Cell type atlas - EMC4 - The Human Protein Atlas

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EMC4

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.	EMC4
Gene descriptionⁱ Full gene name according to HGNC.	ER membrane protein complex subunit 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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	Intracellular,Membrane
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	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	51 NX
Lung	51 NX

Alveolar cells type 2	63 NX
Lung	63 NX

B-cells	54 NX
Liver	98 NX
Kidney	62 NX
Colon	45 NX

Basal glandular cells	85 NX
Prostate	85 NX

Basal keratinocytes	81 NX
Skin	81 NX

Bipolar cells	34 NX
Eye	34 NX

Cardiomyocytes	53 NX
Heart muscle	53 NX

Cholangiocytes	51 NX
Liver	51 NX

Ciliated cells	116 NX
Lung	116 NX

Club cells	82 NX
Lung	82 NX

Collecting duct cells	63 NX
Kidney	63 NX

Cone photoreceptor cells	18 NX
Eye	18 NX

Cytotrophoblasts	128 NX
Placenta	128 NX

Distal tubular cells	106 NX
Kidney	106 NX

Ductal cells	146 NX
Pancreas	146 NX

Early spermatids	74 NX
Testis	74 NX

Endothelial cells	82 NX
Pancreas	150 NX
Placenta	108 NX
Skin	97 NX
Testis	83 NX
Prostate	82 NX
Liver	79 NX
Lung	70 NX
Heart muscle	66 NX
Eye	38 NX

Enterocytes	39 NX
Small intestine	62 NX
Rectum	42 NX
Colon	25 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	150 NX
Pancreas	150 NX

Extravillous trophoblasts	140 NX
Placenta	140 NX

Fibroblasts	90 NX
Placenta	121 NX
Skin	89 NX
Heart muscle	88 NX
Lung	79 NX
Prostate	64 NX

Glandular cells	80 NX
Prostate	80 NX

Granulocytes	85 NX
Lung	105 NX
Colon	64 NX

Hepatocytes	76 NX
Liver	76 NX

Hofbauer cells	101 NX
Placenta	101 NX

Horizontal cells	18 NX
Eye	18 NX

Intestinal endocrine cells	50 NX
Colon	58 NX
Rectum	42 NX

Ito cells	54 NX
Liver	54 NX

Kupffer cells	38 NX
Liver	38 NX

Late spermatids	17 NX
Testis	17 NX

Leydig cells	93 NX
Testis	93 NX

Macrophages	69 NX
Pancreas	131 NX
Skin	74 NX
Kidney	71 NX
Lung	70 NX
Testis	56 NX
Prostate	50 NX

Melanocytes	96 NX
Skin	96 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	106 NX
Pancreas	106 NX

Mucus-secreting cells	60 NX
Colon	64 NX
Rectum	60 NX
Small intestine	43 NX

Muller glia cells	90 NX
Eye	90 NX

Pancreatic endocrine cells	147 NX
Pancreas	147 NX

Paneth cells	67 NX
Small intestine	81 NX
Rectum	67 NX
Colon	32 NX

Peritubular cells	85 NX
Testis	85 NX

Proximal tubular cells	86 NX
Kidney	86 NX

Rod photoreceptor cells	31 NX
Eye	31 NX

Sertoli cells	84 NX
Testis	84 NX

Smooth muscle cells	115 NX
Pancreas	181 NX
Heart muscle	122 NX
Skin	102 NX
Prostate	91 NX

Spermatocytes	137 NX
Testis	137 NX

Spermatogonia	97 NX
Testis	97 NX

Suprabasal keratinocytes	96 NX
Skin	96 NX

Syncytiotrophoblasts	119 NX
Placenta	119 NX

T-cells	65 NX
Kidney	98 NX
Lung	96 NX
Liver	70 NX
Skin	65 NX
Colon	62 NX
Prostate	48 NX

Undifferentiated cells	63 NX
Small intestine	68 NX
Rectum	63 NX
Colon	48 NX

Urothelial cells	96 NX
Prostate	96 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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