Single cell type - PRUNE2 - The Human Protein Atlas

PRUNE2

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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.	PRUNE2
Gene descriptionⁱ Full gene name according to HGNC.	Prune homolog 2 with BCH domain
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.	Membrane, Intracellular
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 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 enriched (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.	0.74
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.	Cell type enhanced (Oligodendrocyte)
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 enriched (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: Cell type enhanced (Oligodendrocyte)

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

PRUNE2 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.
TTLL7	Tubulin tyrosine ligase like 7	0.6964	51
UGT8	UDP glycosyltransferase 8	0.6639	51
PLEKHH1	Pleckstrin homology, MyTH4 and FERM domain containing H1	0.6616	51
EDIL3	EGF like repeats and discoidin domains 3	0.6470	51
USP54	Ubiquitin specific peptidase 54	0.6357	51
OR9A2	Olfactory receptor family 9 subfamily A member 2	0.6265	51
SLC5A11	Solute carrier family 5 member 11	0.6235	51
MOG	Myelin oligodendrocyte glycoprotein	0.6198	51
CARNS1	Carnosine synthase 1	0.6188	51
OPALIN	Oligodendrocytic myelin paranodal and inner loop protein	0.6155	51
ST18	ST18 C2H2C-type zinc finger transcription factor	0.6088	51
FAM124A	Family with sequence similarity 124 member A	0.6087	51
MYO1D	Myosin ID	0.6087	51
SLCO1A2	Solute carrier organic anion transporter family member 1A2	0.6044	51
RNF220	Ring finger protein 220	0.6026	51

IMMUNE CELLS

PRUNE2 is part of cluster 2 Dendritic cells - Unknown function with confidenceⁱ 0.92
342 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.
KIAA2013	KIAA2013	0.9762	38
BAZ2A	Bromodomain adjacent to zinc finger domain 2A	0.9524	38
ETV6	ETS variant transcription factor 6	0.9524	38
ZBTB7A	Zinc finger and BTB domain containing 7A	0.9286	2
MTMR10	Myotubularin related protein 10	0.9286	38
STS	Steroid sulfatase	0.9286	2
ZNF106	Zinc finger protein 106	0.9286	38
TAOK1	TAO kinase 1	0.9286	2
BTG2	BTG anti-proliferation factor 2	0.9286	2
HDAC5	Histone deacetylase 5	0.9286	2
ARHGAP27	Rho GTPase activating protein 27	0.9286	2
TLE3	TLE family member 3, transcriptional corepressor	0.9286	35
USF1	Upstream transcription factor 1	0.9286	38
CORO1C	Coronin 1C	0.9048	38
SKAP2	Src kinase associated phosphoprotein 2	0.9048	2

Adipocytes	0.6 nTPM
Adipose tissue	0.6 nTPM
Breast	0.5 nTPM

Alveolar cells type 1	0.6 nTPM
Lung	0.6 nTPM

Alveolar cells type 2	5.1 nTPM
Lung	5.1 nTPM

Astrocytes	26.3 nTPM
Brain	26.3 nTPM

B-cells	0.3 nTPM
Skin	1.7 nTPM
Salivary gland	1.3 nTPM
Thymus	1.2 nTPM
Spleen	0.4 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	43.8 nTPM
Fallopian tube	72.0 nTPM
Lung	53.3 nTPM
Endometrium	37.8 nTPM
Bronchus	12.0 nTPM

Club cells	1.0 nTPM
Lung	1.6 nTPM
Bronchus	0.9 nTPM
Prostate	0.4 nTPM

Endothelial cells	4.4 nTPM
Liver	26.5 nTPM
Breast	10.5 nTPM
Placenta	5.7 nTPM
Vascular	5.0 nTPM
Thymus	4.7 nTPM
Salivary gland	4.2 nTPM
Fallopian tube	3.7 nTPM
Endometrium	3.2 nTPM
Heart muscle	2.8 nTPM
Pancreas	2.6 nTPM
Lung	2.0 nTPM
Testis	1.5 nTPM
Esophagus	1.4 nTPM
Ovary	1.4 nTPM
Skin	1.0 nTPM
Skeletal muscle	1.0 nTPM
Prostate	1.0 nTPM
Tongue	0.4 nTPM

Enteroendocrine cells	44.3 nTPM
Small intestine	92.7 nTPM
Rectum	33.5 nTPM
Colon	6.6 nTPM

Fibroblasts	6.0 nTPM
Liver	30.8 nTPM
Vascular	17.2 nTPM
Salivary gland	7.7 nTPM
Skin	7.2 nTPM
Thymus	7.1 nTPM
Skeletal muscle	5.9 nTPM
Stomach	4.3 nTPM
Heart muscle	3.5 nTPM
Esophagus	2.8 nTPM
Lung	2.6 nTPM
Fallopian tube	2.4 nTPM
Adipose tissue	1.4 nTPM
Prostate	1.3 nTPM
Breast	0.5 nTPM
Placenta	0.4 nTPM
Pancreas	0.2 nTPM

Granulocytes	2.2 nTPM
Tongue	4.9 nTPM
Fallopian tube	1.7 nTPM
Lung	0.0 nTPM

Intestinal goblet cells	52.2 nTPM
Small intestine	111.0 nTPM
Colon	25.1 nTPM
Rectum	20.6 nTPM

Lymphatic endothelial cells	10.3 nTPM
Fallopian tube	15.2 nTPM
Ovary	5.5 nTPM

Macrophages	4.2 nTPM
Vascular	10.9 nTPM
Salivary gland	10.6 nTPM
Thymus	8.0 nTPM
Esophagus	6.4 nTPM
Skin	5.6 nTPM
Stomach	5.1 nTPM
Kidney	4.4 nTPM
Testis	4.3 nTPM
Pancreas	4.1 nTPM
Skeletal muscle	4.1 nTPM
Adipose tissue	3.6 nTPM
Fallopian tube	3.6 nTPM
Prostate	2.1 nTPM
Bone marrow	2.0 nTPM
Lung	1.6 nTPM
Breast	1.6 nTPM
Tongue	1.2 nTPM
Endometrium	0.6 nTPM
Spleen	0.0 nTPM

Paneth cells	7.3 nTPM
Small intestine	17.3 nTPM
Colon	3.6 nTPM
Rectum	1.0 nTPM

Basal prostatic cells	4.0 nTPM
Prostate	4.0 nTPM

Bipolar cells	37.4 nTPM
Eye	37.4 nTPM

Collecting duct cells	13.6 nTPM
Kidney	13.6 nTPM

Endometrial stromal cells	4.6 nTPM
Endometrium	4.6 nTPM

Plasma cells	0.7 nTPM
Fallopian tube	3.5 nTPM
Salivary gland	0.9 nTPM
Thymus	0.7 nTPM
Liver	0.5 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	1.4 nTPM
Vascular	4.2 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	48.4 nTPM
Salivary gland	87.9 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	39.1 nTPM
Vascular	176.6 nTPM
Thymus	129.5 nTPM
Salivary gland	90.0 nTPM
Fallopian tube	87.9 nTPM
Prostate	29.2 nTPM
Skin	22.4 nTPM
Tongue	19.5 nTPM
Liver	14.9 nTPM
Breast	12.1 nTPM
Esophagus	12.0 nTPM
Lung	9.4 nTPM
Placenta	6.6 nTPM
Skeletal muscle	5.5 nTPM
Ovary	4.5 nTPM
Endometrium	3.1 nTPM
Adipose tissue	2.9 nTPM

T-cells	0.9 nTPM
Kidney	3.5 nTPM
Tongue	2.6 nTPM
Vascular	2.4 nTPM
Endometrium	1.9 nTPM
Skin	1.4 nTPM
Prostate	1.3 nTPM
Fallopian tube	1.2 nTPM
Adipose tissue	0.8 nTPM
Liver	0.6 nTPM
Salivary gland	0.6 nTPM
Lung	0.5 nTPM
Thymus	0.5 nTPM
PBMC	0.2 nTPM
Breast	0.2 nTPM
Bone marrow	0.1 nTPM
Stomach	0.1 nTPM
Colon	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	5.3 nTPM
Small intestine	8.2 nTPM
Colon	4.9 nTPM
Rectum	2.7 nTPM

Amygdala excitatory	129.4 nTPM
Thalamus	191.0 nTPM
Basal ganglia	133.4 nTPM
Hippocampus	121.6 nTPM
Cerebral cortex	117.4 nTPM
Hypothalamus	115.4 nTPM
Amygdala	97.3 nTPM

Astrocyte	95.5 nTPM
Spinal cord	392.1 nTPM
Hypothalamus	178.2 nTPM
Medulla oblongata	92.6 nTPM
Amygdala	63.4 nTPM
Thalamus	53.3 nTPM
Midbrain	50.3 nTPM
Basal ganglia	48.1 nTPM
Hippocampus	48.0 nTPM
Pons	43.4 nTPM
Cerebral cortex	41.4 nTPM
Cerebellum	39.4 nTPM

Bergmann glia	234.1 nTPM
Cerebellum	316.3 nTPM
Pons	202.8 nTPM
Medulla oblongata	183.3 nTPM

Central nervous system macrophage	28.8 nTPM
Amygdala	60.7 nTPM
Cerebral cortex	47.5 nTPM
Hippocampus	45.4 nTPM
Thalamus	27.9 nTPM
Cerebellum	25.9 nTPM
Spinal cord	24.4 nTPM
Midbrain	24.0 nTPM
Hypothalamus	20.4 nTPM
Basal ganglia	16.9 nTPM
Pons	14.5 nTPM
Medulla oblongata	9.2 nTPM

Cerebellar inhibitory	73.1 nTPM
Medulla oblongata	102.0 nTPM
Pons	84.3 nTPM
Midbrain	70.9 nTPM
Cerebellum	64.5 nTPM
Spinal cord	44.0 nTPM

Cge interneuron	115.4 nTPM
Hypothalamus	138.9 nTPM
Amygdala	126.0 nTPM
Basal ganglia	121.9 nTPM
Cerebral cortex	119.9 nTPM
Hippocampus	111.1 nTPM
Midbrain	100.4 nTPM
Thalamus	89.8 nTPM

Choroid plexus epithelial cell	41.6 nTPM
Thalamus	137.0 nTPM
Medulla oblongata	17.4 nTPM
Basal ganglia	9.0 nTPM
Hippocampus	2.8 nTPM

Committed oligodendrocyte precursor	593.8 nTPM
Thalamus	1765.7 nTPM
Hypothalamus	1236.5 nTPM
Amygdala	978.3 nTPM
Basal ganglia	450.6 nTPM
Cerebral cortex	398.4 nTPM
Hippocampus	378.0 nTPM
Pons	308.1 nTPM
Cerebellum	304.4 nTPM
Midbrain	273.0 nTPM
Medulla oblongata	232.4 nTPM
Spinal cord	206.0 nTPM

Deep-layer corticothalamic and 6b	125.5 nTPM
Hippocampus	253.2 nTPM
Hypothalamus	119.5 nTPM
Amygdala	109.4 nTPM
Basal ganglia	99.5 nTPM
Midbrain	98.7 nTPM
Cerebral cortex	72.8 nTPM

Deep-layer intratelencephalic	246.5 nTPM
Hypothalamus	297.6 nTPM
Hippocampus	287.9 nTPM
Cerebral cortex	278.6 nTPM
Basal ganglia	221.7 nTPM
Amygdala	146.8 nTPM

Deep-layer near-projecting	142.4 nTPM
Basal ganglia	186.5 nTPM
Amygdala	147.2 nTPM
Hypothalamus	146.0 nTPM
Cerebral cortex	123.3 nTPM
Hippocampus	109.0 nTPM

Eccentric medium spiny neuron	60.5 nTPM
Amygdala	69.9 nTPM
Hypothalamus	67.1 nTPM
Cerebral cortex	64.3 nTPM
Thalamus	59.4 nTPM
Basal ganglia	58.9 nTPM
Hippocampus	43.5 nTPM

Endothelial cell	20.7 nTPM
Midbrain	29.3 nTPM
Hypothalamus	26.1 nTPM
Hippocampus	24.4 nTPM
Cerebellum	24.0 nTPM
Thalamus	23.7 nTPM
Pons	20.0 nTPM
Cerebral cortex	19.8 nTPM
Amygdala	16.8 nTPM
Medulla oblongata	16.4 nTPM
Spinal cord	13.8 nTPM
Basal ganglia	13.0 nTPM

Ependymal cell	97.3 nTPM
Spinal cord	274.1 nTPM
Hypothalamus	171.3 nTPM
Amygdala	111.5 nTPM
Midbrain	66.7 nTPM
Hippocampus	61.0 nTPM
Basal ganglia	56.9 nTPM
Thalamus	46.6 nTPM
Pons	44.0 nTPM
Medulla oblongata	43.2 nTPM