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Fig. 6 | BMC Bioinformatics

Fig. 6

From: Reusable, extensible, and modifiable R scripts and Kepler workflows for comprehensive single set ChIP-seq analysis

Fig. 6

More outputs from the full pipelines and individual components. All outputs are produced from all full pipelines (except the one starting with only peak data), appropriate individual workflows, and Kepler-independent R scripts (see Table 2). Genes possessing a peak in the proximal promoter are made into a list with an associated score equal to score of maximum scoring peak in the proximal promoter. This list is the input into this analysis. a Partial gene ontology output for GATA1 dataset. Top four gene ontology categories are shown. b Partial GATA1 ChIP-seq pathway analysis results. Top four pathways are shown. c Porphyrin pathway (hsa00860) image generated by workflow. Image is truncated for presentation clarity. Red color indicates a gene with a peak in the proximal promoter (see IMPLEMENTATION AND RESULTS for details). Genes without any color coding did not have peaks in their promoters. Note that this pathway is strongly implicated in GATA1 function (e.g., [43])

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BMC Bioinformatics

ISSN: 1471-2105

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