WormBase-Caltech Weekly Calls

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September 12, 2019

Update on SVM pipeline

Clarifying definitions of "defective" and "deficient" for phenotypes

  • WB phenotype ontology has many "variant/abnormal" terms and distinct subclass terms for "defective/deficient"
  • Have tried to create a logical definition pattern for these terms, but the vagueness of the meaning of "defective" and how it is distinct from "abnormal" has stalled the process
  • What do we mean exactly by "defective" and how, specifically, is this distinct from "abnormal"?
  • Definitions include meanings or words:
    • "aberrant"
    • "defective"
    • "defect"
    • "defects"
    • "deficiency"
    • "disrupted"
    • "ineffective"
    • "perturbation that disrupts"
    • "variations in the ability"
    • failure to execute the characteristic response = abnormal?
    • abnormal
    • abnormality leading to specific outcomes
    • fail to exhibit the same taxis behavior = abnormal?
    • failure
    • failure OR delayed
    • failure/abnormal