Do the gene sets of parent terms contains the gene sets of child terms in go ontology?
What's the relationship of the gene set of the parent terms and the child term? For example, in the CC, term GO:0005737 is cytoplasm, and term GO: 0005739 is mitochondria. Do the genes of cytoplasm contains the genes of mitochondria? Is there any tools to let me get all genes in nuclear or cytoplasm?
• 1,640 views
•
link
updated
by
EagleEye
•
written
by
xidianbill •
•
written
by
xidianbill •
2 answers
The Gene Ontology is a directed graph so terms inherit from all their children. For example, cytoplasm would inherit not just from "mitochondrion" but also from all other terms under "intracellular membrane-bounded organelle".
To get genes annotated with a GO term, you can use the go-perl modules or the R Bioconductor package topGO.
• 0 views
•
link
written
by
Jean-Karim Heriche
Log in to answer this question.
More posts like this
-
selection of Gene Ontology terms manually
written by harish •
-
Genes With List of Go terms
written by cthangav •
-
GO slimming to specific parent term
written by jmah •
-
GO Analysis Clarification using GOstats using hyperGTest()
written by brismiller •
-
Gene Ontology classification: Can we infer from term T that one of the child terms is also a correc…
written by Lorrit •
-
Download gene list associated with GO terms from DAVID
written by qwzhang0601
-
Difference between go enrichment and go semantic similarity
written by joram •
-
Tool: Annotation maps for Gene Ontology in Python: godb
written by Endre Bakken Stovner
-
How to convert between gene ontology file formats
written by dgimode •
-
TopGO: Select significant terms under a parent GO term
written by QVINTVS_FABIVS_MAXIMVS
