Chris Grove

@sbello @dosumis I've gathered all the definitions of worm phenotype terms referring to 'ectopic', and I have some issues with the current definitions (I intend to change the definitions or...

Here's a list (likely not comprehensive) of 246 phenotype terms from the worm phenotype ontology that refer to life stages: https://www.dropbox.com/s/fq5zav2si71b3os/Life_stage_phenotypes.txt?dl=0 Some examples: WBPhenotype:0000035 | larval body morphology variant WBPhenotype:0000055...

We have the following branch in the C. elegans phenotype ontology: 'coiling variant' -coiler --'dorsal coiler' --'ventral coiler' -'coiling frequency variant' --'coiling frequency decreased' --'coiling frequency increased' in which cases...

Can the name and definition be changed to "decreased rate of %s"? Otherwise looks good.

@matentzn From PATO, 'decreased efficacy' (PATO:0015003) def: A decrease in the ability of a process to produce its output. Yes, I can add an example and more detail to the...

@pnrobinson Thanks! To be clear, the definition says decreased efficacy (i.e. decreased ability) not decreased output. I am trying to distinguish "abnormal process" from "defective process" as we have many...

Just to add: I had considered the PATO terms for "defective" but in one case it is simply a synonym of "abnormal" and in another it is a synonym of...

Just to update, here is current proposed pattern: ``` pattern_name: abnormallyDecreasedEfficacyOfBiologicalProcess pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns-dev/abnormallyDecreasedEfficacyOfBiologicalProcess.yaml description: "An abnormally decreased efficacy (reduced ability to produce output) of a biological process compared to controls....

A common phenotype in C. elegans is "dauer defective", in which case larval worms that would otherwise form dauer larva (a stress-resistant, long-lived, alternative larval stage induced by low food...

OK after some discussion with @matentzn here is a new iteration of the pattern with "deficiency" narrow synonym removed and an expanded description: ``` pattern_name: abnormallyDecreasedEfficacyOfBiologicalProcess pattern_iri: http://purl.obolibrary.org/obo/upheno/patterns-dev/abnormallyDecreasedEfficacyOfBiologicalProcess.yaml description: "An...