p53 transcriptional programs in B cells upon exposure to genotoxic stress in vivo

Computational analysis of next-generation sequencing data

Claudia Tonelli, Bruno Amati, Marco J. Morelli

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

The transcriptional programs activated by p53 in B cells in vivo following exposure to ionizing radiation were studied through the integrated analysis of various types of next-generation sequencing data: genome-wide profiling of p53 binding sites, mapping of histone marks and open chromatin regions and quantification of gene expression. Moreover, the binding of p53 was associated to a series of specific motifs on the DNA, which were directly inferred from the data. Here, we describe in detail the computational analysis of the datasets associated with our study (Tonelli et al., Oncotarget 6 (2015), 24611-26), deposited in the GEO archive (accession code GSE71180), and we provide the R scripts needed to generated the figures of the paper.

Original languageEnglish
Pages (from-to)29-31
Number of pages3
JournalGenomics Data
Volume7
DOIs
Publication statusPublished - Mar 1 2016

Fingerprint

Histone Code
Nucleotide Motifs
Ionizing radiation
Ionizing Radiation
Gene expression
Histones
DNA Damage
Chromatin
B-Lymphocytes
Genes
Binding Sites
Cells
Genome
Gene Expression
DNA
Datasets

Keywords

  • ChIP-Seq
  • Genotoxic stress
  • Motif analysis
  • p53
  • RNA-Seq

ASJC Scopus subject areas

  • Molecular Medicine
  • Biochemistry
  • Biotechnology
  • Genetics

Cite this

p53 transcriptional programs in B cells upon exposure to genotoxic stress in vivo : Computational analysis of next-generation sequencing data. / Tonelli, Claudia; Amati, Bruno; Morelli, Marco J.

In: Genomics Data, Vol. 7, 01.03.2016, p. 29-31.

Research output: Contribution to journalArticle

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