#719 change to existing terms

[Janos Demeter]

Hi,

I have suggestions for "OBI:0000435" - "genotyping assay" term and some of the terms under it.

"Genotyping assay" has synonyms that include snp, which is limiting and confusing, so I'd remove those synonyms. These synonyms are confusing because this term has the child term arrayCGH, which is definitely not suited to detect snps.

My other suggestion is to move the term "comparative genomic hybridization by array assay" under "genotyping by array assay" since it describes one of the techniques that do "genotyping by array assay".

I also have a question: it is somewhat unclear to me what the difference is between the terms "genotyping assay" vs. "DNA sequence variation detection"? Can these terms be combined?

Thanks,
Janos

[jzheng]

Thanks for your comments.

The tracker will be discussed on Nov 17 OBI developers' call (next Monday). The call will start at 12:00 PM EST.

The call in information can be found on the page:
http://obi-ontology.org/page/Conference_call_connection_details

Welcome you to join the call for the discussion.

[Philippe Rocca-Serra]

Hi Janos

Thanks for reporting these issues.
you are right about the synonyms for genotyping assay in OBI as it stands. These synonyms were added before the addition of children classes. SNP genotyping should definitely be removed at that level.

When it comes the fusing the 2 classes 'genotyping' and 'DNA sequence variation detection' , this may be a valid call.

best

Philippe

[Janos Demeter]

Hi Philippe,

Does that mean my suggestions will be accepted? This is the first time I submitted to obi, I am not sure about the process.

Thanks,
Janos

[jzheng]

related to #720 NTRs
https://sourceforge.net/p/obi/obi-terms/720/