Cell type atlas - SCIN - The Human Protein Atlas

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SCIN

SUMMARY

TISSUE

CELL TYPE

PATHOLOGY

BRAIN

BLOOD

CELL

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.	SCIN
Gene descriptionⁱ Full gene name according to HGNC.	Scinderin
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Plasma proteins
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	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	5

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (Collecting duct cells, Enterocytes, Paneth cells, Early spermatids)
Blood cell 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 cell type specificity
Blood cell 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 all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines.	Group enriched (RPTEC TERT1, SK-BR-3)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines.	Detected in some
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of single cell RNA (NX) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Collecting duct cells, Enterocytes, Paneth cells, Early spermatids)

SINGLE CELL TISSUESⁱ Single cell RNA in cell types from tissue are shown separately for each analyzed tissue. For easier navigation across tissues, use the grey browser on the left side of the window. Barchart shows pTPM levels in each cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ RNA expression data (NX) of tissue culture cell lines.The analyzed cell lines are divided into 16 color-coded groups according to the organ they were obtained from. Detailed information about a specific cell line is revealed by hovering over the corresponding bar in the chart. The chart is clickable and redirects to more Cell Atlas data. Read more
Organ Expression Alphabetical

Alveolar cells type 1	0 NX
Lung	0 NX

Alveolar cells type 2	21 NX
Lung	20 NX

B-cells	0 NX
Colon	0 NX
Liver	0 NX
Kidney	0 NX

Basal glandular cells	1 NX
Prostate	1 NX

Basal keratinocytes	3 NX
Skin	3 NX

Bipolar cells	0 NX
Eye	0 NX

Cardiomyocytes	1 NX
Heart muscle	1 NX

Cholangiocytes	8 NX
Liver	8 NX

Ciliated cells	23 NX
Lung	23 NX

Club cells	7 NX
Lung	7 NX

Collecting duct cells	318 NX
Kidney	318 NX

Cone photoreceptor cells	0 NX
Eye	0 NX

Cytotrophoblasts	14 NX
Placenta	14 NX

Distal tubular cells	70 NX
Kidney	70 NX

Ductal cells	1 NX
Pancreas	1 NX

Early spermatids	91 NX
Testis	91 NX

Endothelial cells	1 NX
Eye	33 NX
Placenta	13 NX
Prostate	3 NX
Heart muscle	1 NX
Testis	1 NX
Lung	0 NX
Skin	0 NX
Liver	0 NX
Pancreas	0 NX

Enterocytes	122 NX
Small intestine	284 NX
Rectum	108 NX
Colon	89 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	0 NX
Pancreas	0 NX

Extravillous trophoblasts	4 NX
Placenta	4 NX

Fibroblasts	1 NX
Placenta	4 NX
Lung	4 NX
Prostate	1 NX
Heart muscle	1 NX
Skin	0 NX

Glandular cells	5 NX
Prostate	5 NX

Granulocytes	38 NX
Lung	49 NX
Colon	28 NX

Hepatocytes	0 NX
Liver	0 NX

Hofbauer cells	76 NX
Placenta	76 NX

Horizontal cells	0 NX
Eye	0 NX

Intestinal endocrine cells	9 NX
Rectum	14 NX
Colon	3 NX

Ito cells	0 NX
Liver	0 NX

Kupffer cells	1 NX
Liver	1 NX

Late spermatids	64 NX
Testis	64 NX

Leydig cells	0 NX
Testis	0 NX

Macrophages	3 NX
Prostate	6 NX
Testis	4 NX
Kidney	4 NX
Lung	3 NX
Skin	1 NX
Pancreas	0 NX

Melanocytes	10 NX
Skin	10 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	3 NX
Pancreas	3 NX

Mucus-secreting cells	36 NX
Small intestine	129 NX
Rectum	32 NX
Colon	22 NX

Muller glia cells	1 NX
Eye	1 NX

Pancreatic endocrine cells	5 NX
Pancreas	5 NX

Paneth cells	111 NX
Small intestine	175 NX
Rectum	111 NX
Colon	92 NX

Peritubular cells	1 NX
Testis	1 NX

Proximal tubular cells	2 NX
Kidney	2 NX

Rod photoreceptor cells	3 NX
Eye	3 NX

Sertoli cells	0 NX
Testis	0 NX

Smooth muscle cells	0 NX
Heart muscle	1 NX
Prostate	1 NX
Skin	0 NX
Pancreas	0 NX

Spermatocytes	4 NX
Testis	4 NX

Spermatogonia	5 NX
Testis	5 NX

Suprabasal keratinocytes	6 NX
Skin	6 NX

Syncytiotrophoblasts	55 NX
Placenta	55 NX

T-cells	0 NX
Prostate	18 NX
Lung	4 NX
Kidney	1 NX
Colon	1 NX
Liver	0 NX
Skin	0 NX

Undifferentiated cells	14 NX
Small intestine	31 NX
Rectum	14 NX
Colon	12 NX

Urothelial cells	7 NX
Prostate	7 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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