Single cell type - PSME4 - The Human Protein Atlas

PSME4

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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.	PSME4
Gene descriptionⁱ Full gene name according to HGNC.	Proteasome activator subunit 4
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.	1

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.	Oligodendrocytes - 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 (Oligodendrocytes)
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.	0.38
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.	Not detected in immune cells
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 (Oligodendrocytes)

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: Not detected in immune cells
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

PSME4 is part of cluster 51 Oligodendrocytes - Unknown function with confidenceⁱ 1
302 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.
KDM6A	Lysine demethylase 6A	0.5189	78
ATXN1	Ataxin 1	0.4981	65
FAR1	Fatty acyl-CoA reductase 1	0.4790	51
AGPAT4	1-acylglycerol-3-phosphate O-acyltransferase 4	0.4621	51
SYNJ2	Synaptojanin 2	0.4534	51
DDHD1	DDHD domain containing 1	0.4455	18
UBA6	Ubiquitin like modifier activating enzyme 6	0.4437	55
SENP5	SUMO specific peptidase 5	0.4355	39
FOXK2	Forkhead box K2	0.4345	33
DLG1	Discs large MAGUK scaffold protein 1	0.4323	51
SMURF1	SMAD specific E3 ubiquitin protein ligase 1	0.4322	51
NPC1	NPC intracellular cholesterol transporter 1	0.4309	72
FTCDNL1	Formiminotransferase cyclodeaminase N-terminal like	0.4302	51
ZRANB1	Zinc finger RANBP2-type containing 1	0.4294	55
ZBTB43	Zinc finger and BTB domain containing 43	0.4273	29

IMMUNE CELLS

PSME4 is part of cluster 32 Basophils - Transcription with confidenceⁱ 0.95
291 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.
CREB3L4	CAMP responsive element binding protein 3 like 4	0.9762	32
CCDC122	Coiled-coil domain containing 122	0.9762	32
ARL17A	ADP ribosylation factor like GTPase 17A	0.9762	32
CRTC1	CREB regulated transcription coactivator 1	0.9524	32
TRMT10B	TRNA methyltransferase 10B	0.9524	32
ZMYND8	Zinc finger MYND-type containing 8	0.9524	32
ENSG00000285827	Novel protein	0.9286	24
RGP1	RGP1 homolog, RAB6A GEF complex partner 1	0.9286	32
NPIPB4	Nuclear pore complex interacting protein family member B4	0.9286	32
SMARCC1	SWI/SNF related, matrix associated, actin dependent regulator of chromatin subfamily c member 1	0.9048	5
PEG10	Paternally expressed 10	0.9048	14
KNTC1	Kinetochore associated 1	0.9048	32
FKRP	Fukutin related protein	0.9048	20
ZBED2	Zinc finger BED-type containing 2	0.9048	14
ZDHHC21	Zinc finger DHHC-type palmitoyltransferase 21	0.9048	24

Adipocytes	18.2 nTPM
Adipose tissue	25.5 nTPM
Breast	10.8 nTPM

Alveolar cells type 1	31.3 nTPM
Lung	31.3 nTPM

Alveolar cells type 2	37.6 nTPM
Lung	37.6 nTPM

Astrocytes	55.1 nTPM
Brain	55.1 nTPM

B-cells	32.1 nTPM
Adipose tissue	54.3 nTPM
Salivary gland	36.7 nTPM
Kidney	36.4 nTPM
PBMC	35.4 nTPM
Thymus	33.7 nTPM
Lung	33.5 nTPM
Spleen	31.9 nTPM
Lymph node	31.1 nTPM
Bone marrow	29.4 nTPM
Skin	28.8 nTPM
Liver	24.2 nTPM
Stomach	23.6 nTPM
Esophagus	17.7 nTPM

Ciliated cells	39.8 nTPM
Endometrium	54.0 nTPM
Bronchus	48.4 nTPM
Lung	31.5 nTPM
Fallopian tube	25.2 nTPM

Club cells	36.4 nTPM
Bronchus	40.9 nTPM
Lung	39.9 nTPM
Prostate	28.4 nTPM

Dendritic cells	33.2 nTPM
Adipose tissue	51.9 nTPM
PBMC	14.4 nTPM

Endothelial cells	22.2 nTPM
Endometrium	42.8 nTPM
Pancreas	38.8 nTPM
Salivary gland	34.3 nTPM
Heart muscle	27.8 nTPM
Esophagus	25.0 nTPM
Skin	23.1 nTPM
Lung	22.8 nTPM
Fallopian tube	22.3 nTPM
Thymus	21.5 nTPM
Skeletal muscle	20.8 nTPM
Tongue	20.0 nTPM
Vascular	18.4 nTPM
Placenta	18.2 nTPM
Testis	16.2 nTPM
Prostate	15.7 nTPM
Ovary	12.1 nTPM
Breast	10.5 nTPM
Liver	10.1 nTPM

Enteroendocrine cells	20.8 nTPM
Rectum	25.2 nTPM
Small intestine	20.6 nTPM
Colon	16.6 nTPM

Fibroblasts	21.2 nTPM
Skin	35.8 nTPM
Fallopian tube	27.5 nTPM
Skeletal muscle	27.4 nTPM
Liver	26.1 nTPM
Salivary gland	26.0 nTPM
Heart muscle	24.2 nTPM
Pancreas	23.0 nTPM
Thymus	20.5 nTPM
Stomach	20.2 nTPM
Vascular	18.8 nTPM
Adipose tissue	18.7 nTPM
Lung	18.4 nTPM
Esophagus	17.5 nTPM
Prostate	11.9 nTPM
Placenta	11.6 nTPM
Breast	11.5 nTPM

Granulocytes	31.8 nTPM
Tongue	48.5 nTPM
Fallopian tube	28.8 nTPM
Lung	18.2 nTPM

Intestinal goblet cells	14.6 nTPM
Small intestine	16.0 nTPM
Colon	15.3 nTPM
Rectum	12.6 nTPM

Lymphatic endothelial cells	12.1 nTPM
Fallopian tube	18.7 nTPM
Ovary	5.5 nTPM

Macrophages	42.6 nTPM
Lung	74.0 nTPM
Adipose tissue	72.6 nTPM
Salivary gland	66.2 nTPM
Tongue	63.1 nTPM
Vascular	57.2 nTPM
Fallopian tube	56.4 nTPM
Spleen	52.1 nTPM
Thymus	43.9 nTPM
Esophagus	43.7 nTPM
Prostate	42.9 nTPM
Skeletal muscle	42.3 nTPM
Skin	35.7 nTPM
Bone marrow	30.4 nTPM
Endometrium	29.5 nTPM
Testis	26.7 nTPM
Stomach	20.6 nTPM
Kidney	20.4 nTPM
Breast	19.9 nTPM
Pancreas	12.3 nTPM

Basal keratinocytes	70.8 nTPM
Skin	92.5 nTPM
Tongue	49.0 nTPM

Basal prostatic cells	22.5 nTPM
Prostate	22.5 nTPM

Basal respiratory cells	37.1 nTPM
Bronchus	37.1 nTPM

Basal squamous epithelial cells	77.8 nTPM
Esophagus	77.8 nTPM

Paneth cells	15.5 nTPM
Colon	21.7 nTPM
Small intestine	13.8 nTPM
Rectum	10.9 nTPM

Plasma cells	34.2 nTPM
Thymus	49.1 nTPM
Bone marrow	42.3 nTPM
Esophagus	36.4 nTPM
Spleen	35.4 nTPM
Salivary gland	35.4 nTPM
Stomach	28.5 nTPM
Fallopian tube	23.8 nTPM
Liver	22.5 nTPM

Schwann cells	18.5 nTPM
Adipose tissue	41.0 nTPM
Vascular	14.6 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	37.3 nTPM
Salivary gland	39.3 nTPM
Tongue	35.4 nTPM

Smooth muscle cells	19.6 nTPM
Salivary gland	33.2 nTPM
Endometrium	32.9 nTPM
Skin	25.6 nTPM
Skeletal muscle	22.6 nTPM
Tongue	22.5 nTPM
Fallopian tube	20.7 nTPM
Prostate	20.1 nTPM
Adipose tissue	19.8 nTPM
Vascular	19.1 nTPM
Thymus	18.3 nTPM
Esophagus	16.8 nTPM
Lung	16.5 nTPM
Placenta	16.2 nTPM
Liver	11.9 nTPM
Breast	8.8 nTPM
Ovary	8.3 nTPM

Suprabasal keratinocytes	50.1 nTPM
Skin	68.5 nTPM
Tongue	31.8 nTPM

T-cells	38.3 nTPM
Adipose tissue	109.8 nTPM
Endometrium	70.0 nTPM
Skeletal muscle	60.1 nTPM
Skin	46.3 nTPM
Fallopian tube	46.0 nTPM
Tongue	42.7 nTPM
Lung	41.1 nTPM
Vascular	40.2 nTPM
Colon	35.1 nTPM
Stomach	32.2 nTPM
Thymus	31.2 nTPM
Spleen	30.6 nTPM
Bone marrow	30.4 nTPM
Salivary gland	29.9 nTPM
PBMC	29.3 nTPM
Liver	27.2 nTPM
Prostate	26.6 nTPM
Lymph node	23.2 nTPM
Breast	22.1 nTPM
Kidney	17.7 nTPM
Esophagus	12.2 nTPM

Undifferentiated cells	13.3 nTPM
Colon	14.1 nTPM
Rectum	13.4 nTPM
Small intestine	12.5 nTPM

Amygdala excitatory	103.3 nTPM
Hypothalamus	122.0 nTPM
Basal ganglia	114.1 nTPM
Amygdala	107.1 nTPM
Hippocampus	97.9 nTPM
Thalamus	93.9 nTPM
Cerebral cortex	84.8 nTPM

Astrocyte	178.0 nTPM
Hypothalamus	215.4 nTPM
Spinal cord	208.2 nTPM
Amygdala	194.1 nTPM
Midbrain	188.7 nTPM
Pons	185.5 nTPM
Medulla oblongata	180.8 nTPM
Basal ganglia	174.5 nTPM
Thalamus	166.1 nTPM
Cerebellum	159.1 nTPM
Hippocampus	147.1 nTPM
Cerebral cortex	139.0 nTPM

Bergmann glia	114.1 nTPM
Cerebellum	132.0 nTPM
Medulla oblongata	106.6 nTPM
Pons	103.6 nTPM

Central nervous system macrophage	255.2 nTPM
Amygdala	333.7 nTPM
Spinal cord	317.1 nTPM
Hippocampus	257.9 nTPM
Cerebellum	256.5 nTPM
Pons	255.4 nTPM
Midbrain	252.7 nTPM
Hypothalamus	247.1 nTPM
Thalamus	242.4 nTPM
Cerebral cortex	235.0 nTPM
Basal ganglia	215.1 nTPM
Medulla oblongata	194.8 nTPM

Cerebellar inhibitory	82.6 nTPM
Pons	85.7 nTPM
Midbrain	84.3 nTPM
Spinal cord	82.5 nTPM
Cerebellum	81.3 nTPM
Medulla oblongata	79.0 nTPM

Cge interneuron	95.9 nTPM
Thalamus	116.0 nTPM
Midbrain	100.1 nTPM
Hypothalamus	96.6 nTPM
Amygdala	94.2 nTPM
Cerebral cortex	90.8 nTPM
Basal ganglia	88.2 nTPM
Hippocampus	85.1 nTPM

Choroid plexus epithelial cell	164.0 nTPM
Basal ganglia	203.9 nTPM
Thalamus	175.4 nTPM
Medulla oblongata	166.0 nTPM
Hippocampus	110.9 nTPM

Committed oligodendrocyte precursor	144.8 nTPM
Hypothalamus	223.3 nTPM
Amygdala	217.6 nTPM
Thalamus	213.0 nTPM
Cerebral cortex	165.3 nTPM
Basal ganglia	147.8 nTPM
Hippocampus	131.2 nTPM
Pons	123.9 nTPM
Cerebellum	109.4 nTPM
Midbrain	108.4 nTPM
Medulla oblongata	90.4 nTPM
Spinal cord	62.5 nTPM

Deep-layer corticothalamic and 6b	138.4 nTPM
Amygdala	156.1 nTPM
Hippocampus	147.0 nTPM
Cerebral cortex	143.8 nTPM
Basal ganglia	134.9 nTPM
Midbrain	128.7 nTPM
Hypothalamus	120.0 nTPM

Deep-layer intratelencephalic	111.1 nTPM
Cerebral cortex	127.9 nTPM
Hippocampus	109.3 nTPM
Basal ganglia	107.5 nTPM
Amygdala	106.4 nTPM
Hypothalamus	104.6 nTPM

Deep-layer near-projecting	93.5 nTPM
Amygdala	105.8 nTPM
Cerebral cortex	99.3 nTPM
Basal ganglia	95.4 nTPM
Hypothalamus	84.1 nTPM
Hippocampus	82.9 nTPM

Eccentric medium spiny neuron	207.0 nTPM
Thalamus	252.4 nTPM
Basal ganglia	237.0 nTPM
Amygdala	206.7 nTPM
Hippocampus	194.0 nTPM
Cerebral cortex	187.5 nTPM
Hypothalamus	164.4 nTPM