Cell type atlas - LAGE3 - The Human Protein Atlas

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LAGE3

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.	LAGE3
Gene descriptionⁱ Full gene name according to HGNC.	L antigen family member 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes
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.	1

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	Low cell type specificity
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.	Low cell line specificity
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: Low cell type specificity

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	9 NX
Lung	9 NX

Alveolar cells type 2	14 NX
Lung	14 NX

B-cells	72 NX
Colon	76 NX
Kidney	67 NX
Liver	49 NX

Basal glandular cells	42 NX
Prostate	42 NX

Basal keratinocytes	52 NX
Skin	52 NX

Bipolar cells	53 NX
Eye	53 NX

Cardiomyocytes	30 NX
Heart muscle	30 NX

Cholangiocytes	64 NX
Liver	64 NX

Ciliated cells	15 NX
Lung	15 NX

Club cells	5 NX
Lung	5 NX

Collecting duct cells	33 NX
Kidney	33 NX

Cone photoreceptor cells	8 NX
Eye	8 NX

Cytotrophoblasts	50 NX
Placenta	50 NX

Distal tubular cells	108 NX
Kidney	108 NX

Ductal cells	40 NX
Pancreas	40 NX

Early spermatids	2 NX
Testis	2 NX

Endothelial cells	41 NX
Skin	74 NX
Placenta	66 NX
Pancreas	65 NX
Testis	44 NX
Prostate	41 NX
Liver	32 NX
Eye	26 NX
Lung	23 NX
Heart muscle	13 NX

Enterocytes	32 NX
Small intestine	32 NX
Rectum	26 NX
Colon	19 NX

Erythroid cells	23 NX
Liver	23 NX

Exocrine glandular cells	81 NX
Pancreas	81 NX

Extravillous trophoblasts	105 NX
Placenta	105 NX

Fibroblasts	43 NX
Placenta	60 NX
Prostate	56 NX
Skin	38 NX
Heart muscle	28 NX
Lung	5 NX

Glandular cells	41 NX
Prostate	41 NX

Granulocytes	46 NX
Colon	55 NX
Lung	37 NX

Hepatocytes	42 NX
Liver	42 NX

Hofbauer cells	107 NX
Placenta	107 NX

Horizontal cells	22 NX
Eye	22 NX

Intestinal endocrine cells	54 NX
Rectum	61 NX
Colon	48 NX

Ito cells	29 NX
Liver	29 NX

Kupffer cells	37 NX
Liver	37 NX

Late spermatids	5 NX
Testis	5 NX

Leydig cells	39 NX
Testis	39 NX

Macrophages	59 NX
Prostate	135 NX
Pancreas	112 NX
Kidney	73 NX
Skin	66 NX
Testis	42 NX
Lung	12 NX

Melanocytes	88 NX
Skin	88 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	77 NX
Pancreas	77 NX

Mucus-secreting cells	45 NX
Colon	61 NX
Rectum	43 NX
Small intestine	28 NX

Muller glia cells	51 NX
Eye	51 NX

Pancreatic endocrine cells	42 NX
Pancreas	42 NX

Paneth cells	23 NX
Rectum	33 NX
Colon	23 NX
Small intestine	21 NX

Peritubular cells	35 NX
Testis	35 NX

Proximal tubular cells	60 NX
Kidney	60 NX

Rod photoreceptor cells	15 NX
Eye	15 NX

Sertoli cells	7 NX
Testis	7 NX

Smooth muscle cells	45 NX
Skin	49 NX
Pancreas	47 NX
Prostate	27 NX
Heart muscle	13 NX

Spermatocytes	16 NX
Testis	16 NX

Spermatogonia	103 NX
Testis	103 NX

Suprabasal keratinocytes	49 NX
Skin	49 NX

Syncytiotrophoblasts	48 NX
Placenta	48 NX

T-cells	41 NX
Skin	82 NX
Colon	73 NX
Kidney	58 NX
Prostate	57 NX
Liver	25 NX
Lung	14 NX

Undifferentiated cells	51 NX
Small intestine	54 NX
Colon	45 NX
Rectum	44 NX

Urothelial cells	36 NX
Prostate	36 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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