Comments (3)
matentzn
commented on June 18, 2024
Also: in the metadata, like in the examples above, it clearly says "normal" for about 11K records in the ZFIN dataset.. @ybradford as far as I remember, you told me that phenotype_fish data only contains abnormal records; how then do I interpret when the columns:
| Phenotype Keyword ID | Phenotype Keyword Name | Phenotype Tag |
|---|---|---|
| PATO:0002050 | normal amount | normal |
| PATO:0000461 | normal | normal |
All of these are currently mapped to abnormal phenotypes; what do they really mean?
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matentzn
commented on June 18, 2024
We need to start collecting normal phenotypes; make sure that we have patterns for normal phenotypes!
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matentzn
commented on June 18, 2024
@ybradford "Phenotype is not inherently abnormal"
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Related Issues (20)
- ZFIN uses obsolete GO:0044424 and GO:0044420 HOT 2
- Add abnormalBiologicalProcess back to external.txt HOT 1
- Test whether an obsoleted class gets re-introduced into ZP, so the obsoletion can be revoked
- unsatisfiable classes when merged into vertebrate.owl HOT 13
- Get all phenotypes that refer to Qualitative traits and inhere in BPs
- Gather example(s) for electrophysiology terms
- Add obofoundry topic to repo metadata HOT 1
- Uses of obsolete GO and ZFA terms HOT 1
- Odd ZFA term in data (ZFA:0005943)
- ZP:0008499 and ZP:0000998 have the same label HOT 1
- ZFIN migration to pre-composed ZP curation?
- Integration with NBO HOT 3
- Handle obsolete fillers in ZP (December 2022) HOT 2
- ZP:0144208 - "cone photoreceptor outer segment ZFA:0005945 morphology, abnormal"
- ZP:0101932 - "obsolete nucleosome positioning process quality, abnormal" HOT 4
- ZP:0019257 - "obsolete mitotic chromosome decondensation premature, abnormal" HOT 6
- ZP December release
- ZP:0101990, 'retinal pigmented epithelium disrupted obsolete chemical homeostasis within retina, abnormal'
- AHHHHHHnsats. HOT 2
- Retiring the NBO Phenotype branch HOT 2
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