Cell type atlas - HCCS - The Human Protein Atlas

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HCCS

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.	HCCS
Gene descriptionⁱ Full gene name according to HGNC.	Holocytochrome c synthase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes Potential drug targets
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	6 NX
Lung	6 NX

Alveolar cells type 2	5 NX
Lung	5 NX

B-cells	23 NX
Kidney	40 NX
Liver	15 NX
Colon	15 NX

Basal glandular cells	42 NX
Prostate	42 NX

Basal keratinocytes	49 NX
Skin	49 NX

Bipolar cells	5 NX
Eye	5 NX

Cardiomyocytes	48 NX
Heart muscle	48 NX

Cholangiocytes	20 NX
Liver	20 NX

Ciliated cells	16 NX
Lung	16 NX

Club cells	16 NX
Lung	16 NX

Collecting duct cells	16 NX
Kidney	16 NX

Cone photoreceptor cells	0 NX
Eye	0 NX

Cytotrophoblasts	29 NX
Placenta	29 NX

Distal tubular cells	43 NX
Kidney	43 NX

Ductal cells	33 NX
Pancreas	33 NX

Early spermatids	4 NX
Testis	4 NX

Endothelial cells	16 NX
Prostate	46 NX
Pancreas	25 NX
Skin	24 NX
Placenta	21 NX
Eye	16 NX
Heart muscle	15 NX
Lung	15 NX
Testis	15 NX
Liver	14 NX

Enterocytes	37 NX
Rectum	45 NX
Small intestine	38 NX
Colon	33 NX

Erythroid cells	23 NX
Liver	23 NX

Exocrine glandular cells	26 NX
Pancreas	26 NX

Extravillous trophoblasts	31 NX
Placenta	31 NX

Fibroblasts	18 NX
Prostate	42 NX
Skin	23 NX
Placenta	18 NX
Heart muscle	17 NX
Lung	10 NX

Glandular cells	31 NX
Prostate	31 NX

Granulocytes	13 NX
Lung	16 NX
Colon	9 NX

Hepatocytes	15 NX
Liver	15 NX

Hofbauer cells	37 NX
Placenta	37 NX

Horizontal cells	8 NX
Eye	8 NX

Intestinal endocrine cells	10 NX
Rectum	14 NX
Colon	7 NX

Ito cells	12 NX
Liver	12 NX

Kupffer cells	23 NX
Liver	23 NX

Late spermatids	1 NX
Testis	1 NX

Leydig cells	12 NX
Testis	12 NX

Macrophages	24 NX
Skin	37 NX
Kidney	37 NX
Prostate	24 NX
Pancreas	23 NX
Testis	23 NX
Lung	16 NX

Melanocytes	24 NX
Skin	24 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	32 NX
Pancreas	32 NX

Mucus-secreting cells	20 NX
Small intestine	21 NX
Rectum	21 NX
Colon	12 NX

Muller glia cells	9 NX
Eye	9 NX

Pancreatic endocrine cells	46 NX
Pancreas	46 NX

Paneth cells	32 NX
Colon	32 NX
Small intestine	32 NX
Rectum	23 NX

Peritubular cells	10 NX
Testis	10 NX

Proximal tubular cells	31 NX
Kidney	31 NX

Rod photoreceptor cells	7 NX
Eye	7 NX

Sertoli cells	7 NX
Testis	7 NX

Smooth muscle cells	25 NX
Pancreas	39 NX
Prostate	29 NX
Skin	19 NX
Heart muscle	11 NX

Spermatocytes	13 NX
Testis	13 NX

Spermatogonia	25 NX
Testis	25 NX

Suprabasal keratinocytes	40 NX
Skin	40 NX

Syncytiotrophoblasts	34 NX
Placenta	34 NX

T-cells	14 NX
Skin	19 NX
Kidney	19 NX
Colon	15 NX
Lung	13 NX
Liver	12 NX
Prostate	9 NX

Undifferentiated cells	28 NX
Small intestine	31 NX
Rectum	26 NX
Colon	25 NX

Urothelial cells	89 NX
Prostate	89 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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