Immune cell - SCRG1 - The Human Protein Atlas

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SCRG1

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TISSUE

BRAIN

SINGLE CELL

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PATHOLOGY

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GENERAL INFORMATIONⁱ 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.	SCRG1
Gene descriptionⁱ Full gene name according to HGNC.	Stimulator of chondrogenesis 1
Predicted locationⁱ 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. Read more	Secreted

IMMUNE CELL SECTION SUMMARY
Immune cell type expression clusterⁱ The RNA data is used to cluster genes according to their expression across immune cells. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Basophils - Unknown function (mainly)
Immune cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Low immune cell specificity
Immune cell type distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in some
Immune cell lineage specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: lineage enriched, group enriched, lineage enhanced, low lineage specificity and not detected. Lineages include B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells. Read more	Low lineage specificity
Immune cell lineage distributionⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Detected in single

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Read more Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Read more Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Read more Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SCRG1 is part of cluster 17 Basophils - Unknown function with confidenceⁱ 1
232 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on immune cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
KCNJ5	Potassium inwardly rectifying channel subfamily J member 5	0.9502	17
AKR1D1	Aldo-keto reductase family 1 member D1	0.9484	17
SHOX	Short stature homeobox	0.9426	17
FRRS1L	Ferric chelate reductase 1 like	0.9301	17
TRIM72	Tripartite motif containing 72	0.9230	17
ADIPOQ	Adiponectin, C1Q and collagen domain containing	0.9190	17
OR4D9	Olfactory receptor family 4 subfamily D member 9	0.9128	17
ZNF70	Zinc finger protein 70	0.9083	17
OR10H1	Olfactory receptor family 10 subfamily H member 1	0.9057	17
ZBTB8B	Zinc finger and BTB domain containing 8B	0.9034	17
SLC35E3	Solute carrier family 35 member E3	0.9030	17
CYP2B6	Cytochrome P450 family 2 subfamily B member 6	0.9021	17
SYNPO2L	Synaptopodin 2 like	0.8990	17
PTGIS	Prostaglandin I2 synthase	0.8972	17
RIMS2	Regulating synaptic membrane exocytosis 2	0.8945	17

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The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.