FinnGen 3 proteomics data

The plan in FG3 is to analyze ~10,000 EDTA plasma samples that will mainly come from the disease working groups (aka Task Forces) or other sample collections that fall under FG3's scientific plan.

For this part, the Olink Explore HT that screens for ~5,300 proteins was selected and the samples will be shipped to the service provider (Azenta/GeneWiz) over 3 batches. The first two batches will contain ~2,500 samples and the third one ~5,000.

Batch 1:

In the first batch, the following sample selections were included:

• Healthy controls (blood donors), n=1,608

• Kidney Task Force: 261 CKD individuals were selected based on whether they had a sustained >=25% decline in eGFR. A minimum of 4 eGFR time points (~4 weeks apart) was required to identify these individuals. The baseline measure is composed of two measures, and eGFR decline is defined by a sustained 25% eGFR decline for at least 2 time points.

• For additional information please contact the Kidney TF co-leads:

  • Rodos Rodosthenous ([e-mail])

  • Karol Estrada ([e-mail])

• IBD Task Force: a total of 268 individuals were selected based on the use of IBD-related medication and selecting samples 0-5 years before diagnosis (n=214). A small number of IBD patients with existing paired before-after diagnosis samples was also included (n=27x2).

• For additional info, please contact the IBD TF co-leads:

  • Elisa Lahtela ([e-mail])

  • Jukka Koskela ([e-mail])

  • Mark Daly ([e-mail])

Data availability:

The raw data are currently available in Sandbox library-red/omics/proteomics/olink_genewiz_batch1_31_12_24/

***Please note that the data provided at this point is original data from our Olink provider GeneWiz without any additional quality control applied. It is not recommended to use the data without first performing appropriate quality control as needed for your analysis.