Olink Mapping

Olink Mapping Dataset

This dataset provides a mapping of Olink Explore and Target proteins to their corresponding genomic coordinates and gene identifiers. The data is derived from Olink assay data and mapped using BioMart.

Data Generation Summary

The mapping was generated using the following steps:

1. Input Data: Raw data was sourced from Olink Explore and Target assay files (CSV and Excel formats).
2. Formatting: UniProt IDs and Target Gene symbols were extracted and separated where multiple entries existed.
3. Mapping: UniProt IDs and HGNC symbols were mapped to Ensembl Gene IDs using biomaRt (Ensembl dataset hsapiens_gene_ensembl).
4. Filtering:
   • Only protein_coding genes were retained.
   • Only standard chromosomes (1-22, X, Y) were retained.
   • Mappings were filtered to ensure consistency between UniProt gene symbols and Entrez/HGNC/External gene names.
5. Genomic Positions: Start and End positions were retrieved for both hg19 and hg38 builds using TxDb.Hsapiens.UCSC.hg19.knownGene and TxDb.Hsapiens.UCSC.hg38.knownGene.

Column Descriptions

Column	Description
UNIPROT	UniProt ID provided by Olink
Target	Target gene symbol (HGNC) provided by Olink
TargetFullName	Full protein name provided by Olink
uniprot_gn_id	Mapped UniProt gene ID
uniprot_gn_symbol	Mapped UniProt gene symbol
entrezgene_id	Mapped Entrez gene ID
entrezgene_accession	Mapped Entrez accession
hgnc_id	Mapped HGNC ID
hgnc_symbol	Mapped HGNC symbol
ensembl_gene_id	Mapped Ensembl Gene ID
external_gene_name	External gene name
gene_biotype	Gene biotype (e.g. protein_coding)
CHR	Chromosome name
START_hg19	Start position (hg19)
END_hg19	End position (hg19)
strand_hg19	Strand (hg19)
START_hg38	Start position (hg38)
END_hg38	End position (hg38)
strand_hg38	Strand (hg38)

Interactive Table