Expansion Area 5 proteomics data

The data were generated as part of the FinnGen 2 Expansion Area 5 (EA5) pilot. For the analysis, we used Olink Explore 3072 and SomaScan 7K platforms.

Olink

Olink batches 1, 2, and 3

• Total number of samples is 1,990 and it contains the data and analysis of the Olink batches 1, 2 and 3.

• The raw data:

  • finngen/library-red/EA5/proteomics/olink/second_batch/

• pqtl, finemap and autoreporting resulst are at gs://finngen-production-library-green/omics/proteomics/release_2023_10_11/

Olink batch 1 and 2

• Total number of samples is 1,534 and it contains the data and analysis from the batches 1 (n=813) and 2 (n=721).

• After QC and ID mapping the number of individuals in the analysis is 1,243.

• Raw proteomics data of batch 2 and combined batch 1+2:

  • finngen/library-red/EA5/proteomics/olink/second_batch/

• pQTL and finemapping results:

  • library-green/omics/proteomics/release_2023_08_08/data/Olink/Finemap/

  • library-green/omics/proteomics/release_2023_08_08/data/Olink/pQTL/

• Colocalization results:

• gs://finngen-production-library-green/finngen_R11/finngen_R11_analysis_data/colocalization/data/fg_r11_Olink_batch1_and_2.txt.gz

• Explanation of the result columns can be found from ​Olink data

SomaScan

• Total number of samples analyzed with SomaScan is 1,000 individuals. These are the same individuals from which metabolomics data was also generated.

• Raw data:

  • library-red/EA5/proteomics/soma/second_batch/QCd/SOMA_batch_1_2_QC_all_v2.txt

• pQTL and finemapping results:

  • library-green/omics/proteomics/release_2023_08_08/data/Somascan/Finemap/

  • library-green/omics/proteomics/release_2023_08_08/data/Somascan/pQTL/

• Colocalization results:

  • library-green/finngen_R11/finngen_R11_analysis_data/colocalization/data/fg_r11_Soma_v2.txt.gz

• Readme:

  • gs://finngen-production-library-green/omics/proteomics/release_2023_08_08/readme.txt

Link to explanation of result file SomaScan data