Regulatory network decoded from epigenomes of surface ectoderm-derived cell types

Transcriptional and Epigenetic Dynamics during Specification of Human Embryonic Stem Cells

(2013) Casey A. Gifford et al.   CELL

Developmental Fate and Cellular Maturity Encoded in Human Regulatory DNA Landscapes

(2013) Andrew B. Stergachis et al.   CELL

Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells

(2013) Wei Xie et al.   CELL

Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm

(2013) B. Zhang et al.   GENOME RESEARCH

Dynamic DNA methylation across diverse human cell lines and tissues

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

De novo DNA demethylation and noncoding transcription define active intergenic regulatory elements

(2013) F. Schlesinger et al.   GENOME RESEARCH

Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods

(2013) M. Stevens et al.   GENOME RESEARCH

Charting a dynamic DNA methylation landscape of the human genome

(2013) Michael J. Ziller et al.   NATURE

DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape

(2013) Mingchao Xie et al.   NATURE GENETICS

Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues

(2013) Gary C Hon et al.   NATURE GENETICS

The UCSC Interaction Browser: multidimensional data views in pathway context

(2013) Christopher K. Wong et al.   NUCLEIC ACIDS RESEARCH

JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

(2013) Anthony Mathelier et al.   NUCLEIC ACIDS RESEARCH

Global Epigenomic Reconfiguration During Mammalian Brain Development

(2013) R. Lister et al.   SCIENCE

ZNF750 Is a p63 Target Gene that Induces KLF4 to Drive Terminal Epidermal Differentiation

(2012) George L. Sen et al.   DEVELOPMENTAL CELL

The 3D tissue microenvironment modulates DNA methylation and E-cadherin expression in squamous cell carcinoma

(2012) Teresa M. DesRochers et al.   Epigenetics

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

(2012) Yin Shen et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

IRF6 in development and disease: A mediator of quiescence and differentiation

(2011) Caleb M. Bailey et al.   CELL CYCLE

Krüppel-like Factor 4 Inhibits Epithelial-to-Mesenchymal Transition through Regulation of E-cadherin Gene Expression

(2010) Jennifer L. Yori et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Conserved role of intragenic DNA methylation in regulating alternative promoters

(2010) Alika K. Maunakea et al.   NATURE

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Notch Signaling Regulates Mammary Stem Cell Function and Luminal Cell-Fate Commitment

(2008) Toula Bouras et al.   Cell Stem Cell

AP-2 factors act in concert with Notch to orchestrate terminal differentiation in skin epidermis

(2008) Xuan Wang et al.   JOURNAL OF CELL BIOLOGY

The classification of inherited epidermolysis bullosa (EB): Report of the Third International Consensus Meeting on Diagnosis and Classification of EB

(2008) Jo-David Fine et al.   JOURNAL OF THE AMERICAN ACADEMY OF DERMATOLOGY

The miR-200 family and miR-205 regulate epithelial to mesenchymal transition by targeting ZEB1 and SIP1

(2008) Philip A. Gregory et al.   NATURE CELL BIOLOGY

Disruption of an AP-2α binding site in an IRF6 enhancer is associated with cleft lip

(2008) Fedik Rahimov et al.   NATURE GENETICS

Sustained induction of epithelial to mesenchymal transition activates DNA methylation of genes silenced in basal-like breast cancers

(2008) N. Dumont 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

Notch signaling: Its role in epidermal homeostasis and in the pathogenesis of skin diseases

(2007) Ryuhei Okuyama et al.   JOURNAL OF DERMATOLOGICAL SCIENCE