Cell type atlas - SFSWAP - The Human Protein Atlas

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SFSWAP

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.	SFSWAP
Gene descriptionⁱ Full gene name according to HGNC.	Splicing factor SWAP
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.	3

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	Low cell type specificity
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.	Low cell line specificity
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 all
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: Low cell type specificity

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	69 NX
Lung	69 NX

Alveolar cells type 2	36 NX
Lung	36 NX

B-cells	24 NX
Kidney	31 NX
Colon	28 NX
Liver	10 NX

Basal glandular cells	31 NX
Prostate	31 NX

Basal keratinocytes	35 NX
Skin	35 NX

Bipolar cells	47 NX
Eye	47 NX

Cardiomyocytes	18 NX
Heart muscle	18 NX

Cholangiocytes	31 NX
Liver	31 NX

Ciliated cells	42 NX
Lung	42 NX

Club cells	52 NX
Lung	52 NX

Collecting duct cells	14 NX
Kidney	14 NX

Cone photoreceptor cells	63 NX
Eye	63 NX

Cytotrophoblasts	26 NX
Placenta	26 NX

Distal tubular cells	0 NX
Kidney	0 NX

Ductal cells	18 NX
Pancreas	18 NX

Early spermatids	18 NX
Testis	18 NX

Endothelial cells	31 NX
Lung	53 NX
Prostate	43 NX
Heart muscle	40 NX
Eye	37 NX
Placenta	34 NX
Testis	31 NX
Skin	25 NX
Pancreas	18 NX
Liver	16 NX

Enterocytes	17 NX
Rectum	18 NX
Colon	17 NX
Small intestine	17 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	23 NX
Pancreas	23 NX

Extravillous trophoblasts	26 NX
Placenta	26 NX

Fibroblasts	26 NX
Lung	72 NX
Prostate	40 NX
Placenta	24 NX
Skin	24 NX
Heart muscle	21 NX

Glandular cells	26 NX
Prostate	26 NX

Granulocytes	37 NX
Colon	37 NX
Lung	37 NX

Hepatocytes	14 NX
Liver	14 NX

Hofbauer cells	20 NX
Placenta	20 NX

Horizontal cells	40 NX
Eye	40 NX

Intestinal endocrine cells	21 NX
Rectum	21 NX
Colon	20 NX

Ito cells	22 NX
Liver	22 NX

Kupffer cells	26 NX
Liver	26 NX

Late spermatids	10 NX
Testis	10 NX

Leydig cells	28 NX
Testis	28 NX

Macrophages	25 NX
Lung	50 NX
Testis	32 NX
Kidney	29 NX
Skin	21 NX
Prostate	20 NX
Pancreas	19 NX

Melanocytes	22 NX
Skin	22 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	31 NX
Pancreas	31 NX

Mucus-secreting cells	21 NX
Colon	27 NX
Rectum	20 NX
Small intestine	20 NX

Muller glia cells	35 NX
Eye	35 NX

Pancreatic endocrine cells	23 NX
Pancreas	23 NX

Paneth cells	17 NX
Small intestine	35 NX
Rectum	17 NX
Colon	14 NX

Peritubular cells	28 NX
Testis	28 NX

Proximal tubular cells	10 NX
Kidney	10 NX

Rod photoreceptor cells	59 NX
Eye	59 NX

Sertoli cells	45 NX
Testis	45 NX

Smooth muscle cells	26 NX
Prostate	40 NX
Skin	28 NX
Pancreas	20 NX
Heart muscle	16 NX

Spermatocytes	31 NX
Testis	31 NX

Spermatogonia	43 NX
Testis	43 NX

Suprabasal keratinocytes	41 NX
Skin	41 NX

Syncytiotrophoblasts	37 NX
Placenta	37 NX

T-cells	37 NX
Lung	62 NX
Prostate	44 NX
Colon	37 NX
Liver	34 NX
Kidney	28 NX
Skin	26 NX

Undifferentiated cells	19 NX
Colon	23 NX
Small intestine	20 NX
Rectum	19 NX

Urothelial cells	46 NX
Prostate	46 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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