obophenotype / obophenotype/uberon
untangle forebrain bundles
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Description
vis @ChrisOchs see https://github.com/obophenotype/uberon/issues/1277#issuecomment-253952186
There are many structures called forebrain bundles (lateral, basal, medial) in many species. We need to untangle synonymy vs homology vs same structure/connections etc
cc @cerivs @mellybelly @ANiknejad
reptiles/birds
There is also a lateral/basal forebrain bundle in reptiles and birds http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2465
teleost
ZFA:0007012 ! lateral forebrain bundle
(no def)
lungfish
There is also a structure with this name in lungfish
xenopus
XAO:0004559 ! lateral forebrain bundle A fiber system that is formed by pallial and subpallial components that join in the caudal telencephalon. It proceeds caudally, piercing the optic tract, to the ventral part of the hypothalamus
lamprey
https://sites.google.com/site/subcorticalbrain/home/lamprey-lateral-forebrain-bundle
mammals
Exists in mammals,
UBERON:0001910 ! medial forebrain bundle
See also BAMS https://bams2.bams1.org/brain_parts/Lateral-forebrain-bundle-system-2/
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with the linked discussion in UBERON issue 1277 and review the species-specific sections here, including UBERON:0001910, ZFA:0007012, and XAO:0004559. Compare the cited BAMS and anatomical references to determine which forebrain bundle concepts are synonymous, homologous, or distinct; done means the relationships and definitions are resolved across the listed species.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Refactor
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100