Sequence data for the Somalogic SOMAscan assay

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Description

Sequence data for the SOMAmers in the 1129 and 1310 panels of the Somalogic SOMAscan assay.

Format

A data frame with the following columns.

AptamerId

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.

SomaId

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.

Target

Character. The name of the protein target, from the protein standard supplier, sometimes with additional annotation by SomaLogic.

TargetFullName

Character. The name of the protein target, from UniProt.

UniProt

List of character vectors. UniProt IDs for the protein target.

EntrezGeneID

List of character vectors. Entrez Gene IDs for the gene associated with protein target.

EntrezGeneSymbol

List of character vectors. Entrez Gene symbols for the gene associated with protein target.

Organism

Either "Human" or the name of a virus.

Units

Should always be RFU, short for Relative Fluorescence Units.

Type

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.

PlasmaDilution

What dilution factor is used in plasma?

SerumDilution

What dilution factor is used in serum?

IsIn1129Panel

Is the aptamer in the 1129 panel of the SOMAscan assay?

IsIn1310Panel

Is the aptamer in the 1310 panel of the SOMAscan assay?

References

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

Examples

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