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Enrichment analysis

• Click the filtered Feature filtered Filtered feature list data node
• Click Biological interpretation in the task menu 
• Click Enrichment analysis Gene set enrichment to perform GO enrichment analysis (Figure 1)
  
  

• Select the latest gene set from geneontology.org from from geneontology.org from the Gene set set database drop-down menu
• Click Finish 

A GO enrichment task node will be added to the pipeline (Figure 2).

•  Double-click the GO Gene set enrichment task node to open the task report (Figure 3)
  
  

The GO enrichment task report spreadsheet lists GO terms by ascending p-value with the most significant GO term at the top of the list. Also included are the enrichment score, the number of genes from that GO term in the list, and the number of genes from that GO term that are not in the list. 

To view the genes associated with each GO term, select  to open the exbtra extra details page. To view additional information about a GO term, click the blue gene set ID to open the linked geneontology.org entry in a new tab. 

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KEGG enrichment analysis identifies pathways that are over-represented in a gene list data node. 

• Click the filtered Feature filtered Filtered feature list data node
• Click Biological interpretation in the task menu 
• Click KEGG enrichment analysis Pathway enrichment 
• Click Finish in the configuration dialog to run KEGG analysis with the Homo sapiens KEGG database

A Pathway enrichment task node will be added to the pipeline (Figure 4).

• Double-click the Pathway enrichment task node to open the task report

The Pathway enrichment task report is similar to the Enrichment analysis task report (Figure 5). 

To view an interactive KEGG pathway map, click the pathway ID (Gene set column). 

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