ZFIN / zebrafish-experimental-conditions-ontology

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"Deficiency" and "excess" terms requests #25

Open sabrinatoro opened 6 years ago

sabrinatoro commented 6 years ago

[This was originally part of case #9. However, this request is different from the one in case#9. So I am opening a new case for this. This request is becoming increasingly important as publications are accumulating requiring “Zn deficiency” and other "deficiencies" in ZECO]

Suggestion/request:

NTR1: modification of chemical composition Definition: condition in which levels of a chemical is altered relative to standard. Parent: experimental conditions (ZECO:0000104) Curation: this term and its children require a Chebi term Note: we might have to create this parent term in order to make it easier to add the curation constraint to add a Chebi term for this term. This cannot be under “chemical treatment” (the definition does not match)

NTR2: diet with modified chemical content Definition: Food content condition in which levels of a chemical are altered relative to standard diet. Parents: food content (ZECO:0000117) ; modification of chemical composition (NTR1)

NTR: diet with chemical deficiency Definition: Food content condition in which levels of a chemical are decreased relative to standard diet. Parent: diet with modified chemical content (NTR2) Note: this is similar to “nutrient decreased”

NTR: diet with chemical excess Definition: Food content condition in which levels of a chemical are increased relative to standard diet. Parent: diet with modified chemical content (NTR2) Note: this is similar to “nutrient increased”

NTR3: water quality with modified chemical content Definition: Water quality condition in which levels of a chemical are altered relative to standard. Parents: water quality (ZECO:0000182) ; modification of chemical composition (NTR1) Note: some of the terms under water quality could be brought under this term… maybe this could be taken care of later?

NTR: water with chemical deficiency Definition: water quality condition in which levels of a chemical are decreased relative to standard. Parent: water quality with modified chemical content (NTR3)

NTR: water with chemical excess Definition: water quality content condition in which levels of a chemical are increased relative to standard. Parent: water quality with modified chemical content (NTR3)

sabrinatoro commented 6 years ago

We could also bring the "chemicals together". The definition of the current term "chemical treatment" would represent chemicals added to environment, diet, injection. (i.e. addition of a chemical not existing in the standard) The proposed term "modification of chemical composition" would represent a change in the levels of chemicals existing in the standard.