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

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 I…

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

Thanks so much for the information @mattk

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

Hi @mattk @bmbrown317 thank you for your awnser. I checked the resource of the paper from keatons, together with the metadata IDs provided at the Fox Insight PD Microbiome (PDMB) cohort, but I couldn’t locate the information of 32 control IDs. These are the following: 17 23 31 50 55 67 80 92 …

Hi Albert, Thank you for your question. When searching these IDs against Stagaman Survey data (2024) indeed 22 of these IDs have missing values for the survey data and 10 IDs are not present in the survey data. Is this consistent with what you are receiving on your end? Best, Matt

Hi Albert and Matt, I am also missing the exact entries. I presume the data for these controls are just unavailable. However, if we can find the missing data then that’d be amazing. The way I incorporate the demographic data eliminates some samples so I had not noticed until now. Here’s hoping for …

Hi @bmbrown317 and @Albert , Thank you for bringing this to my attention. I’ll look into these missing data and get back to the group. Best, Matt

Hi All, upon further inspection of the demographic data, it looks like there’s quite a bit of information mislabeled, missing, and duplicate entries. When I convert the data into a table and filter for PD case, I found numerical values instead of the usual FOX_###### ID used for PD Cases: (this is c…

Thank you for the note @bmbrown317 . I’m currently auditing the data and will get back to you on this. I do know that when Keaton analyzed the data, he noted that several participants that were labeled as “controls” when downloading the microbiome data were indeed PD cases according to the surveys. I…

Hi Matt, Any update on this issue? Looking forward to hearing from you. Thanks!

Fox Insight PD Microbiome (PDMB) Metadata & Resources

Accessing and Understanding Data

bmbrown317 January 22, 2026, 1:57pm 20

Hi Matt,

Any movement on the final approval for the report?

Thanks,

Brittani

Navigating Fox Insight Parkinson's Disease Microbiome (PDMB) Data

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Fox Insight PD Microbiome (PDMB) Metadata & Resources

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