Single cell type - USP37 - The Human Protein Atlas

USP37

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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.	USP37
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin specific peptidase 37
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes Metabolic proteins 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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	5

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.	Late spermatids - Unknown function (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.	Cell type enhanced (Late spermatids, Early spermatids)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.50
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Low cell type specificity
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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Cell type enhanced (Late spermatids, Early spermatids)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

USP37 is part of cluster 11 Late spermatids - Unknown function with confidenceⁱ 1
430 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NUP58	Nucleoporin 58	0.5419	29
PDE12	Phosphodiesterase 12	0.5052	39
ATF2	Activating transcription factor 2	0.4989	11
ZMYM2	Zinc finger MYM-type containing 2	0.4841	36
EFCAB6	EF-hand calcium binding domain 6	0.4764	63
NAF1	Nuclear assembly factor 1 ribonucleoprotein	0.4659	80
MAT2A	Methionine adenosyltransferase 2A	0.4554	80
THAP2	THAP domain containing 2	0.4544	29
WDR20	WD repeat domain 20	0.4464	11
FBXO11	F-box protein 11	0.4460	29
SPDYE1	Speedy/RINGO cell cycle regulator family member E1	0.4460	13
NUP98	Nucleoporin 98 and 96 precursor	0.4409	78
DCUN1D3	Defective in cullin neddylation 1 domain containing 3	0.4345	29
LONRF1	LON peptidase N-terminal domain and ring finger 1	0.4338	29
GARIN1B	Golgi associated RAB2 interactor 1B	0.4280	11

IMMUNE CELLS

USP37 is part of cluster 5 Non-specific - Cell proliferation with confidenceⁱ 0.98
689 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CEP41	Centrosomal protein 41	0.9524	3
PAAF1	Proteasomal ATPase associated factor 1	0.9286	5
SNRPN	Small nuclear ribonucleoprotein polypeptide N	0.9048	30
KLHL36	Kelch like family member 36	0.9048	41
SRSF11	Serine and arginine rich splicing factor 11	0.8810	5
ZNF480	Zinc finger protein 480	0.8810	30
ZNF721	Zinc finger protein 721	0.8810	22
NSMCE1	NSE1 homolog, SMC5-SMC6 complex component	0.8810	41
TMEM223	Transmembrane protein 223	0.8810	3
PHAX	Phosphorylated adaptor for RNA export	0.8810	3
OR3A2	Olfactory receptor family 3 subfamily A member 2	0.8571	30
PLPP1	Phospholipid phosphatase 1	0.8571	3
KRTCAP2	Keratinocyte associated protein 2	0.8571	5
SLC35B2	Solute carrier family 35 member B2	0.8571	5
TGS1	Trimethylguanosine synthase 1	0.8571	22

Adipocytes	12.8 nTPM
Adipose tissue	14.0 nTPM
Breast	11.6 nTPM

Alveolar cells type 1	9.3 nTPM
Lung	9.3 nTPM

Alveolar cells type 2	13.0 nTPM
Lung	13.0 nTPM

Astrocytes	32.5 nTPM
Brain	32.5 nTPM

B-cells	15.8 nTPM
Skin	23.7 nTPM
Esophagus	23.6 nTPM
Spleen	21.2 nTPM
Lymph node	19.1 nTPM
Adipose tissue	18.5 nTPM
Salivary gland	15.6 nTPM
Stomach	15.2 nTPM
Liver	14.5 nTPM
Thymus	14.5 nTPM
Bone marrow	12.5 nTPM
Kidney	10.4 nTPM
PBMC	9.2 nTPM
Lung	6.7 nTPM

Ciliated cells	11.3 nTPM
Fallopian tube	13.6 nTPM
Endometrium	11.6 nTPM
Bronchus	10.0 nTPM
Lung	9.9 nTPM

Club cells	9.7 nTPM
Prostate	11.1 nTPM
Lung	10.5 nTPM
Bronchus	7.5 nTPM

Endothelial cells	12.2 nTPM
Esophagus	19.8 nTPM
Endometrium	17.5 nTPM
Skin	16.7 nTPM
Salivary gland	16.6 nTPM
Fallopian tube	16.3 nTPM
Skeletal muscle	16.0 nTPM
Prostate	15.0 nTPM
Vascular	14.7 nTPM
Heart muscle	14.4 nTPM
Thymus	13.0 nTPM
Tongue	12.0 nTPM
Lung	11.0 nTPM
Ovary	9.0 nTPM
Testis	8.2 nTPM
Pancreas	7.8 nTPM
Breast	4.4 nTPM
Placenta	4.0 nTPM
Liver	3.8 nTPM

Enteroendocrine cells	8.2 nTPM
Rectum	11.7 nTPM
Colon	9.4 nTPM
Small intestine	3.4 nTPM

Fibroblasts	11.0 nTPM
Fallopian tube	22.8 nTPM
Stomach	14.4 nTPM
Skin	13.6 nTPM
Skeletal muscle	13.2 nTPM
Prostate	12.5 nTPM
Esophagus	12.4 nTPM
Salivary gland	11.7 nTPM
Breast	10.9 nTPM
Liver	10.7 nTPM
Heart muscle	9.5 nTPM
Vascular	9.4 nTPM
Thymus	9.2 nTPM
Adipose tissue	8.8 nTPM
Placenta	7.2 nTPM
Lung	7.0 nTPM
Pancreas	3.1 nTPM

Granulocytes	15.4 nTPM
Fallopian tube	27.5 nTPM
Tongue	9.7 nTPM
Lung	9.1 nTPM

Intestinal goblet cells	7.8 nTPM
Colon	9.3 nTPM
Rectum	8.0 nTPM
Small intestine	5.9 nTPM

Lymphatic endothelial cells	9.2 nTPM
Fallopian tube	12.9 nTPM
Ovary	5.5 nTPM

Macrophages	19.6 nTPM
Adipose tissue	46.8 nTPM
Skin	39.0 nTPM
Fallopian tube	36.5 nTPM
Skeletal muscle	31.4 nTPM
Tongue	27.2 nTPM
Esophagus	23.1 nTPM
Breast	18.9 nTPM
Vascular	18.3 nTPM
Endometrium	17.2 nTPM
Salivary gland	17.0 nTPM
Spleen	16.0 nTPM
Thymus	13.4 nTPM
Stomach	12.9 nTPM
Prostate	12.6 nTPM
Testis	11.2 nTPM
Lung	9.6 nTPM
Bone marrow	9.1 nTPM
Kidney	8.0 nTPM
Pancreas	4.1 nTPM

Paneth cells	8.2 nTPM
Small intestine	13.8 nTPM
Rectum	7.0 nTPM
Colon	3.6 nTPM

Basal prostatic cells	11.4 nTPM
Prostate	11.4 nTPM

Basal squamous epithelial cells	18.6 nTPM
Esophagus	18.6 nTPM

Bipolar cells	8.9 nTPM
Eye	8.9 nTPM

Cholangiocytes	0.0 nTPM
Liver	0.0 nTPM

Plasma cells	11.4 nTPM
Bone marrow	15.1 nTPM
Stomach	14.2 nTPM
Spleen	14.0 nTPM
Fallopian tube	13.2 nTPM
Thymus	13.0 nTPM
Salivary gland	11.2 nTPM
Esophagus	5.2 nTPM
Liver	5.0 nTPM

Schwann cells	25.4 nTPM
Adipose tissue	40.2 nTPM
Vascular	24.0 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	5.2 nTPM
Salivary gland	10.3 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	18.6 nTPM
Skin	86.7 nTPM
Fallopian tube	35.5 nTPM
Skeletal muscle	20.9 nTPM
Esophagus	19.2 nTPM
Endometrium	16.4 nTPM
Adipose tissue	14.7 nTPM
Thymus	14.4 nTPM
Salivary gland	13.3 nTPM
Liver	12.3 nTPM
Breast	12.3 nTPM
Tongue	12.0 nTPM
Ovary	10.0 nTPM
Vascular	9.8 nTPM
Prostate	7.3 nTPM
Lung	7.1 nTPM
Placenta	5.7 nTPM

Suprabasal keratinocytes	16.2 nTPM
Skin	23.3 nTPM
Tongue	9.0 nTPM

T-cells	17.7 nTPM
Adipose tissue	28.5 nTPM
Lymph node	27.8 nTPM
Fallopian tube	23.5 nTPM
Spleen	22.2 nTPM
Vascular	22.1 nTPM
Thymus	21.6 nTPM
Breast	20.5 nTPM
Skeletal muscle	20.4 nTPM
Skin	20.3 nTPM
Stomach	20.1 nTPM
Bone marrow	18.2 nTPM
Prostate	18.0 nTPM
Salivary gland	16.6 nTPM
Colon	15.6 nTPM
Endometrium	15.4 nTPM
Tongue	14.7 nTPM
Esophagus	12.2 nTPM
Lung	11.3 nTPM
PBMC	9.8 nTPM
Liver	6.5 nTPM
Kidney	6.2 nTPM

Undifferentiated cells	9.0 nTPM
Colon	11.6 nTPM
Rectum	8.3 nTPM
Small intestine	7.2 nTPM

Amygdala excitatory	77.8 nTPM
Hypothalamus	97.0 nTPM
Thalamus	79.4 nTPM
Amygdala	78.2 nTPM
Hippocampus	71.4 nTPM
Basal ganglia	71.2 nTPM
Cerebral cortex	69.5 nTPM

Astrocyte	70.9 nTPM
Amygdala	86.3 nTPM
Hypothalamus	80.8 nTPM
Midbrain	70.7 nTPM
Basal ganglia	69.8 nTPM
Thalamus	68.9 nTPM
Hippocampus	68.8 nTPM
Cerebellum	68.1 nTPM
Pons	67.1 nTPM
Spinal cord	67.0 nTPM
Cerebral cortex	66.4 nTPM
Medulla oblongata	65.6 nTPM

Bergmann glia	67.0 nTPM
Pons	74.8 nTPM
Cerebellum	70.6 nTPM
Medulla oblongata	55.4 nTPM

Central nervous system macrophage	101.1 nTPM
Amygdala	132.9 nTPM
Hypothalamus	116.3 nTPM
Midbrain	104.1 nTPM
Basal ganglia	100.7 nTPM
Hippocampus	100.5 nTPM
Spinal cord	100.1 nTPM
Pons	96.7 nTPM
Cerebellum	94.8 nTPM
Cerebral cortex	94.4 nTPM
Thalamus	90.8 nTPM
Medulla oblongata	81.2 nTPM

Cerebellar inhibitory	58.2 nTPM
Spinal cord	66.0 nTPM
Medulla oblongata	63.2 nTPM
Cerebellum	56.5 nTPM
Midbrain	54.7 nTPM
Pons	50.3 nTPM

Cge interneuron	54.8 nTPM
Hypothalamus	68.3 nTPM
Amygdala	59.7 nTPM
Thalamus	53.0 nTPM
Basal ganglia	52.0 nTPM
Cerebral cortex	51.7 nTPM
Midbrain	50.5 nTPM
Hippocampus	48.4 nTPM

Choroid plexus epithelial cell	52.2 nTPM
Basal ganglia	70.2 nTPM
Medulla oblongata	47.5 nTPM
Hippocampus	47.1 nTPM
Thalamus	43.8 nTPM

Committed oligodendrocyte precursor	55.1 nTPM
Hypothalamus	78.5 nTPM
Amygdala	70.5 nTPM
Thalamus	70.0 nTPM
Basal ganglia	61.3 nTPM
Cerebellum	55.5 nTPM
Cerebral cortex	53.2 nTPM
Midbrain	51.2 nTPM
Hippocampus	46.0 nTPM
Pons	43.4 nTPM
Spinal cord	40.5 nTPM
Medulla oblongata	36.1 nTPM

Deep-layer corticothalamic and 6b	70.5 nTPM
Hypothalamus	85.1 nTPM
Amygdala	75.1 nTPM
Midbrain	67.7 nTPM
Cerebral cortex	67.4 nTPM
Basal ganglia	64.0 nTPM
Hippocampus	63.7 nTPM

Deep-layer intratelencephalic	68.9 nTPM
Hypothalamus	81.6 nTPM
Amygdala	75.2 nTPM
Hippocampus	64.0 nTPM
Cerebral cortex	62.5 nTPM
Basal ganglia	61.2 nTPM

Deep-layer near-projecting	58.8 nTPM
Hypothalamus	74.1 nTPM
Basal ganglia	61.3 nTPM
Amygdala	59.8 nTPM
Cerebral cortex	53.4 nTPM
Hippocampus	45.2 nTPM

Eccentric medium spiny neuron	79.1 nTPM
Hypothalamus	89.8 nTPM
Basal ganglia	80.1 nTPM
Amygdala	77.7 nTPM
Hippocampus	77.1 nTPM
Thalamus	75.1 nTPM
Cerebral cortex	74.8 nTPM

Endothelial cell	79.6 nTPM
Hypothalamus	131.5 nTPM
Thalamus	82.5 nTPM
Hippocampus	82.4 nTPM
Midbrain	81.3 nTPM
Spinal cord	77.7 nTPM
Medulla oblongata	74.9 nTPM
Cerebral cortex	72.9 nTPM
Basal ganglia	70.8 nTPM
Pons	69.3 nTPM
Amygdala	68.2 nTPM
Cerebellum	64.3 nTPM