Sequence data for the SOMAmers in the 1129 and 1310 panels of the Somalogic SOMAscan assay.
A data frame with the following columns.
Character, primary key. The identifier of the aptamer sequence identified using SELEX. It consists of an SomaLogic SeqId truncated at the underscore, to remove its sequence version number.
Character. The SomaLogic identifier for the protein target. For the 1129 and 1310 assays, there is a one-to-one correspondence between SeqId and SomaId, but in theory there is a many-to-one correspondence.
Character. The name of the protein target, from the protein standard supplier, sometimes with additional annotation by SomaLogic.
Character. The name of the protein target, from UniProt.
List of character vectors. UniProt IDs for the protein target.
List of character vectors. Entrez Gene IDs for the gene associated with protein target.
List of character vectors. Entrez Gene symbols for the gene associated with protein target.
Either "Human" or the name of a virus.
Should always be RFU, short for Relative Fluorescence Units.
The protein standard source for the original SELEX performed for the sequence. "Protein" refers to human protein; a few sequences used rat protein standard sources in the SELEX.
What dilution factor is used in plasma?
What dilution factor is used in serum?
Is the aptamer in the 1129 panel of the SOMAscan assay?
Is the aptamer in the 1310 panel of the SOMAscan assay?
The SOMAmers in the SomaLogic SOMAscan 1310 assay can be found in this PDF: http://www.somalogic.com/somalogic/media/Assets/PDFs/SSM-045-REV-1-SOMAscan-Assay-1-3k-Content.pdf Those from the 1129 assay can be found here: http://www.somalogic.com/somalogic/media/Assets/PDFs/SSM-011-Rev-11-SOMAscan-Assay-%28V1-1k%29-Content.pdf
AptamerId SomaId Target 1 4829-43 SL001737 STRATIFIN 2 3804-66 SL007403 DMP1 3 3814-63 SL007423 IL-11 RA 4 14156-33 SL004815 14-3-3 protein beta/alpha 5 7625-27 SL008071 14-3-3 protein theta 6 5858-6 SL005688 14-3-3 protein zeta/delta TargetFullName UniProt EntrezGeneID EntrezGeneSymbol 1 14-3-3 protein sigma P31947 2810 SFN 2 Dentin matrix acidic phosphoprotein 1 Q13316 1758 DMP1 3 Interleukin-11 receptor subunit alpha Q14626 3590 IL11RA 4 14-3-3 protein beta/alpha P31946 7529 YWHAB 5 14-3-3 protein theta P27348 10971 YWHAQ 6 14-3-3 protein zeta/delta P63104 7534 YWHAZ Organism Units Type PlasmaDilution SerumDilution IsIn1310Panel 1 Human RFU Protein 40 40 TRUE 2 Human RFU Protein 40 40 FALSE 3 Human RFU Protein 40 40 FALSE 4 Human RFU Protein 1 1 TRUE 5 Human RFU Protein 1 1 TRUE 6 Human RFU Protein 1 1 TRUE IsIn1129Panel 1 TRUE 2 TRUE 3 TRUE 4 FALSE 5 FALSE 6 FALSE
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