Loss of Monoallelic Expression of IGF2 in the Adult Liver Via Alternative Promoter Usage and Chromatin Reorganization

Reorganization of chromatin architecture during prenatal development of porcine skeletal muscle

(2021) Renqiang Yuan et al.   DNA RESEARCH

Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research

(2021) Colin Kern et al.   Nature Communications

A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome

(2021) Yunxia Zhao et al.   Nature Communications

Deletion of CTCF sites in the SHH locus alters enhancer–promoter interactions and leads to acheiropodia

(2021) Aki Ushiki et al.   Nature Communications

Genomic Imprinting at the Porcine PLAGL1 Locus and the Orthologous Locus in the Human

(2021) Jinsoo Ahn et al.   Genes

Genomic Imprinting at the Porcine DIRAS3 Locus

(2021) Jinsoo Ahn et al.   Animals

Evaluation of whole-genome DNA methylation sequencing library preparation protocols

(2021) Jacob Morrison et al.   Epigenetics & Chromatin

Large parental differences in chromatin organization in pancreatic beta cell line explaining diabetes susceptibility effects

(2021) Xing Jian et al.   Nature Communications

The dynamic broad epigenetic (H3K4me3, H3K27ac) domain as a mark of essential genes

(2021) Tasnim H. Beacon et al.   Clinical Epigenetics

Importance of the pig as a human biomedical model

(2021) Joan K. Lunney et al.   Science Translational Medicine

Identification of a Novel Imprinted Transcript in the Porcine GNAS Complex Locus Using Methylome and Transcriptome of Parthenogenetic Fetuses

(2020) Jinsoo Ahn et al.   Genes

Developmental and Degenerative Characterization of Porcine Parthenogenetic Fetuses during Early Pregnancy

(2020) In-Sul Hwang et al.   Animals

TADs without borders

(2020) Irene Farabella et al.   NATURE GENETICS

Cohesin promotes stochastic domain intermingling to ensure proper regulation of boundary-proximal genes

(2020) Jennifer M. Luppino et al.   NATURE GENETICS

Cis-acting variation is common across regulatory layers but is often buffered during embryonic development

(2020) Swann Floc'hlay et al.   GENOME RESEARCH

Genome-wide identification of RNA editing in seven porcine tissues by matched DNA and RNA high-throughput sequencing

(2019) Yuebo Zhang et al.   Journal of Animal Science and Biotechnology

Genomic Imprinting and Physiological Processes in Mammals

(2019) Valter Tucci et al.   CELL

Atlas of RNA sequencing profiles for normal human tissues

(2019) Maria Suntsova et al.   Scientific Data

Elevated H3K27ac in aged skeletal muscle leads to increase in extracellular matrix and fibrogenic conversion of muscle satellite cells

(2019) Jiajian Zhou et al.   AGING CELL

Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data

(2019) Xiaomeng Tian et al.   Science China-Life Sciences

Analysis of porcine IGF2 gene expression in adipose tissue and its effect on fatty acid composition

(2019) Lourdes Criado-Mesas et al.   PLoS One

Integrated Epigenome, Exome, and Transcriptome Analyses Reveal Molecular Subtypes and Homeotic Transformation in Uterine Fibroids

(2019) Jitu Wilson George et al.   Cell Reports

GenomeDISCO: a concordance score for chromosome conformation capture experiments using random walks on contact map graphs

(2018) Oana Ursu et al.   BIOINFORMATICS

Stratification of TAD boundaries reveals preferential insulation of super-enhancers by strong boundaries

(2018) Yixiao Gong et al.   Nature Communications

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Comparative transcriptomics of 5 high-altitude vertebrates and their low-altitude relatives

(2017) Qianzi Tang et al.   GigaScience

Is H3K4me3 instructive for transcription activation?

(2016) Françoise S. Howe et al.   BIOESSAYS

Comprehensive variation discovery and recovery of missing sequence in the pig genome using multiple de novo assemblies

(2016) Mingzhou Li et al.   GENOME RESEARCH

Identification and function of enhancers in the human genome

(2016) Candice J. Coppola et al.   HUMAN MOLECULAR GENETICS

Generation of α-1,3-galactosyltransferase knocked-out transgenic cloned pigs with knocked-in five human genes

(2016) Dae-Jin Kwon et al.   TRANSGENIC RESEARCH

metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data

(2015) Frank Jühling et al.   GENOME RESEARCH

Epigenomic Landscape of Human Fetal Brain, Heart, and Liver

(2015) Liying Yan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Condensin-driven remodelling of X chromosome topology during dosage compensation

(2015) Emily Crane et al.   NATURE

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Epigenetic regulation of theIgf2/H19gene cluster

(2014) M. Nordin et al.   CELL PROLIFERATION

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

The role of genomic imprinting in biology and disease: an expanding view

(2014) Jo Peters   NATURE REVIEWS GENETICS

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Chromatin state dynamics during blood formation

(2014) D. Lara-Astiaso et al.   SCIENCE

Genomic Imprinting in Mammals

(2014) D. P. Barlow et al.   Cold Spring Harbor Perspectives in Biology

Beckwith-Wiedemann and Silver-Russell syndromes: opposite developmental imbalances in imprinted regulators of placental function and embryonic growth

(2013) KJ Jacob et al.   CLINICAL GENETICS

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

Genomic Imprinting in Farm Animals

(2013) Xiuchun (Cindy) Tian   Annual Review of Animal Biosciences

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

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

(2012) Yin Shen et al.   NATURE

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

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

(2011) Felix Krueger et al.   BIOINFORMATICS

Relationship of porcine IGF2 imprinting status to DNA methylation at the H19 DMD and the IGF2 DMRs 1 and 2

(2011) Martin H Braunschweig et al.   BMC GENETICS

DNA methylation status predicts cell type-specific enhancer activity

(2011) Malgorzata Wiench et al.   EMBO JOURNAL

Enhancer function: new insights into the regulation of tissue-specific gene expression

(2011) Chin-Tong Ong et al.   NATURE REVIEWS GENETICS

Genomic imprinting: the emergence of an epigenetic paradigm

(2011) Anne C. Ferguson-Smith   NATURE REVIEWS GENETICS

Analysis of Imprinted Gene Expression in Normal Fertilized and Uniparental Preimplantation Porcine Embryos

(2011) Chi-Hun Park et al.   PLoS One

A unique chromatin signature uncovers early developmental enhancers in humans

(2010) Alvaro Rada-Iglesias et al.   NATURE

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Characterization of Conserved and Nonconserved Imprinted Genes in Swine1

(2009) Steve R. Bischoff et al.   BIOLOGY OF REPRODUCTION

DNA methylation patterns at theIGF2-H19locus in sperm of Swiss Landrace and Swiss Large White boars

(2009) Petra Giannini et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

Genetic Imprinting ofH19andIGF2in Domestic Pigs (Sus scrofa)

(2008) Chao Li* et al.   ANIMAL BIOTECHNOLOGY

Methylation status of differentially methylated regions at Igf2/H19 locus in porcine gametes and preimplantation embryos

(2008) Chi-Hun Park et al.   GENOMICS

The H19 locus acts in vivo as a tumor suppressor

(2008) T. Yoshimizu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY