agriGO - single species analysis

Glycine max Singular Enrichment Analysis (SEA)

1. Select analysis tool:

Singular Enrichment Analysis (SEA)

Parametric Analysis of Gene Set Enrichment (PAGE)

searching for genes or GO terms

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. Input a gene list:


<allowed ID types in Glycine_max>
locus ID Wm82.a2.v1 (Phytozome v10)  (eg.Glyma.02G245900)
locus ID (Gramene Release 50)  (eg.GLYMA01G00300)
locus ID (PLAZA3.0)  (eg.GM06G42071)
Entry identifier (Uniprot 2016)  (eg.I1N4Z1)
locus ID v1.1 (Phytozome)  (eg.Glyma18g01781)
soybean genome loci ID (compute)  (eg.Glyma08g04170.1)
Affymetrix Genome Array (compute)  (eg.GmaAffx.91914.1.S1_x_at)
GenBank ID (compute)  (eg.ABQ65856.1)
DDBJ ID (compute)  (eg.BAD89860.1)
EMBL ID (compute)  (eg.CAW79236.1)
Swiss-Prot ID (compute)  (eg.DAPA)
Trembl ID (compute)  (eg.A7LHH1)
Refseq ID (compute)  (eg.YP_538755)
PDB ID (compute)  (eg.1ukp_D)
locus ID (DFIC)  (eg.TC423407)
locus ID Wm82.a4.v1 (Phytozome v13)  (eg.Glyma.09G204500)

3. Select reference:

Suggested backgrounds

Customized reference [ Example ]

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.

Glycine max Singular Enrichment Analysis (SEA)

1. Select analysis tool:

Singular Enrichment Analysis (SEA)

Parametric Analysis of Gene Set Enrichment (PAGE)

searching for genes or GO terms

2. Input a gene list:

3. Select reference:

4. Advanced options (optional):