monarch-initiative / mondo

Mondo Disease Ontology
http://obofoundry.org/ontology/mondo
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Restructuring poisoning branch #3809

Open laurenechan opened 3 years ago

laurenechan commented 3 years ago

The poisoning/intoxication branch may require additional structuring/hierarchy, previously discussed on #3002

I will be evaluating some review articles to assess if there are common hierarchies that are used within this area that we can utilize for this branch.

laurenechan commented 2 years ago

Some thoughts on this to start with... https://ask.usda.gov/s/article/What-is-the-difference-between-foodborne-illness-and-food-poisoning From a food perspective: Food poisoning/intoxication is considered the same thing, based on an exposure to a food that has toxins in it that were produced by some microbe on the food. The microbe does not cause the infection.

Foodborne illness: an infection caused by a microbe ingested on food.

From a general perspective: https://www.britannica.com/science/poison-biochemistry

It seems as though poisoning and intoxication are largely considered synonymous when describing disease states or phenotypes, e.g. alcohol poisoning and alcohol intoxication. There may be some separation between a poison, toxin, and venom, with poison being a general parent class of natural and synthetic substances that cause adverse reactions in the target organism leading to some kind of cell death or dysfunction. Toxins are naturally produced (e.g. from a microbe) poisonous/toxic substances, and venoms are toxins that are introduced to the organism by a sting or bite. However, even with this separation, the resulting nomenclature still seems to be poisoning/intoxication regardless. Should we move forward with organization that is more based on the onset of presentation or timing of exposure, like acute and chronic poisoning/intoxication?

nicolevasilevsky commented 2 years ago

@pnrobinson do you have any comments on Lauren's suggestion?

pnrobinson commented 2 years ago

@laurenechan 's suggestion seems great! Why don't we test it out with a small domain and if we like it extend to the remaining diseases?

nicolevasilevsky commented 2 years ago

@laurenechan do you mind doing Peter's proposed action item?

laurenechan commented 2 years ago

Hi @nicolevasilevsky , yes I can start working on this!

nicolevasilevsky commented 2 years ago

Hi @laurenechan would you like to work on this or I can reassign someone else, as I know you have a lot on your plate :)

laurenechan commented 2 years ago

Hi! If anyone else can take this on, that would be awesome! Happy to help contribute some thoughts, but likely cannot take this on as a project on my own at this time. Thanks @nicolevasilevsky !

nicolevasilevsky commented 2 years ago

Sure thing, I totally understand. :)

nicolevasilevsky commented 1 year ago

Maybe the new to-be-hired curator could work on this.