Fox Insight PD Microbiome (PDMB) Metadata & Resources

Accessing and Understanding Data
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Hi,

I recently reviewed the PD Microbiome metadata and I am curious if metadata exists for the Control group as well? If so, could you point me in the right direction? The FoxInsight.csv file I accessed seems to feature only participant data.

Thanks,
Brittani

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Hi @bmbrown317, you may want to glance at the publication data from Stagaman et al. (2024) located in Fox Den > Resources > Recent Publications > Stagaman Survey data (2024)

This has a linkage between case/control status and IDs. I hope this helps!

Matt

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Thanks @bmbrown317 and @mattk ! I was actually planning on posting about this resource tomorrow, so going to instead add onto this thread a bit.

Happy to report that thanks to work from @keatons and @mattk, we’ve been able to make additional metadata, data, and documentation available for the Fox Insight PD Microbiome (PDMB) cohort. This includes the following:

  1. KEGG Orthology Annotations
  2. Operational Taxonomic Unit Annotations
  3. Operational Taxonomic Assignment Annotations
  4. Survey data from @keatons’s paper, titled “Oral and gut microbiome profiles in people with early idiopathic Parkinson’s disease,” which can be found here: link.

All of these are hosted on Fox DEN, a research tool which investigators can use to explore, download and apply statistical models on aggregated data collected for the Fox Insight online clinical study.

The PD Microbiome resources can specifically be found here in the resources section of the platform (login required): link.

Please feel free to reach out with any questions and @bmbrown317 keep us posted about your work – I’m sure others on here would like to learn more as it progresses!

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Thanks so much for the information @mattk

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Thanks so much, @jgottesman for the updates. I already retrieved the KEGG Ortho annotations and OTUs. I just needed to obtain additional survey data. Looking forward to sharing my work-- perhaps a publication even–later this year.

Best regards,
Brittani

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