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Detecting differential binding of transcription factors with ChIP-seq
● Data Source:
BioConductor
● Keywords: package
● Alias: DBChIP-package
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Detecting differential binding of transcription factors with ChIP-seq
● Data Source:
BioConductor
● Keywords:
● Alias: DBChIP
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20 images
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This data set contains parts of ChIP-seq data of transcription factor PHA-4/FOXA in C.elegans. ChIP and control data and identified binding sites in chromosome I with position < 0.9M bp are included.
● Data Source:
BioConductor
● Keywords:
● Alias: PHA4
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Count number of reads around each binding site
● Data Source:
BioConductor
● Keywords:
● Alias: get.site.count
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Assemble data for further analysis.
● Data Source:
BioConductor
● Keywords: load.data
● Alias: load.data
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Plot the coverage profile of differentially bound peaks
● Data Source:
BioConductor
● Keywords:
● Alias: plotPeak
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Process the list of binding sites into an internal format
● Data Source:
BioConductor
● Keywords:
● Alias: read.binding.site.list
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Report most significant peaks
● Data Source:
BioConductor
● Keywords:
● Alias: report.peak
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Cluster close-by sites into consensus sites through agglomerative (bottom-up) hierarchical clustering.
● Data Source:
BioConductor
● Keywords:
● Alias: site.merge
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A null hypothesis of non-differential binding is tested at each consensus site.
● Data Source:
BioConductor
● Keywords:
● Alias: test.diff.binding
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providing 
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