Cell type atlas - ALCAM - The Human Protein Atlas

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ALCAM

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.	ALCAM
Gene descriptionⁱ Full gene name according to HGNC.	Activated leukocyte cell adhesion molecule
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes CD markers Plasma proteins Transporters
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	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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 (Alveolar cells type 1, Ciliated cells, Club 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	Cell type enhanced (myeloid DC)
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 (hTERT-HME1, U-138 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 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 (Alveolar cells type 1, Ciliated cells, Club 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	685 NX
Lung	685 NX

Alveolar cells type 2	109 NX
Lung	109 NX

B-cells	7 NX
Colon	22 NX
Liver	7 NX
Kidney	0 NX

Basal glandular cells	17 NX
Prostate	17 NX

Basal keratinocytes	11 NX
Skin	11 NX

Bipolar cells	3 NX
Eye	3 NX

Cardiomyocytes	6 NX
Heart muscle	6 NX

Cholangiocytes	61 NX
Liver	61 NX

Ciliated cells	364 NX
Lung	364 NX

Club cells	315 NX
Lung	315 NX

Collecting duct cells	16 NX
Kidney	16 NX

Cone photoreceptor cells	2 NX
Eye	2 NX

Cytotrophoblasts	1 NX
Placenta	1 NX

Distal tubular cells	2 NX
Kidney	2 NX

Ductal cells	16 NX
Pancreas	16 NX

Early spermatids	50 NX
Testis	50 NX

Endothelial cells	11 NX
Lung	44 NX
Eye	19 NX
Heart muscle	13 NX
Prostate	12 NX
Skin	12 NX
Placenta	5 NX
Testis	3 NX
Liver	2 NX
Pancreas	0 NX

Enterocytes	8 NX
Colon	11 NX
Small intestine	8 NX
Rectum	6 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	37 NX
Pancreas	37 NX

Extravillous trophoblasts	1 NX
Placenta	1 NX

Fibroblasts	27 NX
Lung	187 NX
Placenta	41 NX
Prostate	21 NX
Skin	20 NX
Heart muscle	10 NX

Glandular cells	98 NX
Prostate	98 NX

Granulocytes	11 NX
Lung	21 NX
Colon	0 NX

Hepatocytes	40 NX
Liver	40 NX

Hofbauer cells	60 NX
Placenta	60 NX

Horizontal cells	2 NX
Eye	2 NX

Intestinal endocrine cells	16 NX
Rectum	19 NX
Colon	14 NX

Ito cells	4 NX
Liver	4 NX

Kupffer cells	39 NX
Liver	39 NX

Late spermatids	48 NX
Testis	48 NX

Leydig cells	3 NX
Testis	3 NX

Macrophages	106 NX
Testis	242 NX
Lung	157 NX
Skin	124 NX
Prostate	82 NX
Pancreas	73 NX
Kidney	26 NX

Melanocytes	24 NX
Skin	24 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	141 NX
Pancreas	141 NX

Mucus-secreting cells	15 NX
Colon	17 NX
Rectum	16 NX
Small intestine	12 NX

Muller glia cells	1 NX
Eye	1 NX

Pancreatic endocrine cells	40 NX
Pancreas	40 NX

Paneth cells	6 NX
Rectum	14 NX
Colon	6 NX
Small intestine	4 NX

Peritubular cells	6 NX
Testis	6 NX

Proximal tubular cells	23 NX
Kidney	23 NX

Rod photoreceptor cells	1 NX
Eye	1 NX

Sertoli cells	0 NX
Testis	0 NX

Smooth muscle cells	20 NX
Pancreas	44 NX
Skin	24 NX
Prostate	14 NX
Heart muscle	12 NX

Spermatocytes	2 NX
Testis	2 NX

Spermatogonia	3 NX
Testis	3 NX

Suprabasal keratinocytes	18 NX
Skin	18 NX

Syncytiotrophoblasts	1 NX
Placenta	1 NX

T-cells	3 NX
Lung	49 NX
Prostate	18 NX
Skin	6 NX
Colon	4 NX
Kidney	3 NX
Liver	1 NX

Undifferentiated cells	10 NX
Rectum	12 NX
Small intestine	6 NX
Colon	6 NX

Urothelial cells	69 NX
Prostate	69 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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