p53 pulses lead to distinct patterns of gene expression albeit similar DNA-binding dynamics

Cell-to-Cell Variation in p53 Dynamics Leads to Fractional Killing

(2016) Andrew L. Paek et al.   CELL

Encoding four gene expression programs in the activation dynamics of a single transcription factor

(2016) Anders S. Hansen et al.   CURRENT BIOLOGY

Multiplex enhancer-reporter assays uncover unsophisticated TP53 enhancer logic

(2016) Annelien Verfaillie et al.   GENOME RESEARCH

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

NF-κB oscillations translate into functionally related patterns of gene expression

(2016) Samuel Zambrano et al.   eLife

p53 Pulses Diversify Target Gene Expression Dynamics in an mRNA Half-Life-Dependent Manner and Delineate Co-regulated Target Gene Subnetworks

(2016) Joshua R. Porter et al.   Cell Systems

The transcription factor p53: Not a repressor, solely an activator

(2014) Martin Fischer et al.   CELL CYCLE

Parallel Profiling of the Transcriptome, Cistrome, and Epigenome in the Cellular Response to Ionizing Radiation

(2014) S. Rashi-Elkeles et al.   Science Signaling

Differential protein occupancy profiling of the mRNA transcriptome

(2014) Markus Schueler et al.   GENOME BIOLOGY

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool

(2013) Edward Y Chen et al.   BMC BIOINFORMATICS

A threshold mechanism mediates p53 cell fate decision between growth arrest and apoptosis

(2013) M Kracikova et al.   CELL DEATH AND DIFFERENTIATION

Characterization of the p53 Cistrome – DNA Binding Cooperativity Dissects p53's Tumor Suppressor Functions

(2013) Katharina Schlereth et al.   PLoS Genetics

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

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

p53 Dynamics Control Cell Fate

(2012) J. E. Purvis et al.   SCIENCE

Measuring reproducibility of high-throughput experiments

(2011) Qunhua Li et al.   Annals of Applied Statistics

Stimulus-dependent dynamics of p53 in single cells

(2011) E. Batchelor et al.   Molecular Systems Biology

Signal-dependent dynamics of transcription factor translocation controls gene expression

(2011) Nan Hao et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Role of p53 Serine 46 in p53 Target Gene Regulation

(2011) Leonie Smeenk et al.   PLoS One

The role of mRNA decay in p53-induced gene expression

(2011) B. D. Melanson et al.   RNA

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

The stability of mRNA influences the temporal order of the induction of genes encoding inflammatory molecules

(2009) Shengli Hao et al.   NATURE IMMUNOLOGY

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Recurrent Initiation: A Mechanism for Triggering p53 Pulses in Response to DNA Damage

(2008) Eric Batchelor et al.   MOLECULAR CELL

Frequency-modulated nuclear localization bursts coordinate gene regulation

(2008) Long Cai et al.   NATURE

A complex barcode underlies the heterogeneous response of p53 to stress

(2008) Fiona Murray-Zmijewski et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Transcriptional control of human p53-regulated genes

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

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY