Cell type atlas - HERC4 - The Human Protein Atlas

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HERC4

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.	HERC4
Gene descriptionⁱ Full gene name according to HGNC.	HECT and RLD domain containing E3 ubiquitin protein ligase 4
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
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.	Cell line enhanced (BJ, fHDF/TERT166)
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	45 NX
Lung	45 NX

Alveolar cells type 2	28 NX
Lung	28 NX

B-cells	32 NX
Kidney	40 NX
Liver	33 NX
Colon	24 NX

Basal glandular cells	25 NX
Prostate	25 NX

Basal keratinocytes	45 NX
Skin	45 NX

Bipolar cells	51 NX
Eye	51 NX

Cardiomyocytes	21 NX
Heart muscle	21 NX

Cholangiocytes	13 NX
Liver	13 NX

Ciliated cells	17 NX
Lung	17 NX

Club cells	16 NX
Lung	16 NX

Collecting duct cells	17 NX
Kidney	17 NX

Cone photoreceptor cells	41 NX
Eye	41 NX

Cytotrophoblasts	23 NX
Placenta	23 NX

Distal tubular cells	7 NX
Kidney	7 NX

Ductal cells	17 NX
Pancreas	17 NX

Early spermatids	55 NX
Testis	55 NX

Endothelial cells	29 NX
Prostate	47 NX
Heart muscle	34 NX
Testis	31 NX
Liver	29 NX
Pancreas	29 NX
Placenta	26 NX
Lung	23 NX
Skin	22 NX
Eye	20 NX

Enterocytes	38 NX
Colon	87 NX
Rectum	47 NX
Small intestine	28 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	11 NX
Pancreas	11 NX

Extravillous trophoblasts	36 NX
Placenta	36 NX

Fibroblasts	22 NX
Prostate	52 NX
Skin	28 NX
Lung	24 NX
Heart muscle	21 NX
Placenta	17 NX

Glandular cells	33 NX
Prostate	33 NX

Granulocytes	30 NX
Colon	37 NX
Lung	23 NX

Hepatocytes	21 NX
Liver	21 NX

Hofbauer cells	20 NX
Placenta	20 NX

Horizontal cells	51 NX
Eye	51 NX

Intestinal endocrine cells	21 NX
Colon	24 NX
Rectum	19 NX

Ito cells	31 NX
Liver	31 NX

Kupffer cells	33 NX
Liver	33 NX

Late spermatids	35 NX
Testis	35 NX

Leydig cells	25 NX
Testis	25 NX

Macrophages	28 NX
Testis	40 NX
Prostate	37 NX
Lung	29 NX
Skin	27 NX
Kidney	22 NX
Pancreas	5 NX

Melanocytes	17 NX
Skin	17 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	16 NX
Pancreas	16 NX

Mucus-secreting cells	26 NX
Small intestine	26 NX
Colon	26 NX
Rectum	25 NX

Muller glia cells	23 NX
Eye	23 NX

Pancreatic endocrine cells	29 NX
Pancreas	29 NX

Paneth cells	32 NX
Colon	83 NX
Small intestine	32 NX
Rectum	25 NX

Peritubular cells	18 NX
Testis	18 NX

Proximal tubular cells	18 NX
Kidney	18 NX

Rod photoreceptor cells	45 NX
Eye	45 NX

Sertoli cells	7 NX
Testis	7 NX

Smooth muscle cells	26 NX
Prostate	38 NX
Skin	27 NX
Pancreas	18 NX
Heart muscle	14 NX

Spermatocytes	22 NX
Testis	22 NX

Spermatogonia	10 NX
Testis	10 NX

Suprabasal keratinocytes	53 NX
Skin	53 NX

Syncytiotrophoblasts	13 NX
Placenta	13 NX

T-cells	27 NX
Kidney	38 NX
Liver	35 NX
Lung	27 NX
Prostate	26 NX
Colon	25 NX
Skin	23 NX

Undifferentiated cells	18 NX
Colon	21 NX
Rectum	18 NX
Small intestine	16 NX

Urothelial cells	45 NX
Prostate	45 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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