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Figure 1 | Genome Biology

Figure 1

From: Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis

Figure 1

Overview of the method used to reveal pathways deregulated in gene expression signatures. (a) Information was retrieved and integrated from four sources: TRANSPATH, TRANSFAC, UniGene, and the UCSC Genome Browser. (b) Putative TF binding sites in promoter regions were identified using MotifScanner. Enrichment of putative transcription binding sites among genes in a gene signature was assessed using a binomial test. Each pathway was scored in terms of an enrichment for putative binding sites for the TFs mediating the pathway. The significance of a pathway's relevance for a gene signature was assessed by using randomly selected gene sets from the genome.

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Genome Biology

ISSN: 1474-760X

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