Cell type atlas - PAM - The Human Protein Atlas

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PAM

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.	PAM
Gene descriptionⁱ Full gene name according to HGNC.	Peptidylglycine alpha-amidating monooxygenase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes 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,Membrane,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	13

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	Group enriched (Cardiomyocytes, Intestinal endocrine 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 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.	Cell line enhanced (ASC diff, fHDF/TERT166, hTERT-RPE1)
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

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: Group enriched (Cardiomyocytes, Intestinal endocrine 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	51 NX
Lung	51 NX

Alveolar cells type 2	29 NX
Lung	29 NX

B-cells	4 NX
Kidney	5 NX
Colon	5 NX
Liver	1 NX

Basal glandular cells	10 NX
Prostate	10 NX

Basal keratinocytes	25 NX
Skin	25 NX

Bipolar cells	11 NX
Eye	11 NX

Cardiomyocytes	853 NX
Heart muscle	853 NX

Cholangiocytes	0 NX
Liver	0 NX

Ciliated cells	11 NX
Lung	11 NX

Club cells	27 NX
Lung	27 NX

Collecting duct cells	58 NX
Kidney	58 NX

Cone photoreceptor cells	2 NX
Eye	2 NX

Cytotrophoblasts	1 NX
Placenta	1 NX

Distal tubular cells	7 NX
Kidney	7 NX

Ductal cells	12 NX
Pancreas	12 NX

Early spermatids	5 NX
Testis	5 NX

Endothelial cells	54 NX
Heart muscle	161 NX
Liver	79 NX
Skin	65 NX
Eye	54 NX
Testis	50 NX
Placenta	50 NX
Lung	44 NX
Prostate	41 NX
Pancreas	29 NX

Enterocytes	7 NX
Rectum	17 NX
Colon	7 NX
Small intestine	4 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	19 NX
Pancreas	19 NX

Extravillous trophoblasts	37 NX
Placenta	37 NX

Fibroblasts	103 NX
Heart muscle	974 NX
Skin	291 NX
Prostate	103 NX
Lung	24 NX
Placenta	3 NX

Glandular cells	20 NX
Prostate	20 NX

Granulocytes	9 NX
Colon	9 NX
Lung	9 NX

Hepatocytes	2 NX
Liver	2 NX

Hofbauer cells	6 NX
Placenta	6 NX

Horizontal cells	8 NX
Eye	8 NX

Intestinal endocrine cells	309 NX
Rectum	325 NX
Colon	292 NX

Ito cells	70 NX
Liver	70 NX

Kupffer cells	12 NX
Liver	12 NX

Late spermatids	5 NX
Testis	5 NX

Leydig cells	56 NX
Testis	56 NX

Macrophages	7 NX
Skin	31 NX
Kidney	8 NX
Lung	7 NX
Pancreas	5 NX
Prostate	5 NX
Testis	4 NX

Melanocytes	35 NX
Skin	35 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	5 NX
Pancreas	5 NX

Mucus-secreting cells	13 NX
Rectum	22 NX
Colon	8 NX
Small intestine	6 NX

Muller glia cells	13 NX
Eye	13 NX

Pancreatic endocrine cells	35 NX
Pancreas	35 NX

Paneth cells	3 NX
Rectum	14 NX
Colon	3 NX
Small intestine	0 NX

Peritubular cells	55 NX
Testis	55 NX

Proximal tubular cells	42 NX
Kidney	42 NX

Rod photoreceptor cells	3 NX
Eye	3 NX

Sertoli cells	19 NX
Testis	19 NX

Smooth muscle cells	47 NX
Heart muscle	100 NX
Skin	51 NX
Pancreas	34 NX
Prostate	33 NX

Spermatocytes	2 NX
Testis	2 NX

Spermatogonia	2 NX
Testis	2 NX

Suprabasal keratinocytes	21 NX
Skin	21 NX

Syncytiotrophoblasts	6 NX
Placenta	6 NX

T-cells	15 NX
Skin	25 NX
Liver	23 NX
Kidney	15 NX
Colon	11 NX
Prostate	4 NX
Lung	3 NX

Undifferentiated cells	7 NX
Rectum	9 NX
Colon	5 NX
Small intestine	3 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.