Single cell type - ERCC5 - The Human Protein Atlas

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.	ERCC5
Gene descriptionⁱ Full gene name according to HGNC.	ERCC excision repair 5, endonuclease
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes 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
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	T-cells - T-cell receptor (mainly)
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 (Early spermatids, Gastric mucus-secreting cells)
Immune 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 immune cell specificity
Immune 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. Read more	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. Read more	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 (nTPM) 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 (Early spermatids, Gastric mucus-secreting cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

ERCC5 is part of cluster 58 T-cells - T-cell receptor with confidenceⁱ 1
180 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
TRBV12-5	T cell receptor beta variable 12-5	0.6689	58
TRBV5-6	T cell receptor beta variable 5-6	0.6674	58
TRAV30	T cell receptor alpha variable 30	0.6542	58
TRBV30	T cell receptor beta variable 30	0.6523	58
TRAV24	T cell receptor alpha variable 24	0.6520	58
TRAV3	T cell receptor alpha variable 3	0.6505	58
TRAV9-2	T cell receptor alpha variable 9-2	0.6480	58
TRBV6-6	T cell receptor beta variable 6-6	0.6468	58
TRBV19	T cell receptor beta variable 19	0.6461	58
TRBV5-5	T cell receptor beta variable 5-5	0.6415	58
TRAV8-6	T cell receptor alpha variable 8-6	0.6404	58
TRBV20-1	T cell receptor beta variable 20-1	0.6402	58
TRBV24-1	T cell receptor beta variable 24-1	0.6400	58
TRBV27	T cell receptor beta variable 27	0.6380	58
TRBV6-2	T cell receptor beta variable 6-2	0.6369	58

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated 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 Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	2.2 nTPM
Breast	2.8 nTPM
Adipose tissue	1.5 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	9.5 nTPM
Lung	9.5 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	22.2 nTPM
Bone marrow	42.5 nTPM
Lymph node	40.7 nTPM
Stomach	39.1 nTPM
Spleen	31.8 nTPM
Liver	21.2 nTPM
PBMC	17.1 nTPM
Colon	12.8 nTPM
Breast	6.6 nTPM
Adipose tissue	5.5 nTPM
Kidney	4.8 nTPM

Dendritic cells	7.3 nTPM
Adipose tissue	11.4 nTPM
Breast	10.6 nTPM
PBMC	0.0 nTPM

Endothelial cells	8.6 nTPM
Lung	21.8 nTPM
Heart muscle	18.9 nTPM
Skeletal muscle	14.8 nTPM
Testis	14.5 nTPM
Esophagus	13.4 nTPM
Liver	11.0 nTPM
Placenta	10.2 nTPM
Skin	7.3 nTPM
Endometrium	3.5 nTPM
Breast	1.9 nTPM
Prostate	1.7 nTPM
Ovary	1.0 nTPM
Eye	0.0 nTPM
Pancreas	0.0 nTPM

Fibroblasts	11.0 nTPM
Esophagus	25.6 nTPM
Stomach	23.7 nTPM
Heart muscle	18.4 nTPM
Skeletal muscle	14.8 nTPM
Lung	8.9 nTPM
Skin	8.2 nTPM
Placenta	8.1 nTPM
Prostate	5.5 nTPM
Adipose tissue	3.4 nTPM
Breast	3.1 nTPM
Ovary	0.8 nTPM

Intestinal goblet cells	22.3 nTPM
Small intestine	24.3 nTPM
Colon	21.5 nTPM
Rectum	21.1 nTPM

Macrophages	14.0 nTPM
Esophagus	36.2 nTPM
Skeletal muscle	29.2 nTPM
Bone marrow	26.2 nTPM
Testis	22.1 nTPM
Spleen	21.8 nTPM
Lung	21.3 nTPM
Stomach	20.5 nTPM
Prostate	8.1 nTPM
Breast	7.4 nTPM
Kidney	6.1 nTPM
Endometrium	5.8 nTPM
Adipose tissue	3.8 nTPM
Ovary	1.8 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM

Paneth cells	16.7 nTPM
Small intestine	18.8 nTPM
Rectum	18.0 nTPM
Colon	13.2 nTPM

Plasma cells	21.5 nTPM
Stomach	35.3 nTPM
Spleen	30.6 nTPM
Esophagus	18.4 nTPM
Bone marrow	14.8 nTPM
Adipose tissue	8.4 nTPM

Respiratory ciliated cells	11.4 nTPM
Bronchus	15.5 nTPM
Lung	7.3 nTPM

Smooth muscle cells	6.7 nTPM
Heart muscle	20.6 nTPM
Esophagus	12.4 nTPM
Skin	9.8 nTPM
Skeletal muscle	9.8 nTPM
Bronchus	5.7 nTPM
Endometrium	5.6 nTPM
Prostate	3.7 nTPM
Breast	2.9 nTPM
Adipose tissue	1.2 nTPM
Ovary	1.1 nTPM
Pancreas	1.0 nTPM

T-cells	31.3 nTPM
Lymph node	81.4 nTPM
Spleen	76.6 nTPM
Lung	50.1 nTPM
Bone marrow	49.6 nTPM
Stomach	48.0 nTPM
Skeletal muscle	33.1 nTPM
Esophagus	32.8 nTPM
Colon	30.4 nTPM
Skin	28.1 nTPM
Liver	27.8 nTPM
PBMC	25.7 nTPM
Breast	17.7 nTPM
Prostate	9.5 nTPM
Adipose tissue	8.9 nTPM
Endometrium	8.3 nTPM
Kidney	4.7 nTPM
Ovary	0.0 nTPM

Basal keratinocytes	7.1 nTPM
Skin	7.1 nTPM

Basal respiratory cells	11.5 nTPM
Bronchus	11.5 nTPM

Basal squamous epithelial cells	16.5 nTPM
Esophagus	16.5 nTPM

Cholangiocytes	14.3 nTPM
Liver	14.3 nTPM

Undifferentiated cells	18.2 nTPM
Rectum	18.8 nTPM
Colon	18.2 nTPM
Small intestine	17.7 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC