Cell type atlas - HPCAL1 - The Human Protein Atlas

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HPCAL1

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.	HPCAL1
Gene descriptionⁱ Full gene name according to HGNC.	Hippocalcin like 1
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.	7

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 (Horizontal cells, Mucus-secreting 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	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 (GAMG, HDLM-2, PC-3, U-87 MG)
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 (Horizontal cells, Mucus-secreting 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	77 NX
Lung	77 NX

Alveolar cells type 2	104 NX
Lung	104 NX

B-cells	48 NX
Colon	64 NX
Kidney	54 NX
Liver	32 NX

Basal glandular cells	11 NX
Prostate	11 NX

Basal keratinocytes	30 NX
Skin	30 NX

Bipolar cells	75 NX
Eye	75 NX

Cardiomyocytes	12 NX
Heart muscle	12 NX

Cholangiocytes	26 NX
Liver	26 NX

Ciliated cells	11 NX
Lung	11 NX

Club cells	27 NX
Lung	27 NX

Collecting duct cells	17 NX
Kidney	17 NX

Cone photoreceptor cells	16 NX
Eye	16 NX

Cytotrophoblasts	3 NX
Placenta	3 NX

Distal tubular cells	80 NX
Kidney	80 NX

Ductal cells	45 NX
Pancreas	45 NX

Early spermatids	21 NX
Testis	21 NX

Endothelial cells	55 NX
Liver	142 NX
Testis	120 NX
Prostate	63 NX
Skin	58 NX
Placenta	55 NX
Eye	44 NX
Heart muscle	43 NX
Lung	41 NX
Pancreas	22 NX

Enterocytes	40 NX
Small intestine	97 NX
Rectum	46 NX
Colon	26 NX

Erythroid cells	23 NX
Liver	23 NX

Exocrine glandular cells	33 NX
Pancreas	33 NX

Extravillous trophoblasts	118 NX
Placenta	118 NX

Fibroblasts	17 NX
Prostate	60 NX
Lung	42 NX
Skin	19 NX
Heart muscle	15 NX
Placenta	11 NX

Glandular cells	13 NX
Prostate	13 NX

Granulocytes	54 NX
Colon	64 NX
Lung	44 NX

Hepatocytes	30 NX
Liver	30 NX

Hofbauer cells	63 NX
Placenta	63 NX

Horizontal cells	216 NX
Eye	216 NX

Intestinal endocrine cells	60 NX
Rectum	80 NX
Colon	41 NX

Ito cells	81 NX
Liver	81 NX

Kupffer cells	70 NX
Liver	70 NX

Late spermatids	14 NX
Testis	14 NX

Leydig cells	16 NX
Testis	16 NX

Macrophages	61 NX
Pancreas	126 NX
Kidney	68 NX
Lung	66 NX
Testis	55 NX
Skin	48 NX
Prostate	39 NX

Melanocytes	54 NX
Skin	54 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	32 NX
Pancreas	32 NX

Mucus-secreting cells	211 NX
Colon	422 NX
Small intestine	211 NX
Rectum	189 NX

Muller glia cells	34 NX
Eye	34 NX

Pancreatic endocrine cells	39 NX
Pancreas	39 NX

Paneth cells	67 NX
Rectum	72 NX
Small intestine	67 NX
Colon	37 NX

Peritubular cells	10 NX
Testis	10 NX

Proximal tubular cells	75 NX
Kidney	75 NX

Rod photoreceptor cells	30 NX
Eye	30 NX

Sertoli cells	7 NX
Testis	7 NX

Smooth muscle cells	15 NX
Pancreas	36 NX
Skin	15 NX
Prostate	15 NX
Heart muscle	11 NX

Spermatocytes	12 NX
Testis	12 NX

Spermatogonia	17 NX
Testis	17 NX

Suprabasal keratinocytes	26 NX
Skin	26 NX

Syncytiotrophoblasts	35 NX
Placenta	35 NX

T-cells	50 NX
Skin	54 NX
Kidney	52 NX
Liver	51 NX
Colon	50 NX
Prostate	39 NX
Lung	32 NX

Undifferentiated cells	37 NX
Small intestine	54 NX
Rectum	37 NX
Colon	21 NX

Urothelial cells	13 NX
Prostate	13 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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