabuta et al.   JOURNAL OF CELL BIOLOGY

Tudor domain containing 7 (Tdrd7) is essential for dynamic ribonucleoprotein (RNP) remodeling of chromatoid bodies during spermatogenesis

(2011) T. Tanaka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Activin A Balances Sertoli and Germ Cell Proliferation in the Fetal Mouse Testis

(2010) S. H. S. Mendis et al.   BIOLOGY OF REPRODUCTION

Dynamic changes in the human methylome during differentiation

(2010) L. Laurent et al.   GENOME RESEARCH

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Postnatal somatic cell proliferation and seminiferous tubule maturation in pigs: A non-random event

(2010) Gleide F. Avelar et al.   THERIOGENOLOGY

Orphan CpG Islands Identify Numerous Conserved Promoters in the Mammalian Genome

(2010) Robert S. Illingworth et al.   PLoS Genetics

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

(2009) Madeleine P Ball et al.   NATURE BIOTECHNOLOGY

Tissue specific differentially methylated regions (TDMR): Changes in DNA methylation during development

(2008) Fei Song et al.   GENOMICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Inhibin, activin, follistatin and FSH serum levels and testicular production are highly modulated during the first spermatogenic wave in mice

(2008) Badia Barakat et al.   REPRODUCTION