is a Data Source.
It is part of the BER collection.
GoMapMan is a manually curated, open database that integrates, consolidates, and visualizes plant gene functional annotations organized within the MapMan ontology, a hierarchical scheme of functional "bins" tailored to plant biology. It maps genes to MapMan bins across several crop and model plant species, including Arabidopsis, potato, and tomato, and harmonizes annotations drawn from multiple sources into a single consolidated, expert-reviewed resource. The portal provides interactive browsing and visualization of the ontology and gene-to-bin mappings, and its curated mappings are widely reused to annotate genes in plant systems-biology and transcriptomics analyses. It is an upstream source for the Stress Knowledge Map (SKM).
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| gomapman.portal | GoMapMan Web Portal | gomapman.nib.si | GraphicalInterface | http | Web portal for browsing, searching, a... |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| skm.pss.live.sbgn | PSS Live Download (SBGN-ML) | sbgn (3.1 MB) | GraphProduct | sbgnml | had primary source | Current PSS model in Systems Biology ... |
| skm.pss.live.sbml | PSS Live Download (SBML) | sbml (535.7 KB) | GraphProduct | sbml | had primary source | Current PSS model in Systems Biology ... |
| skm.pss.live.dot | PSS Download (DOT, v1.0.0) | graphviz (396.5 KB) | GraphProduct | dot | had primary source | PSS model (v1.0.0, October 2023) in D... |
| skm.pss.live.sif.original.graph | PSS Live Download, original (SIF/LGL) | sif-edges (157.9 KB) | GraphProduct | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.original.annotations | PSS Live Download, original (SIF/LGL), node annotations | sif-nodes (392.5 KB) | GraphProduct | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.projection.graph | PSS Live Download, projection (SIF/LGL) | rxn-edges (247.7 KB) | GraphProduct | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.projection.annotations | PSS Live Download, projection (SIF/LGL), node annotations | rxn-nodes (159.8 KB) | GraphProduct | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.dinar.graph | PSS Live Download, DiNAR (SIF/LGL) | dinar-edges (353.3 KB) | GraphProduct | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.boolnet.graph | PSS Live Downloads (BoolNet) | boolnet (52.0 KB) | GraphProduct | boolnet | had primary source | Current PSS model in Boolean network ... |
| skm.pss.live.boolnet.annotations | PSS Live Downloads (BoolNet), node annotations | boolnet-annot (69.3 KB) | GraphProduct | boolnet | had primary source | Current PSS model in Boolean network ... |
| skm.ckn.v2.graph | CKN v2 (June 2023) | edges (2.6 MB) | GraphProduct | sif | had primary source | Comprehensive Knowledge Network v2 in... |
| skm.ckn.v2.annotations | CKN v2 (June 2023), node annotations | nodes (865.0 KB) | GraphProduct | sif | had primary source | Comprehensive Knowledge Network v2 in... |
| skm.ckn.v1.graph | CKN v1 (June 2018) | edges (311.2 KB) | GraphProduct | sif | had primary source | Comprehensive Knowledge Network v1 in... |
| skm.ckn.v1.annotations | CKN v1 (June 2018), node annotations | nodes (685.9 KB) | GraphProduct | sif | had primary source | Comprehensive Knowledge Network v1 in... |
GoMapMan is a manually curated database developed at the National Institute of Biology (NIB) in Slovenia that integrates, consolidates, and visualizes plant gene functional annotations within the MapMan ontology. The MapMan ontology organizes gene functions into a hierarchy of plant-oriented functional “bins,” and GoMapMan assigns genes to these bins for a range of crop and model plant species, including Arabidopsis, potato, and tomato. By bringing together annotations from multiple upstream sources and subjecting them to expert curation, GoMapMan produces a harmonized, high-quality set of gene-to-function mappings that can be browsed and visualized interactively through its web portal. These curated mappings are reused to annotate genes in plant systems-biology and transcriptomics workflows, and GoMapMan serves as an upstream source for the Stress Knowledge Map (SKM).
Created: June 18, 2026 | Last modified: June 18, 2026