Cell type atlas - ATM - The Human Protein Atlas

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ATM

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.	ATM
Gene descriptionⁱ Full gene name according to HGNC.	ATM serine/threonine kinase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Enzymes Plasma proteins 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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	12

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 (Cone photoreceptor cells, Rod photoreceptor 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 (U-698)
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 (Cone photoreceptor cells, Rod photoreceptor 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	36 NX
Lung	36 NX

Alveolar cells type 2	21 NX
Lung	21 NX

B-cells	123 NX
Kidney	129 NX
Colon	120 NX
Liver	88 NX

Basal glandular cells	17 NX
Prostate	17 NX

Basal keratinocytes	11 NX
Skin	11 NX

Bipolar cells	102 NX
Eye	102 NX

Cardiomyocytes	35 NX
Heart muscle	35 NX

Cholangiocytes	10 NX
Liver	10 NX

Ciliated cells	13 NX
Lung	13 NX

Club cells	19 NX
Lung	19 NX

Collecting duct cells	21 NX
Kidney	21 NX

Cone photoreceptor cells	198 NX
Eye	198 NX

Cytotrophoblasts	15 NX
Placenta	15 NX

Distal tubular cells	5 NX
Kidney	5 NX

Ductal cells	8 NX
Pancreas	8 NX

Early spermatids	13 NX
Testis	13 NX

Endothelial cells	19 NX
Eye	59 NX
Liver	34 NX
Heart muscle	30 NX
Lung	23 NX
Testis	19 NX
Skin	16 NX
Placenta	13 NX
Prostate	10 NX
Pancreas	7 NX

Enterocytes	5 NX
Small intestine	8 NX
Rectum	4 NX
Colon	3 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	11 NX
Pancreas	11 NX

Extravillous trophoblasts	11 NX
Placenta	11 NX

Fibroblasts	26 NX
Heart muscle	64 NX
Lung	42 NX
Placenta	28 NX
Skin	21 NX
Prostate	19 NX

Glandular cells	10 NX
Prostate	9 NX

Granulocytes	13 NX
Lung	16 NX
Colon	9 NX

Hepatocytes	21 NX
Liver	21 NX

Hofbauer cells	26 NX
Placenta	26 NX

Horizontal cells	57 NX
Eye	57 NX

Intestinal endocrine cells	20 NX
Colon	20 NX
Rectum	19 NX

Ito cells	37 NX
Liver	37 NX

Kupffer cells	82 NX
Liver	82 NX

Late spermatids	3 NX
Testis	3 NX

Leydig cells	37 NX
Testis	37 NX

Macrophages	48 NX
Testis	98 NX
Kidney	57 NX
Lung	51 NX
Skin	40 NX
Prostate	31 NX
Pancreas	19 NX

Melanocytes	25 NX
Skin	25 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	9 NX
Pancreas	9 NX

Mucus-secreting cells	16 NX
Rectum	17 NX
Colon	12 NX
Small intestine	10 NX

Muller glia cells	36 NX
Eye	36 NX

Pancreatic endocrine cells	8 NX
Pancreas	8 NX

Paneth cells	11 NX
Rectum	11 NX
Small intestine	11 NX
Colon	0 NX

Peritubular cells	26 NX
Testis	26 NX

Proximal tubular cells	10 NX
Kidney	10 NX

Rod photoreceptor cells	197 NX
Eye	197 NX

Sertoli cells	26 NX
Testis	26 NX

Smooth muscle cells	17 NX
Heart muscle	39 NX
Skin	18 NX
Prostate	17 NX
Pancreas	10 NX

Spermatocytes	19 NX
Testis	19 NX

Spermatogonia	34 NX
Testis	34 NX

Suprabasal keratinocytes	11 NX
Skin	11 NX

Syncytiotrophoblasts	4 NX
Placenta	4 NX

T-cells	112 NX
Liver	173 NX
Kidney	140 NX
Lung	81 NX
Prostate	61 NX
Skin	58 NX
Colon	56 NX

Undifferentiated cells	12 NX
Small intestine	14 NX
Rectum	12 NX
Colon	8 NX

Urothelial cells	10 NX
Prostate	10 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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