agriGO - analysis tool

1. Select analysis tool:

Singular Enrichment Analysis (SEA)

Parametric Analysis of Gene Set Enrichment (PAGE)

Transfer IDs by BLAST (BLAST4ID)

Cross comparison of SEA (SEACOMPARE)

Customized comparison

Reduce + Visual Gene Ontology (REVIGO)

SEA is a traditional and widely used method. User only needs to prepare a list of gene/probe names, and enrichment GO terms will be found out after statistical test from pre-calculated background or customized one.

2. Select the species:

Supported species
Customized annotation

Query list [ Example ]

<allowed ID types in Arabidopsis>
TAIR locus ID: AT3G34250
TAIR alias ID: ACL3
TAIR transcript ID: AT3G34250.1
GenBank ID: AAP50233.1
DDBJ ID: BAB11514.1
EMBL ID: CAA18188.1
UniProt ID: Q9LYA9
RefSeq Peptide ID: NP_564434
PDB ID: 2zsi_B
Affymetrix ATH1 Genome Array (GPL198): 267636_at
Affymetrix 8K Genome Array (GPL71): 16876_at
Operon Array v3, Meyerowitz (GPL2810): A021028_01
Agilent 3 Oligo Microarray (GPL2871): A_84_P69894
OAR27K array, Yale University (GPL988): 3243009

No your ID? Try BLAST4ID

3. Select reference:

Suggested backgrounds
Customized reference [ Example ]
Customized annotated reference

For each species, suggested backgrounds are provided. These backgrounds are all pre-computated, and are available to download. To those species without a relatively completed GO profile, backgrounds from near organisms are used as suggestion. If you don't like these backgrounds, then you may submit your customized with/without GO annotation.

1. Select analysis tool:

Singular Enrichment Analysis (SEA)

Parametric Analysis of Gene Set Enrichment (PAGE)

Transfer IDs by BLAST (BLAST4ID)

Cross comparison of SEA (SEACOMPARE)

Customized comparison

Reduce + Visual Gene Ontology (REVIGO)

2. Select the species:

3. Select reference:

4. Advanced options (optional):