Interactions of Chromatin Context, Binding Site Sequence Content, and Sequence Evolution in Stress-Induced p53 Occupancy and Transactivation

A Polymorphic p53 Response Element in KIT Ligand Influences Cancer Risk and Has Undergone Natural Selection

(2013) Jorge Zeron-Medina et al.   CELL

Diverse stresses dramatically alter genome-wide p53 binding and transactivation landscape in human cancer cells

(2013) Daniel Menendez et al.   NUCLEIC ACIDS RESEARCH

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

(2013) Kadir C. Akdemir et al.   NUCLEIC ACIDS RESEARCH

A Genetic Screen Identifies TCF3/E2A and TRIAP1 as Pathway-Specific Regulators of the Cellular Response to p53 Activation

(2013) Zdenek Andrysik et al.   Cell Reports

The impact of post-transcriptional regulation in the p53 network

(2012) J. A. Freeman et al.   Briefings in Functional Genomics

Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

(2012) Dominic Schmidt et al.   CELL

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

(2012) Krassimira Botcheva et al.   CELL CYCLE

Insights into p53 transcriptional function via genome-wide chromatin occupancy and gene expression analysis

(2012) F Nikulenkov et al.   CELL DEATH AND DIFFERENTIATION

Personal and population genomics of human regulatory variation

(2012) B. Vernot et al.   GENOME RESEARCH

Altered Binding Site Selection of p53 Transcription Cassettes by Hepatitis B Virus X Protein

(2012) Cheryl Chan et al.   MOLECULAR AND CELLULAR BIOLOGY

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

An expansive human regulatory lexicon encoded in transcription factor footprints

(2012) Shane Neph et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Integrative annotation of chromatin elements from ENCODE data

(2012) Michael M. Hoffman et al.   NUCLEIC ACIDS RESEARCH

A Fish-Specific Transposable Element Shapes the Repertoire of p53 Target Genes in Zebrafish

(2012) Lucia Micale et al.   PLoS One

Tumor suppressor p53 (TP53) at the crossroads of the exposome and the cancer genome

(2012) A. J. Schetter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

p53 cooperates with DNA methylation and a suicidal interferon response to maintain epigenetic silencing of repeats and noncoding RNAs

(2012) K. I. Leonova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impact of Alu repeats on the evolution of human p53 binding sites

(2011) Feng Cui et al.   Biology Direct

Combinatorial Patterning of Chromatin Regulators Uncovered by Genome-wide Location Analysis in Human Cells

(2011) Oren Ram et al.   CELL

CpG Deamination Creates Transcription Factor–Binding Sites with High Efficiency

(2011) Tomasz Żemojtel et al.   Genome Biology and Evolution

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

Chromatin accessibility pre-determines glucocorticoid receptor binding patterns

(2011) Sam John et al.   NATURE GENETICS

Role of p53 Serine 46 in p53 Target Gene Regulation

(2011) Leonie Smeenk et al.   PLoS One

Disparate chromatin landscapes and kinetics of inactivation impact differential regulation of p53 target genes

(2010) Nathan P. Gomes et al.   CELL CYCLE

Gene-specific repression of the p53 target gene PUMA via intragenic CTCF-Cohesin binding

(2010) N. P. Gomes et al.   GENES & DEVELOPMENT

p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy

(2010) E. Lidor Nili et al.   GENOME RESEARCH

Integrating multiple evidence sources to predict transcription factor binding in the human genome

(2010) J. Ernst et al.   GENOME RESEARCH

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

(2010) R. Pique-Regi et al.   GENOME RESEARCH

Human single-nucleotide polymorphisms alter p53 sequence-specific binding at gene regulatory elements

(2010) Omari J. Bandele et al.   NUCLEIC ACIDS RESEARCH

Formation of stress-specific p53 binding patterns is influenced by chromatin but not by modulation of p53 binding affinity to response elements †

(2010) Jean-François Millau et al.   NUCLEIC ACIDS RESEARCH

Chromatin Landscape Dictates HSF Binding to Target DNA Elements

(2010) Michael J. Guertin et al.   PLoS Genetics

Epigenetic histone modifications of human transposable elements: genome defense versus exaptation

(2010) Ahsan Huda et al.   Mobile DNA

Detection of nonneutral substitution rates on mammalian phylogenies

(2009) K. S. Pollard et al.   GENOME RESEARCH

Predictive chromatin signatures in the mammalian genome

(2009) G. C. Hon et al.   HUMAN MOLECULAR GENETICS

Genetic analysis of radiation-induced changes in human gene expression

(2009) Denis A. Smirnov et al.   NATURE

p53 responsive elements in human retrotransposons

(2009) C R Harris et al.   ONCOGENE

Redefining the p53 response element

(2009) B. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing the Functional Impact of Sequence Variation on p53-DNA Interactions Using a Novel Microsphere Assay for Protein-DNA Binding with Human Cell Extracts

(2009) Maher A. Noureddine et al.   PLoS Genetics

Chromatin Immunoprecipitation-on-Chip Reveals Stress-Dependent p53 Occupancy in Primary Normal Cells but Not in Established Cell Lines

(2008) H. Shaked et al.   CANCER RESEARCH

Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding

(2008) A. G. Robertson et al.   GENOME RESEARCH

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

(2008) Anton Valouev et al.   NATURE METHODS

Transcriptional control of human p53-regulated genes

(2008) Todd Riley et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Characterization of genome-wide p53-binding sites upon stress response

(2008) Leonie Smeenk et al.   NUCLEIC ACIDS RESEARCH

Algorithm for prediction of tumour suppressor p53 affinity for binding sites in DNA

(2008) Dmitry B. Veprintsev et al.   NUCLEIC ACIDS RESEARCH

Noncanonical DNA Motifs as Transactivation Targets by Wild Type and Mutant p53

(2008) Jennifer J. Jordan et al.   PLoS Genetics