Single cell type - USP31 - 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.	USP31
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin specific peptidase 31
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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.	3

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	Oligodendrocytes - Myelin sheath organization (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 (Oligodendrocytes)
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	Not detected in immune cells
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	Not detected
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 (Oligodendrocytes)

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

USP31 is part of cluster 42 Oligodendrocytes - Myelin sheath organization with confidenceⁱ 1
385 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
CPEB1	Cytoplasmic polyadenylation element binding protein 1	0.6285	42
DLG1	Discs large MAGUK scaffold protein 1	0.5946	42
IFT80	Intraflagellar transport 80	0.5774	42
DIP2B	Disco interacting protein 2 homolog B	0.5689	42
HS3ST5	Heparan sulfate-glucosamine 3-sulfotransferase 5	0.5647	42
FMNL2	Formin like 2	0.5643	42
PRRG1	Proline rich and Gla domain 1	0.5640	42
PKP4	Plakophilin 4	0.5640	42
PRR18	Proline rich 18	0.5539	42
FAM13C	Family with sequence similarity 13 member C	0.5381	42
PTBP2	Polypyrimidine tract binding protein 2	0.5317	42
PLEKHH1	Pleckstrin homology, MyTH4 and FERM domain containing H1	0.5287	42
MAG	Myelin associated glycoprotein	0.5172	42
COL4A5	Collagen type IV alpha 5 chain	0.5170	42
KLHL4	Kelch like family member 4	0.5168	42

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	25.9 nTPM
Adipose tissue	37.2 nTPM
Breast	14.5 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	3.7 nTPM
Lung	3.7 nTPM

Astrocytes	11.1 nTPM
Brain	11.1 nTPM

B-cells	2.2 nTPM
Liver	5.0 nTPM
Kidney	4.8 nTPM
Breast	2.6 nTPM
Adipose tissue	2.5 nTPM
Spleen	2.4 nTPM
Colon	1.6 nTPM
PBMC	1.4 nTPM
Lymph node	1.2 nTPM
Stomach	0.5 nTPM
Bone marrow	0.0 nTPM

Dendritic cells	3.6 nTPM
Adipose tissue	5.8 nTPM
Breast	5.1 nTPM
PBMC	0.0 nTPM

Endothelial cells	17.6 nTPM
Ovary	31.8 nTPM
Prostate	27.1 nTPM
Skin	25.7 nTPM
Skeletal muscle	24.7 nTPM
Endometrium	18.8 nTPM
Breast	18.6 nTPM
Placenta	16.5 nTPM
Esophagus	16.3 nTPM
Lung	15.6 nTPM
Pancreas	15.5 nTPM
Heart muscle	13.1 nTPM
Liver	10.1 nTPM
Testis	9.5 nTPM
Eye	3.3 nTPM

Fibroblasts	6.9 nTPM
Skeletal muscle	12.1 nTPM
Skin	10.1 nTPM
Prostate	9.5 nTPM
Esophagus	9.2 nTPM
Adipose tissue	8.4 nTPM
Breast	5.9 nTPM
Lung	5.6 nTPM
Ovary	5.4 nTPM
Heart muscle	3.3 nTPM
Placenta	3.1 nTPM
Stomach	3.0 nTPM

Intestinal goblet cells	3.5 nTPM
Rectum	4.6 nTPM
Small intestine	4.5 nTPM
Colon	1.4 nTPM

Macrophages	5.0 nTPM
PBMC	13.6 nTPM
Ovary	8.6 nTPM
Skeletal muscle	8.0 nTPM
Esophagus	7.9 nTPM
Endometrium	5.1 nTPM
Adipose tissue	5.1 nTPM
Kidney	4.6 nTPM
Testis	4.0 nTPM
Breast	3.4 nTPM
Spleen	3.1 nTPM
Stomach	2.9 nTPM
Pancreas	2.5 nTPM
Lung	2.4 nTPM
Prostate	2.2 nTPM
Bone marrow	1.2 nTPM

Paneth cells	2.0 nTPM
Rectum	6.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	2.8 nTPM
Adipose tissue	6.4 nTPM
Bone marrow	3.3 nTPM
Spleen	3.2 nTPM
Stomach	0.9 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	17.6 nTPM
Bronchus	26.4 nTPM
Lung	8.7 nTPM

Smooth muscle cells	11.2 nTPM
Prostate	16.2 nTPM
Skeletal muscle	14.7 nTPM
Esophagus	14.0 nTPM
Endometrium	13.6 nTPM
Adipose tissue	13.5 nTPM
Ovary	12.8 nTPM
Bronchus	12.3 nTPM
Skin	8.4 nTPM
Breast	7.5 nTPM
Heart muscle	5.3 nTPM
Pancreas	4.8 nTPM

T-cells	2.9 nTPM
Skin	8.8 nTPM
Adipose tissue	6.2 nTPM
Skeletal muscle	5.7 nTPM
Endometrium	5.3 nTPM
Prostate	4.7 nTPM
Breast	3.0 nTPM
PBMC	2.5 nTPM
Ovary	2.2 nTPM
Spleen	2.1 nTPM
Liver	2.0 nTPM
Lymph node	1.8 nTPM
Stomach	1.5 nTPM
Kidney	1.4 nTPM
Bone marrow	1.3 nTPM
Colon	0.5 nTPM
Lung	0.0 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	66.8 nTPM
Skin	66.8 nTPM

Basal prostatic cells	62.7 nTPM
Prostate	62.7 nTPM

Basal respiratory cells	35.5 nTPM
Bronchus	35.5 nTPM

Basal squamous epithelial cells	44.9 nTPM
Esophagus	44.9 nTPM

Undifferentiated cells	6.4 nTPM
Rectum	8.4 nTPM
Colon	6.4 nTPM
Small intestine	4.4 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