Cell type atlas - CALU - The Human Protein Atlas

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CALU

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.	CALU
Gene descriptionⁱ Full gene name according to HGNC.	Calumenin
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 (Extravillous trophoblasts)
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.	Cell line enhanced (fHDF/TERT166)
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: Cell type enhanced (Extravillous trophoblasts)

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	21 NX
Lung	21 NX

Alveolar cells type 2	33 NX
Lung	33 NX

B-cells	29 NX
Liver	68 NX
Colon	16 NX
Kidney	13 NX

Basal glandular cells	54 NX
Prostate	54 NX

Basal keratinocytes	72 NX
Skin	72 NX

Bipolar cells	27 NX
Eye	27 NX

Cardiomyocytes	197 NX
Heart muscle	197 NX

Cholangiocytes	23 NX
Liver	23 NX

Ciliated cells	50 NX
Lung	50 NX

Club cells	38 NX
Lung	38 NX

Collecting duct cells	24 NX
Kidney	24 NX

Cone photoreceptor cells	18 NX
Eye	18 NX

Cytotrophoblasts	103 NX
Placenta	103 NX

Distal tubular cells	15 NX
Kidney	15 NX

Ductal cells	68 NX
Pancreas	68 NX

Early spermatids	8 NX
Testis	8 NX

Endothelial cells	82 NX
Placenta	142 NX
Pancreas	133 NX
Prostate	113 NX
Skin	87 NX
Lung	82 NX
Heart muscle	73 NX
Eye	69 NX
Liver	54 NX
Testis	48 NX

Enterocytes	12 NX
Colon	13 NX
Rectum	13 NX
Small intestine	12 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	53 NX
Pancreas	53 NX

Extravillous trophoblasts	431 NX
Placenta	431 NX

Fibroblasts	239 NX
Prostate	301 NX
Placenta	266 NX
Skin	241 NX
Heart muscle	152 NX
Lung	125 NX

Glandular cells	93 NX
Prostate	93 NX

Granulocytes	59 NX
Colon	74 NX
Lung	44 NX

Hepatocytes	49 NX
Liver	49 NX

Hofbauer cells	120 NX
Placenta	120 NX

Horizontal cells	27 NX
Eye	27 NX

Intestinal endocrine cells	19 NX
Colon	24 NX
Rectum	14 NX

Ito cells	139 NX
Liver	139 NX

Kupffer cells	55 NX
Liver	55 NX

Late spermatids	5 NX
Testis	5 NX

Leydig cells	93 NX
Testis	93 NX

Macrophages	50 NX
Pancreas	82 NX
Skin	55 NX
Prostate	55 NX
Lung	50 NX
Kidney	33 NX
Testis	22 NX

Melanocytes	115 NX
Skin	115 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	21 NX
Pancreas	21 NX

Mucus-secreting cells	39 NX
Colon	76 NX
Small intestine	40 NX
Rectum	37 NX

Muller glia cells	30 NX
Eye	30 NX

Pancreatic endocrine cells	59 NX
Pancreas	59 NX

Paneth cells	7 NX
Rectum	18 NX
Small intestine	7 NX
Colon	6 NX

Peritubular cells	112 NX
Testis	112 NX

Proximal tubular cells	17 NX
Kidney	17 NX

Rod photoreceptor cells	12 NX
Eye	12 NX

Sertoli cells	58 NX
Testis	58 NX

Smooth muscle cells	119 NX
Pancreas	592 NX
Prostate	203 NX
Heart muscle	119 NX
Skin	81 NX

Spermatocytes	21 NX
Testis	21 NX

Spermatogonia	39 NX
Testis	39 NX

Suprabasal keratinocytes	67 NX
Skin	67 NX

Syncytiotrophoblasts	203 NX
Placenta	203 NX

T-cells	20 NX
Skin	46 NX
Prostate	44 NX
Lung	35 NX
Kidney	23 NX
Liver	19 NX
Colon	19 NX

Undifferentiated cells	23 NX
Rectum	27 NX
Colon	27 NX
Small intestine	18 NX

Urothelial cells	61 NX
Prostate	61 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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