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Analyses of p53 Target Genes in the Human Genome by Bioinformatic and Microarray Approaches

Wang, L ; Wu, Q ; Qiu, P ; Mirza, A ; McGuirk, M ; Kirschmeier, P ; Greene, J R ; Wang, Y ; Pickett, C B ; Liu, S

The Journal of biological chemistry, 2001-11, Vol.276 (47), p.43604-43610 [Periódico revisado por pares]

United States: American Society for Biochemistry and Molecular Biology

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  • Título:
    Analyses of p53 Target Genes in the Human Genome by Bioinformatic and Microarray Approaches
  • Autor: Wang, L ; Wu, Q ; Qiu, P ; Mirza, A ; McGuirk, M ; Kirschmeier, P ; Greene, J R ; Wang, Y ; Pickett, C B ; Liu, S
  • Assuntos: Computational Biology ; DNA microarrays ; Gene Expression Profiling ; Genes, p53 ; Genome, Human ; Humans ; microarrays ; Oligonucleotide Array Sequence Analysis ; Regulatory Sequences, Nucleic Acid ; Reverse Transcriptase Polymerase Chain Reaction ; RNA, Messenger - genetics ; Tumor Cells, Cultured
  • É parte de: The Journal of biological chemistry, 2001-11, Vol.276 (47), p.43604-43610
  • Notas: ObjectType-Article-2
    SourceType-Scholarly Journals-1
    ObjectType-Feature-1
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  • Descrição: The completion of the human genome sequence (International Human Genome Sequence Consortium (2001) Nature 409, 860–921; Venter, J. C., et al. (2001) Science 291, 1304–1351) allows for new ways to analyze global cellular regulatory mechanisms. Here we present a strategy to identify genes regulated by specific transcription factors in the human genome, and apply it to p53. We first collected promoters or introns of all genes available using two methods: GenBank TM annotation and a computationally derived transcript map. 4,852 genes analyzed in this way contained at least one p53 consensus binding sequence. Of 13 genes randomly selected for mRNA analysis, 11 were shown to respond to p53 expression. Five promoters were analyzed by chromatin immunoprecipitation, which revealed that all were bound by p53 in vivo . We then analyzed 33,615 unique human genes on cDNA microarrays, identifying 1,501 genes that respond to p53 expression. A parameter was derived that demonstrates that in silico prediction greatly enriches for genes that are activated and repressed by p53 and assists us to suggest other signaling pathways that may be connected to p53. The methods shown here illustrate a novel approach to analysis of global gene regulatory network through the integration of human genomic sequence information and genome-wide gene expression analysis.
  • Editor: United States: American Society for Biochemistry and Molecular Biology
  • Idioma: Inglês
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