Usage Instructions

Step 1: Choose an organism

Select one of the following organisms supported by GOrilla:

Step 2: Choose running mode

Step 3: Paste a ranked list of gene/protein names

Paste here a list of gene (or protein) names. For example:

CHMP5

RAB6C

ZNF394

FAM3B

NM_003174

etc...

 

Remarks:

* Each line should contain one gene name.

* The preferred format is gene symbol. Other supported formats are: gene and protein RefSeq, Uniprot, Unigene and Ensembl. Use WebGestalt for conversion from other identifier formats.

* Notice that the processed list of genes may contain less genes than what you entered. This is because not all genes have a GO record.

Step 4: Choose Ontology

 Select one of the following ontology:

  1. Biological process

  2. Molecular function

  3. Cellular component

Parameters

P-value threshold - Only GO terms with a p-value better than this threshold are reported.

Note that this p-value does not include the multiple hypothesis correction on the number of tested GO terms. To correct for this the p-value should be multiplied by the number of GO terms used as reported in the results page.

Output results in Microsoft Excel format - If checked, an Excel file with the results will also be generated.

Output unresolved and duplicate genes - If checked, additional files with the lists of all genes GOrilla did not recognize and genes which appeared in the list more than once will be generated.

Run GOrilla in fast mode - If checked GOrilla will only attempt to put the threshold separating between the target set and the background set in the top 10% of your list (or, at least 1,000 genes).
This parameter is only relevant to the case of one ranked list and not two lists of genes.

Output

The output of the software consists of a color-coded trimmed DAG of all significantly enriched GO terms.  Clicking on a node in the color-coded DAG will show the enrichment p-value, the genes related to this GO term and a link for more information on this GO term. 

Output example:

 

Output example