Manually annotating Enrichment map clusters
1
0
Entering edit mode
3.0 years ago
minifoog ▴ 10

I am curious on how to go about annotating a cluster on an enrichment map. For example, below is a list of GO BP terms that are clustered together on my enrichment map.

GOBP_AUTOPHAGOSOME_MATURATION

GOBP_VACUOLAR_TRANSPORT

GOBP_VIRAL_BUDDING_VIA_HOST_ESCRT_COMPLEX

GOBP_UBIQUITIN_DEPENDENT_PROTEIN_CATABOLIC_PROCESS_VIA_THE_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_VIRION_ASSEMBLY

GOBP_MULTIVESICULAR_BODY_ORGANIZATION

GOBP_LYSOSOMAL_TRANSPORT

GOBP_VIRAL_BUDDING

GOBP_ENDOSOME_TRANSPORT_VIA_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_MITOPHAGY

GOBP_LATE_ENDOSOME_TO_VACUOLE_TRANSPORT_VIA_MULTIVESICULAR_BODY_SORTING_PATHWAY

GOBP_MACROAUTOPHAGY

GOBP_LATE_ENDOSOME_TO_VACUOLE_TRANSPORT

GOBP_NEGATIVE_REGULATION_OF_MACROAUTOPHAGY

GOBP_ENDOSOME_ORGANIZATION

GOBP_ORGANELLE_DISASSEMBLY

GOBP_ENDOSOME_TO_LYSOSOME_TRANSPORT

GOBP_VACUOLE_ORGANIZATION

GOBP_AUTOPHAGY_OF_MITOCHONDRION

What would be the best way to annotate a cluster? Also, how would you go about on finding a theme amongst biological processes? I am open to any tips and software.

Enrichmentmap Cytoscape GOBPTerms annotating • 804 views
ADD COMMENT
0
Entering edit mode
3.0 years ago
scooter ▴ 620

I'm not sure what kind of annotations you are looking for. EnrichmentMap has a companion app called AutoAnnotate that might do what you want...

-- scooter

ADD COMMENT

Login before adding your answer.

Traffic: 1723 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6