Cell type atlas - GCA - The Human Protein Atlas

We use cookies to enhance the usability of our website. If you continue, we'll assume that you are happy to receive all cookies. More information. Don't show this again.

GCA

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.	GCA
Gene descriptionⁱ Full gene name according to HGNC.	Grancalcin
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.	6

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 (Kupffer cells)
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	Group enriched (neutrophil, eosinophil)
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 many
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 many
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 (Kupffer cells)

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	15 NX
Lung	15 NX

Alveolar cells type 2	45 NX
Lung	45 NX

B-cells	46 NX
Kidney	76 NX
Colon	69 NX
Liver	19 NX

Basal glandular cells	25 NX
Prostate	25 NX

Basal keratinocytes	14 NX
Skin	14 NX

Bipolar cells	9 NX
Eye	9 NX

Cardiomyocytes	3 NX
Heart muscle	3 NX

Cholangiocytes	51 NX
Liver	51 NX

Ciliated cells	27 NX
Lung	27 NX

Club cells	13 NX
Lung	13 NX

Collecting duct cells	31 NX
Kidney	31 NX

Cone photoreceptor cells	2 NX
Eye	2 NX

Cytotrophoblasts	46 NX
Placenta	46 NX

Distal tubular cells	65 NX
Kidney	65 NX

Ductal cells	40 NX
Pancreas	40 NX

Early spermatids	107 NX
Testis	107 NX

Endothelial cells	26 NX
Prostate	30 NX
Eye	30 NX
Pancreas	29 NX
Testis	26 NX
Liver	25 NX
Heart muscle	24 NX
Placenta	21 NX
Skin	21 NX
Lung	6 NX

Enterocytes	15 NX
Small intestine	16 NX
Rectum	16 NX
Colon	12 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	53 NX
Pancreas	53 NX

Extravillous trophoblasts	16 NX
Placenta	16 NX

Fibroblasts	14 NX
Lung	53 NX
Skin	15 NX
Placenta	14 NX
Prostate	5 NX
Heart muscle	2 NX

Glandular cells	28 NX
Prostate	28 NX

Granulocytes	43 NX
Lung	58 NX
Colon	28 NX

Hepatocytes	12 NX
Liver	12 NX

Hofbauer cells	91 NX
Placenta	91 NX

Horizontal cells	11 NX
Eye	11 NX

Intestinal endocrine cells	38 NX
Colon	48 NX
Rectum	28 NX

Ito cells	39 NX
Liver	39 NX

Kupffer cells	189 NX
Liver	189 NX

Late spermatids	18 NX
Testis	18 NX

Leydig cells	10 NX
Testis	10 NX

Macrophages	120 NX
Kidney	253 NX
Testis	191 NX
Lung	133 NX
Pancreas	117 NX
Skin	76 NX
Prostate	57 NX

Melanocytes	15 NX
Skin	15 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	67 NX
Pancreas	67 NX

Mucus-secreting cells	26 NX
Rectum	31 NX
Colon	25 NX
Small intestine	21 NX

Muller glia cells	17 NX
Eye	17 NX

Pancreatic endocrine cells	35 NX
Pancreas	35 NX

Paneth cells	28 NX
Rectum	34 NX
Small intestine	28 NX
Colon	9 NX

Peritubular cells	6 NX
Testis	6 NX

Proximal tubular cells	53 NX
Kidney	53 NX

Rod photoreceptor cells	5 NX
Eye	5 NX

Sertoli cells	7 NX
Testis	7 NX

Smooth muscle cells	19 NX
Skin	21 NX
Heart muscle	20 NX
Prostate	14 NX
Pancreas	5 NX

Spermatocytes	63 NX
Testis	63 NX

Spermatogonia	12 NX
Testis	12 NX

Suprabasal keratinocytes	16 NX
Skin	16 NX

Syncytiotrophoblasts	39 NX
Placenta	39 NX

T-cells	11 NX
Lung	30 NX
Skin	23 NX
Kidney	22 NX
Liver	10 NX
Prostate	9 NX
Colon	8 NX

Undifferentiated cells	26 NX
Small intestine	30 NX
Rectum	26 NX
Colon	25 NX

Urothelial cells	20 NX
Prostate	20 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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