developmental relations for vertebra, sclerotome

[mellybelly]

Currently in uberon (ext) there isn't good developmental continuity between the developing somite and the eventual vertabra at each individual somitic level. Also no relations to cell types.

In EHDAA2 we have:
vertebra C6 cartilage condensation develops_from
vertebra C6 pre-cartilage condensation develops_from
sclerotome 10 develops_from
somite 10

no adult here, but vertebral element C6 should develops_from vertebra C6 cartilage condensation
(neverminding business about whether or not the bone develops from cartilage, it is really a replaced_by)

in uberon,
vertebral element develops_from sclerotome develops_from somite
but not at the level of individual somites/vertebra 1, 2, 3 etc.

however,
'cervical vertebra' subclass of vertebra subclass of vertebral element
'cervical vertebra' develops_from 'cervical vertebra cartilage condensation' develops_from 'cervical vertebra pre-cartilage condensation'

There is a bit to clean up here in the ext file, because scelerotome somite 4 is part_of somite 4, but sclerotome also develops_from somite, and we should add the individual relations at each level.

That said, each vertebrate organism has a different number of vertebra, so how to represent some "canonical" vertebrate is a bit random - maybe just pick the longest one?

[cmungall]

Here is a graph of developmental contributions in EHDAA2 focused on somite 10:

(axis is a mistake?)

Is the schema here applicable across vertebrates?

We should definitely represent this for a generic somite.

I'm not sure it's a good idea to keep named serial homologs for vertebrae, somites in uberon. Perhaps keep vertebrae 1-7 for mammals? (not every mammal has 7, but there is an argument for keeping V1-7 as comparable across mammals)

More later...

[gouttegd]

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