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General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene namei
Official gene symbol, which is typically a short form of the gene name, according to HGNC.
All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions.
Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached.
Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s).
The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.
All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are:
secreted into blood
locally secreted
or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes.
The blood-based immunoassay category applies to actively secreted proteins and is based on plasma or serum protein concentrations established with enzyme-linked immunosorbent assays, compiled from a literature search. The categories include: detected and not detected, where detection refers to a concentration found in the literature search.
Detection or not of the gene in blood, based on spectral count estimations from a publicly available mass spectrometry-based plasma proteomics data set obtained from the PeptideAtlas.
Not detected
Proximity extension assayi
Detection or not of the gene in blood, based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years.
Plasma or serum concentrations of the genes annotated as actively secreted to blood. Up to three values for each gene were compiled from a literature search limited to studies where the protein concentration was determined using an antibody-based assay such as enzyme-linked immunosorbent assay (ELISA), radioimmunoassay (RIA) or immunoturbidimetry (IT).
PROTEIN CONCENTRATION IN PLASMA - MASS SPECTROMETRYi
The protein concentration in blood is quantified by mass spectrometry-based plasma proteomics and estimated from spectral counts in a publicly available data set obtained from the PeptideAtlas.
Protein target not detected in plasma for reference set (Peptide atlas) by mass spectrometryi
Detection or not of the gene in blood, based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years.
PROTEIN DETECTED IN PLASMA - PROXIMITY EXTENSION ASSAYi
The protein profiling results based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years. Protein expression levels are reported as Normalized Protein eXpression (NPX).
The protein profiling results based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years. Protein expression levels are reported as Normalized Protein eXpression (NPX).
The protein profiling results based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years. Protein expression levels are reported as Normalized Protein eXpression (NPX).
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The Human Protein Atlas project is funded
