Genome-wide profiling reveals stimulus-specific functions of p53 during differentiation and DNA damage of human embryonic stem cells

Jmjd3 Inhibits Reprogramming by Upregulating Expression of INK4a/Arf and Targeting PHF20 for Ubiquitination

(2013) Wei Zhao et al.   CELL

The histone demethylase Jmjd3 sequentially associates with the transcription factors Tbx3 and Eomes to drive endoderm differentiation

(2013) Apriliana E R Kartikasari et al.   EMBO JOURNAL

Utx Is Required for Proper Induction of Ectoderm and Mesoderm during Differentiation of Embryonic Stem Cells

(2013) Cristina Morales Torres et al.   PLoS One

Retinoic acid dependent histone 3 demethylation of the clustered HOX genes during neural differentiation of human embryonic stem cells

(2012) Maryam Shahhoseini et al.   Biochemistry and Cell Biology

Distinct p53 genomic binding patterns in normal and cancer-derived human cells

(2012) Krassimira Botcheva et al.   CELL CYCLE

The histone H3 Lys 27 demethylase JMJD3 regulates gene expression by impacting transcriptional elongation

(2012) S. Chen et al.   GENES & DEVELOPMENT

Distinct Regulatory Mechanisms and Functions for p53-Activated and p53-Repressed DNA Damage Response Genes in Embryonic Stem Cells

(2012) Mangmang Li et al.   MOLECULAR CELL

The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming

(2012) Abed AlFatah Mansour et al.   NATURE

Gap 1 phase length and mouse embryonic stem cell self-renewal

(2012) V. C. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

X-linked H3K27me3 demethylase Utx is required for embryonic development in a sex-specific manner

(2012) G. G. Welstead et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

p53 Regulates Cell Cycle and MicroRNAs to Promote Differentiation of Human Embryonic Stem Cells

(2012) Abhinav K. Jain et al.   PLOS BIOLOGY

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

Control of the Embryonic Stem Cell State

(2011) Richard A. Young   CELL

UTX, a Histone H3-Lysine 27 Demethylase, Acts as a Critical Switch to Activate the Cardiac Developmental Program

(2011) Seunghee Lee et al.   DEVELOPMENTAL CELL

Structural basis for histone H3 Lys 27 demethylation by UTX/KDM6A

(2011) T. Sengoku et al.   GENES & DEVELOPMENT

Directed Differentiation of Human Embryonic Stem Cells to Interrogate the Cardiac Gene Regulatory Network

(2011) James E Dixon et al.   MOLECULAR THERAPY

FOXO1 is an essential regulator of pluripotency in human embryonic stem cells

(2011) Xin Zhang et al.   NATURE CELL BIOLOGY

In vivo Atoh1 targetome reveals how a proneural transcription factor regulates cerebellar development

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

Embryonic stem cell-specific signatures in cancer: insights into genomic regulatory networks and implications for medicine

(2011) Jonghwan Kim et al.   Genome Medicine

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

(2011)   PLOS BIOLOGY

Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data

(2010) Robert C McLeay et al.   BMC BIOINFORMATICS

p53: Guardian of reprogramming

(2010) Sergio Menendez et al.   CELL CYCLE

Modeling Disease in Human ESCs Using an Efficient BAC-Based Homologous Recombination System

(2010) Hoseok Song et al.   Cell Stem Cell

p53 loss promotes acute myeloid leukemia by enabling aberrant self-renewal

(2010) Z. Zhao et al.   GENES & DEVELOPMENT

Sox17 promotes differentiation in mouse embryonic stem cells by directly regulating extraembryonic gene expression and indirectly antagonizing self-renewal

(2010) K. K. Niakan et al.   GENES & DEVELOPMENT

Retinoids regulate stem cell differentiation

(2010) Lorraine J. Gudas et al.   JOURNAL OF CELLULAR PHYSIOLOGY

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Transposable elements have rewired the core regulatory network of human embryonic stem cells

(2010) Galih Kunarso et al.   NATURE GENETICS

Inactivation of p53 in breast cancers correlates with stem cell transcriptional signatures

(2010) H. Mizuno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Five-Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding

(2010) D. Schmidt et al.   SCIENCE

The Control of the Metabolic Switch in Cancers by Oncogenes and Tumor Suppressor Genes

(2010) A. J. Levine et al.   SCIENCE

Nodal Signaling Recruits the Histone Demethylase Jmjd3 to Counteract Polycomb-Mediated Repression at Target Genes

(2010) O. Dahle et al.   Science Signaling

Polycomb group protein-mediated repression of transcription

(2010) Lluís Morey et al.   TRENDS IN BIOCHEMICAL SCIENCES

p63 and p73, the Ancestors of p53

(2010) V. Dotsch et al.   Cold Spring Harbor Perspectives in Biology

Transcriptional Regulation by P53

(2010) R. Beckerman et al.   Cold Spring Harbor Perspectives in Biology

CEAS: cis-regulatory element annotation system

(2009) Hyunjin Shin et al.   BIOINFORMATICS

Blinded by the Light: The Growing Complexity of p53

(2009) Karen H. Vousden et al.   CELL

High-resolution analysis of epigenetic changes associated with X inactivation

(2009) H. Marks et al.   GENOME RESEARCH

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

The promises and perils of p53

(2009) Valery Krizhanovsky et al.   NATURE

Direct cell reprogramming is a stochastic process amenable to acceleration

(2009) Jacob Hanna et al.   NATURE

Trim24 targets endogenous p53 for degradation

(2009) Kendra Allton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TP53 Mutations in Human Cancers: Origins, Consequences, and Clinical Use

(2009) M. Olivier et al.   Cold Spring Harbor Perspectives in Biology

Hoxa1 is required for the retinoic acid-induced differentiation of embryonic stem cells into neurons

(2008) Eduardo Martinez-Ceballos et al.   JOURNAL OF NEUROSCIENCE RESEARCH

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY