@@ -10,7 +10,7 @@ ChIP-seq for SUMO2 in synchronized WI-38 fibroblasts at four different cell cycl
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@@ -10,7 +10,7 @@ ChIP-seq for SUMO2 in synchronized WI-38 fibroblasts at four different cell cycl
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<summarymarkdown="span">What's the actual input data for the functional analyis?</summary>
<summarymarkdown="span">What's the actual input data for the functional analyis?</summary>
Input data for functional analysis are regions (peaks) showing significant changes in SUMO enrichment among cell cycle (CC) phases, classified in 4 profiles by profile clustering.
Input data for functional analysis are regions (peaks, bed files) showing significant changes in SUMO enrichment among cell cycle (CC) phases, classified in 4 profiles by profile clustering.
ChIPseq analyis done using hg19.
ChIPseq analyis done using hg19.
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@@ -21,9 +21,7 @@ ChIPseq analyis done using hg19.
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@@ -21,9 +21,7 @@ ChIPseq analyis done using hg19.
* Go to http://great.stanford.edu/public/html/
* Go to http://great.stanford.edu/public/html/
* Choose test and backgroung regions
* Choose test and backgroung regions <details>
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<summarymarkdown="span">How how you chose the background regions?</summary>
<summarymarkdown="span">How how you chose the background regions?</summary>
Depends on your question: Do you want to compare the functional enrichment in comparison to any random region of the region (Whole genome) or, else, in comparison to a given subset of regions that may have a specific genomic context (e.g. all the SUMO peaks that change along the CC).
Depends on your question: Do you want to compare the functional enrichment in comparison to any random region of the region (Whole genome) or, else, in comparison to a given subset of regions that may have a specific genomic context (e.g. all the SUMO peaks that change along the CC).
