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OHMI-ontology / OHMI

OHMI: The Ontology of Host-Microbiome Interactions
https://obofoundry.org/ontology/ohmi.html
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The parent class of 'host-microbiome interaction' #3

Open yongqunh opened 4 years ago

yongqunh commented 4 years ago

In OHMI, we currently assert 'host-microbiome interaction' as a subclass of GO 'interaction with host'. However, this assertion is not a good fit because the term 'host-microbiome interaction' focuses on two organisms rather than a host organism and a collection of microorganisms which is needed for the host-microbiome interaction. I have submitted a track issue to GO: https://github.com/geneontology/go-ontology/issues/17812

Another option is to assert it as a subclass of INO:interaction.

zhengj2007 commented 4 years ago

It's fine for me to define it as the subClass of INO:interaction.

The definition of INO:interaction is too general: Interaction is a processual entity that has two or more participants (i.e., interactors) that have an effect upon one another.

Can it be defined more specific? such as: A process that has two or more material entities (i.e., interactors) participated in and have an effect upon one another.

yongqunh commented 4 years ago

Hi Jie,

Thanks for your comment. I think INO:interaction wants to be general so that the interactor can be more than a material entity. For example, a process (like infection) can also be an interactor. However, we may generate one subclass under it called biological interaction and then make it to be a better parent class of OHMI:HMI. What do you think?

Best, Oliver

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It's fine for me to define it as the subClass of INO:interaction.

The definition of INO:interaction is too general: Interaction is a processual entity that has two or more participants (i.e., interactors) that have an effect upon one another.

Can it be defined more specific? such as: A process that has two or more material entities (i.e., interactors) participated in and have an effect upon one another.

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zhengj2007 commented 4 years ago

@yongqunh Not sure about it. Please check IDO:infection http://purl.obolibrary.org/obo/IDO_0000586 which is a material entity.