Histone demethylase complexes KDM3A and KDM3B cooperate with OCT4/SOX2 to define a pluripotency gene regulatory network

Telomere dysfunction cooperates with epigenetic alterations to impair murine embryonic stem cell fate commitment

(2020) Mélanie Criqui et al.   eLife

Histone demethylase KDM3A is required for enhancer activation of hippo target genes in colorectal cancer

(2019) Hui-Yi Wang et al.   NUCLEIC ACIDS RESEARCH

Pluripotency and X chromosome dynamics revealed in pig pre-gastrulating embryos by single cell analysis

(2019) Priscila Ramos-Ibeas et al.   Nature Communications

Reconstitution of male germline cell specification from mouse embryonic stem cells using defined factors in vitro

(2019) Na Li et al.   CELL DEATH AND DIFFERENTIATION

Pluripotency reprogramming by competent and incompetent POU factors uncovers temporal dependency for Oct4 and Sox2

(2019) Vikas Malik et al.   Nature Communications

Systematic characterization of chromatin modifying enzymes identifies KDM3B as a critical regulator in castration resistant prostate cancer

(2019) Hilal Saraç et al.   ONCOGENE

Combined Loss of JMJD1A and JMJD1B Reveals Critical Roles for H3K9 Demethylation in the Maintenance of Embryonic Stem Cells and Early Embryogenesis

(2018) Shunsuke Kuroki et al.   Stem Cell Reports

Immune Repertoire Sequencing Using Molecular Identifiers Enables Accurate Clonality Discovery and Clone Size Quantification

(2018) Ke-Yue Ma et al.   Frontiers in Immunology

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

Directed Evolution of Reprogramming Factors by Cell Selection and Sequencing

(2018) Veeramohan Veerapandian et al.   Stem Cell Reports

Generation of embryonic stem-like cells from in vivo-derived porcine blastocysts at a low concentration of basic fibroblast growth factor

(2017) H-J Cha et al.   REPRODUCTION IN DOMESTIC ANIMALS

KDM3 epigenetically controls tumorigenic potentials of human colorectal cancer stem cells through Wnt/β-catenin signalling

(2017) Jiong Li et al.   Nature Communications

OCT4 and SOX2 Work as Transcriptional Activators in Reprogramming Human Fibroblasts

(2017) Santosh Narayan et al.   Cell Reports

JMJD1C Ensures Mouse Embryonic Stem Cell Self-Renewal and Somatic Cell Reprogramming through Controlling MicroRNA Expression

(2017) Feng Xiao et al.   Stem Cell Reports

Epigenetic Modifiers Facilitate Induction and Pluripotency of Porcine iPSCs

(2017) Jian Mao et al.   Stem Cell Reports

DNA repair and replication links to pluripotency and differentiation capacity of pig iPS cells

(2017) Kai Liu et al.   PLoS One

LIN28 Regulates Stem Cell Metabolism and Conversion to Primed Pluripotency

(2016) Jin Zhang et al.   Cell Stem Cell

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Porcine Pluripotent Stem Cells Derived from IVF Embryos Contribute to Chimeric Development In Vivo

(2016) Binghua Xue et al.   PLoS One

H3K4 Methyltransferase Set1a Is A Key Oct4 Coactivator Essential for Generation of Oct4 Positive Inner Cell Mass

(2016) Lan Fang et al.   STEM CELLS

Derivation of Porcine Embryonic Stem-Like Cells from In Vitro-Produced Blastocyst-Stage Embryos

(2016) Dao-Rong Hou et al.   Scientific Reports

Pluripotent Stem Cells from Domesticated Mammals

(2016) Toshihiko Ezashi et al.   Annual Review of Animal Biosciences

Distinct Enhancer Activity of Oct4 in Naive and Primed Mouse Pluripotency

(2016) Hyun Woo Choi et al.   Stem Cell Reports

Reactivation of Endogenous Genes and Epigenetic Remodeling Are Barriers for Generating Transgene-Free Induced Pluripotent Stem Cells in Pig

(2016) Kwang-Hwan Choi et al.   PLoS One

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

(2015) Guangchuang Yu et al.   BIOINFORMATICS

Sox2 is the faithful marker for pluripotency in pig: Evidence from embryonic studies

(2015) Shichao Liu et al.   DEVELOPMENTAL DYNAMICS

The Histone H3K9 Demethylase Kdm3b Is Required for Somatic Growth and Female Reproductive Function

(2015) Zhaoliang Liu et al.   International Journal of Biological Sciences

Collaborative rewiring of the pluripotency network by chromatin and signalling modulating pathways

(2015) Khoa A. Tran et al.   Nature Communications

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Towards error-free profiling of immune repertoires

(2014) Mikhail Shugay et al.   NATURE METHODS

The SOX Transcription Factors as Key Players in Pluripotent Stem Cells

(2014) Essam M. Abdelalim et al.   STEM CELLS AND DEVELOPMENT

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

(2013) Y. Liao et al.   BIOINFORMATICS

Pig genomics for biomedicine

(2013) Randall S Prather   NATURE BIOTECHNOLOGY

Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency

(2013) Rupa Sridharan et al.   NATURE CELL BIOLOGY

Epigenetic Regulation of Mouse Sex Determination by the Histone Demethylase Jmjd1a

(2013) S. Kuroki et al.   SCIENCE

Tbx3 and Nr5α2 Play Important Roles in Pig Pluripotent Stem Cells

(2013) Jianyu Wang et al.   Stem Cell Reviews and Reports

RSeQC: quality control of RNA-seq experiments

(2012) Liguo Wang et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Establishment of Self-renewing Porcine Embryonic Stem Cell-like Cells by Signal Inhibition

(2012) Seiki HARAGUCHI et al.   JOURNAL OF REPRODUCTION AND DEVELOPMENT

KDM3B Is the H3K9 Demethylase Involved in Transcriptional Activation of lmo2 in Leukemia

(2012) J.-Y. Kim et al.   MOLECULAR AND CELLULAR BIOLOGY

H3K9 methylation is a barrier during somatic cell reprogramming into iPSCs

(2012) Jiekai Chen et al.   NATURE GENETICS

Generation of Naive-Like Porcine-Induced Pluripotent Stem Cells Capable of Contributing to Embryonic and Fetal Development

(2012) Shuh-hei Fujishiro et al.   STEM CELLS AND DEVELOPMENT

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Tbx3 improves the germ-line competency of induced pluripotent stem cells

(2010) Jianyong Han et al.   NATURE

Porcine Induced Pluripotent Stem Cells Produce Chimeric Offspring

(2010) Franklin D. West et al.   STEM CELLS AND DEVELOPMENT

Establishment and characterization of embryonic stem-like cells from porcine somatic cell nuclear transfer blastocysts

(2010) S. Kim et al.   ZYGOTE

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

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

Jmjd1a Demethylase-regulated Histone Modification Is Essential for cAMP-response Element Modulator-regulated Gene Expression and Spermatogenesis

(2009) Zhaoliang Liu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Generation of Induced Pluripotent Stem Cell Lines from Tibetan Miniature Pig

(2009) Miguel A. Esteban et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Derivation of induced pluripotent stem cells from pig somatic cells

(2009) T. Ezashi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Generation of Pig Induced Pluripotent Stem Cells with a Drug-Inducible System

(2009) Zhao Wu et al.   Journal of Molecular Cell Biology

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY