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Genomic CDM published on JMIR (IF 4.67)

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#1

Genomic CDM got published on JMIR (IF 4.67) 26 Mar. 2019.
Please enjoy this hot and new article just released: http://dx.doi.org/10.2196/13249
Congrats @1118, @SCYou and @Yurang_Park !
Especially thanks to @Christian_Reich and @clairblacketer actively collaborating all the process in the study as co-authors.
The resulting software GeneProfiler is availble at: https://github.com/ABMI/GeneProfiler . Will it be better moving it into https://github.com/OHDSI/GeneProfiler ?

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#2

Awesome! Congrats.

1 Like
#3

This is so great. And so needed. I wouldn’t be surprised if OHDSI genomics leapfrogs capabilities of Global Alliance for Genomics in Health (GA4GH, ‘Global Alliance’) and other repositories going for the same end state, solely due to the superior community governance and flywheel of progress happening here!

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#4

This is a great contribution!

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#5

Congratulations! Looking forward to adopting it to OHDSI CDM.

1 Like
#6

Has anyone implemented the G-CDM so far? If so, in what version of OMOP?

For the co-authors including @SCYou and @Yurang_Park, is there a G-CDM roadmap. In the larger picture can @Christian_Reich or @clairblacketer say if there has been any thought given to integrating the G-CDM with ATLAS.

Alternatively, are folks using other approaches to track variant occurrences of target genes in OMOP geospatially and over time?

Thank you and be well.

#7

There is recently some interest from a team at NCI (at NIH) into G-CDM. They like clinical data in CDM but the real deal for them is genomic data. I am too interested in any update since 2 years ago when it was first introduced? Is AUSOM still using it and adding data to it? Any other adopters?

Is the UKBiobank project conversion to OMOP also include genomic data into some G-CDM or unorthodox tables? @gregk

#8

Hi, Vojtech
I’m Seojeong of Ajou University. It’s gorgeous to hear that NCI team has interest with G-CDM.
But, recently, the Genomic Working Group as one of subgroups in the Oncology WG has been working on making concept_id for genomic data in order to store the variants information into the Measurement table. It would be great if you or team at NCI come to Genomic WG and join our discussion.

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