Phenotype Specific Analyses Reveal Distinct Regulatory Mechanism for Chronically Activated p53

Whole transcriptome sequencing identifies tumor-specific mutations in human oral squamous cell carcinoma

(2013) Qu Zhang et al.   BMC Medical Genomics

Global genomic profiling reveals an extensive p53-regulated autophagy program contributing to key p53 responses

(2013) D. Kenzelmann Broz et al.   GENES & DEVELOPMENT

Reciprocal regulation of p53 and malic enzymes modulates metabolism and senescence

(2013) Peng Jiang et al.   NATURE

Synthetic lethal metabolic targeting of cellular senescence in cancer therapy

(2013) Jan R. Dörr et al.   NATURE

Senescent cells harbour features of the cancer epigenome

(2013) Hazel A. Cruickshanks et al.   NATURE CELL BIOLOGY

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

PscanChIP: finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments

(2013) Federico Zambelli et al.   NUCLEIC ACIDS RESEARCH

Tumor Suppression in the Absence of p53-Mediated Cell-Cycle Arrest, Apoptosis, and Senescence

(2012) Tongyuan Li et al.   CELL

Mutant p53 Disrupts Mammary Tissue Architecture via the Mevalonate Pathway

(2012) William A. Freed-Pastor et al.   CELL

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

(2012) Krassimira Botcheva et al.   CELL CYCLE

Oncogene-induced senescence results in marked metabolic and bioenergetic alterations

(2012) Celia Quijano 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

Scd1 Plays a Tumor-Suppressive Role in Survival of Leukemia Stem Cells and the Development of Chronic Myeloid Leukemia

(2012) H. Zhang et al.   MOLECULAR AND CELLULAR BIOLOGY

Independence of Repressive Histone Marks and Chromatin Compaction during Senescent Heterochromatic Layer Formation

(2012) Tamir Chandra et al.   MOLECULAR CELL

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

eRNAs Are Required for p53-Dependent Enhancer Activity and Gene Transcription

(2012) Carlos A. Melo et al.   MOLECULAR CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

The UCSC Genome Browser database: extensions and updates 2013

(2012) Laurence R. Meyer et al.   NUCLEIC ACIDS RESEARCH

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

The BioGRID interaction database: 2013 update

(2012) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

Distinct p53 Transcriptional Programs Dictate Acute DNA-Damage Responses and Tumor Suppression

(2011) Colleen A. Brady et al.   CELL

CpG islands and the regulation of transcription

(2011) A. M. Deaton et al.   GENES & DEVELOPMENT

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

CENTDIST: discovery of co-associated factors by motif distribution

(2011) Zhizhuo Zhang et al.   NUCLEIC ACIDS RESEARCH

The IntAct molecular interaction database in 2012

(2011) S. Kerrien et al.   NUCLEIC ACIDS RESEARCH

WikiPathways: building research communities on biological pathways

(2011) T. Kelder et al.   NUCLEIC ACIDS RESEARCH

p53 binding to nucleosomes within the p21 promoter in vivo leads to nucleosome loss and transcriptional activation

(2011) O. Laptenko et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data

(2010) Thomas J Hardcastle et al.   BMC BIOINFORMATICS

Improved Tet-responsive promoters with minimized background expression

(2010) Rainer Loew et al.   BMC BIOTECHNOLOGY

Stearoyl-CoA desaturase-1: a novel key player in the mechanisms of cell proliferation, programmed cell death and transformation to cancer

(2010) R. A. Igal   CARCINOGENESIS

In vivo analysis of p53 tumor suppressor function using genetically engineered mouse models

(2010) D. K. Broz et al.   CARCINOGENESIS

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

Pathway Commons, a web resource for biological pathway data

(2010) E. G. Cerami et al.   NUCLEIC ACIDS RESEARCH

Transcriptional Regulation by P53

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

Blinded by the Light: The Growing Complexity of p53

(2009) Karen H. Vousden et al.   CELL

Modes of p53 Regulation

(2009) Jan-Philipp Kruse et al.   CELL

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Predictive chromatin signatures in the mammalian genome

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

Persistent DNA damage signalling triggers senescence-associated inflammatory cytokine secretion

(2009) Francis Rodier et al.   NATURE CELL BIOLOGY

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes

(2009) Federico Zambelli et al.   NUCLEIC ACIDS RESEARCH

Mutant p53 Gain-of-Function in Cancer

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

Tumor Suppressive Functions of p53

(2009) J. T. Zilfou et al.   Cold Spring Harbor Perspectives in Biology

BASH: a tool for managing BeadArray spatial artefacts

(2008) J. M. Cairns et al.   BIOINFORMATICS

A Mitochondrial Protein Compendium Elucidates Complex I Disease Biology

(2008) David J. Pagliarini et al.   CELL

p21 and p27: roles in carcinogenesis and drug resistance

(2008) Abde M. Abukhdeir et al.   EXPERT REVIEWS IN MOLECULAR MEDICINE

Genome-wide identification of aberrantly methylated promoter associated CpG islands in acute lymphocytic leukemia

(2008) S-Q Kuang et al.   LEUKEMIA

Gene expression–based survival prediction in lung adenocarcinoma: a multi-site, blinded validation study

(2008) Kerby Shedden et al.   NATURE MEDICINE

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

(2008) Leonie Smeenk et al.   NUCLEIC ACIDS RESEARCH

Chromosomal transposition of PiggyBac in mouse embryonic stem cells

(2008) W. Wang 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