Single cell type - PRDM10 - The Human Protein Atlas

PRDM10

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Pathway

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.	PRDM10
Gene descriptionⁱ Full gene name according to HGNC.	PR/SET domain 10
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Transcription factors
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.	8

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.	Astrocytes - 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 (Astrocytes, Excitatory neurons, Inhibitory neurons, 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.	0.59
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 (Astrocytes, Excitatory neurons, Inhibitory neurons, 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: 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

PRDM10 is part of cluster 47 Astrocytes - Unknown function with confidenceⁱ 1
196 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.
AHCYL2	Adenosylhomocysteinase like 2	0.5760	47
RPL36A-HNRNPH2	RPL36A-HNRNPH2 readthrough	0.5469	47
ZNF23	Zinc finger protein 23	0.5134	49
FAM156A	Family with sequence similarity 156 member A	0.4811	69
CRELD1	Cysteine rich with EGF like domains 1	0.4695	49
PRICKLE4	Prickle planar cell polarity protein 4	0.4683	47
NPFF	Neuropeptide FF-amide peptide precursor	0.4630	47
MTMR3	Myotubularin related protein 3	0.4621	74
CA12	Carbonic anhydrase 12	0.4591	5
STPG2	Sperm tail PG-rich repeat containing 2	0.4538	51
CPSF7	Cleavage and polyadenylation specific factor 7	0.4526	55
AIFM3	Apoptosis inducing factor mitochondria associated 3	0.4492	5
ZC3H11A	Zinc finger CCCH-type containing 11A	0.4440	49
SCAF4	SR-related CTD associated factor 4	0.4419	49
TNKS2	Tankyrase 2	0.4388	55

IMMUNE CELLS

PRDM10 is part of cluster 22 Eosinophils - Transcription with confidenceⁱ 1
357 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.
FAM228B	Family with sequence similarity 228 member B	1.0000	22
MLYCD	Malonyl-CoA decarboxylase	1.0000	22
TOR4A	Torsin family 4 member A	1.0000	22
BACE2	Beta-secretase 2	1.0000	22
HSD17B13	Hydroxysteroid 17-beta dehydrogenase 13	1.0000	22
GFI1B	Growth factor independent 1B transcriptional repressor	1.0000	22
CACNG6	Calcium voltage-gated channel auxiliary subunit gamma 6	1.0000	22
TSR3	TSR3 ribosome maturation factor	1.0000	22
RBM17	RNA binding motif protein 17	0.9762	22
SORD	Sorbitol dehydrogenase	0.9762	22
CCNG2	Cyclin G2	0.9762	22
KIAA1614	KIAA1614	0.9762	22
HILPDA	Hypoxia inducible lipid droplet associated	0.9762	22
RCOR3	REST corepressor 3	0.9762	22
ALMS1	ALMS1 centrosome and basal body associated protein	0.9762	22

Adipocytes	2.4 nTPM
Adipose tissue	2.6 nTPM
Breast	2.2 nTPM

Alveolar cells type 1	3.4 nTPM
Lung	3.4 nTPM

Alveolar cells type 2	2.7 nTPM
Lung	2.7 nTPM

B-cells	4.1 nTPM
Esophagus	17.7 nTPM
Spleen	6.0 nTPM
Lymph node	5.5 nTPM
Stomach	5.1 nTPM
Liver	4.8 nTPM
Thymus	4.5 nTPM
Bone marrow	4.4 nTPM
Skin	1.7 nTPM
Salivary gland	1.6 nTPM
Lung	1.3 nTPM
Adipose tissue	1.2 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM

Basal keratinocytes	4.4 nTPM
Skin	5.4 nTPM
Tongue	3.4 nTPM

Ciliated cells	2.8 nTPM
Bronchus	3.6 nTPM
Fallopian tube	3.0 nTPM
Lung	2.6 nTPM
Endometrium	1.9 nTPM

Club cells	3.4 nTPM
Lung	3.8 nTPM
Prostate	3.3 nTPM
Bronchus	3.0 nTPM

Endothelial cells	2.2 nTPM
Lung	4.1 nTPM
Salivary gland	3.4 nTPM
Endometrium	3.3 nTPM
Thymus	3.2 nTPM
Ovary	2.8 nTPM
Breast	2.6 nTPM
Liver	2.5 nTPM
Prostate	2.4 nTPM
Tongue	2.3 nTPM
Vascular	2.3 nTPM
Skeletal muscle	2.2 nTPM
Skin	2.0 nTPM
Fallopian tube	1.8 nTPM
Placenta	1.7 nTPM
Testis	1.5 nTPM
Esophagus	1.3 nTPM
Heart muscle	0.4 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	1.5 nTPM
Colon	4.4 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	2.5 nTPM
Esophagus	4.7 nTPM
Thymus	3.3 nTPM
Skin	3.2 nTPM
Placenta	3.0 nTPM
Stomach	2.9 nTPM
Salivary gland	2.8 nTPM
Adipose tissue	2.7 nTPM
Vascular	2.7 nTPM
Skeletal muscle	2.6 nTPM
Liver	2.4 nTPM
Lung	2.3 nTPM
Fallopian tube	2.2 nTPM
Prostate	2.0 nTPM
Breast	1.8 nTPM
Pancreas	1.0 nTPM
Heart muscle	0.8 nTPM

Granulocytes	1.0 nTPM
Lung	1.5 nTPM
Fallopian tube	1.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	3.6 nTPM
Colon	4.2 nTPM
Rectum	3.7 nTPM
Small intestine	2.9 nTPM

Lymphatic endothelial cells	1.3 nTPM
Fallopian tube	2.6 nTPM
Ovary	0.0 nTPM

Macrophages	3.3 nTPM
Stomach	7.7 nTPM
Esophagus	5.1 nTPM
Vascular	4.8 nTPM
Salivary gland	4.1 nTPM
Spleen	4.0 nTPM
Adipose tissue	3.9 nTPM
Thymus	3.9 nTPM
Fallopian tube	3.6 nTPM
Skin	3.3 nTPM
Bone marrow	3.0 nTPM
Skeletal muscle	2.9 nTPM
Tongue	2.8 nTPM
Lung	2.5 nTPM
Prostate	2.4 nTPM
Pancreas	2.1 nTPM
Kidney	1.8 nTPM
Endometrium	1.8 nTPM
Breast	1.8 nTPM
Testis	0.6 nTPM

Paneth cells	2.3 nTPM
Colon	3.6 nTPM
Rectum	3.2 nTPM
Small intestine	0.0 nTPM

Cytotrophoblasts	1.4 nTPM
Placenta	1.4 nTPM

Early spermatids	1.4 nTPM
Testis	1.4 nTPM

Plasma cells	2.5 nTPM
Thymus	3.8 nTPM
Salivary gland	3.6 nTPM
Spleen	3.4 nTPM
Bone marrow	3.0 nTPM
Stomach	2.9 nTPM
Fallopian tube	2.6 nTPM
Liver	1.0 nTPM
Esophagus	0.0 nTPM

Schwann cells	1.1 nTPM
Vascular	2.6 nTPM
Adipose tissue	0.8 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	2.0 nTPM
Salivary gland	3.9 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	2.5 nTPM
Esophagus	9.6 nTPM
Prostate	3.6 nTPM
Thymus	3.4 nTPM
Endometrium	3.1 nTPM
Adipose tissue	2.7 nTPM
Tongue	2.4 nTPM
Skin	2.0 nTPM
Vascular	2.0 nTPM
Skeletal muscle	1.9 nTPM
Breast	1.8 nTPM
Fallopian tube	1.8 nTPM
Placenta	1.6 nTPM
Liver	1.3 nTPM
Salivary gland	1.3 nTPM
Ovary	0.8 nTPM
Lung	0.0 nTPM

T-cells	3.0 nTPM
Lymph node	6.0 nTPM
Spleen	6.0 nTPM
Thymus	5.2 nTPM
Bone marrow	4.8 nTPM
Stomach	4.6 nTPM
Skeletal muscle	3.8 nTPM
Salivary gland	3.7 nTPM
Vascular	3.2 nTPM
Breast	3.0 nTPM
Kidney	2.7 nTPM
Adipose tissue	2.7 nTPM
Endometrium	2.5 nTPM
Esophagus	2.4 nTPM
Tongue	2.3 nTPM
Skin	2.1 nTPM
Lung	1.8 nTPM
Prostate	1.8 nTPM
Fallopian tube	1.7 nTPM
Liver	1.3 nTPM
Colon	1.0 nTPM
PBMC	0.5 nTPM

Undifferentiated cells	2.5 nTPM
Colon	2.8 nTPM
Rectum	2.5 nTPM
Small intestine	2.2 nTPM

Amygdala excitatory	35.6 nTPM
Hypothalamus	41.2 nTPM
Amygdala	37.8 nTPM
Cerebral cortex	35.6 nTPM
Hippocampus	34.1 nTPM
Basal ganglia	33.8 nTPM
Thalamus	31.3 nTPM

Astrocyte	30.0 nTPM
Amygdala	34.7 nTPM
Thalamus	32.4 nTPM
Midbrain	32.0 nTPM
Cerebral cortex	31.1 nTPM
Hypothalamus	31.0 nTPM
Hippocampus	30.9 nTPM
Pons	29.2 nTPM
Spinal cord	28.4 nTPM
Basal ganglia	27.9 nTPM
Cerebellum	26.7 nTPM
Medulla oblongata	25.9 nTPM

Bergmann glia	26.0 nTPM
Pons	33.1 nTPM
Cerebellum	30.1 nTPM
Medulla oblongata	14.9 nTPM

Central nervous system macrophage	41.0 nTPM
Amygdala	58.2 nTPM
Hypothalamus	46.2 nTPM
Hippocampus	44.3 nTPM
Midbrain	42.2 nTPM
Thalamus	41.0 nTPM
Pons	39.6 nTPM
Cerebral cortex	38.7 nTPM
Cerebellum	38.4 nTPM
Basal ganglia	37.6 nTPM
Medulla oblongata	36.7 nTPM
Spinal cord	27.7 nTPM

Cerebellar inhibitory	30.7 nTPM
Cerebellum	33.6 nTPM
Spinal cord	33.0 nTPM
Midbrain	30.5 nTPM
Pons	28.2 nTPM
Medulla oblongata	28.0 nTPM

Cge interneuron	29.0 nTPM
Hypothalamus	34.0 nTPM
Amygdala	30.2 nTPM
Thalamus	28.5 nTPM
Basal ganglia	27.9 nTPM
Cerebral cortex	27.9 nTPM
Hippocampus	27.6 nTPM
Midbrain	26.9 nTPM

Choroid plexus epithelial cell	44.1 nTPM
Basal ganglia	62.4 nTPM
Medulla oblongata	42.3 nTPM
Thalamus	38.4 nTPM
Hippocampus	33.3 nTPM

Committed oligodendrocyte precursor	27.5 nTPM
Hypothalamus	47.8 nTPM
Amygdala	36.1 nTPM
Thalamus	33.8 nTPM
Cerebellum	31.7 nTPM
Pons	31.0 nTPM
Hippocampus	28.2 nTPM
Cerebral cortex	24.7 nTPM
Basal ganglia	24.6 nTPM
Midbrain	23.5 nTPM
Medulla oblongata	14.2 nTPM
Spinal cord	7.4 nTPM

Deep-layer corticothalamic and 6b	31.3 nTPM
Hippocampus	34.8 nTPM
Hypothalamus	34.4 nTPM
Amygdala	33.6 nTPM
Cerebral cortex	31.5 nTPM
Basal ganglia	30.4 nTPM
Midbrain	23.3 nTPM

Deep-layer intratelencephalic	36.0 nTPM
Hypothalamus	40.9 nTPM
Basal ganglia	36.2 nTPM
Amygdala	35.8 nTPM
Hippocampus	34.2 nTPM
Cerebral cortex	32.7 nTPM

Deep-layer near-projecting	37.3 nTPM
Hypothalamus	53.1 nTPM
Basal ganglia	35.9 nTPM
Amygdala	33.0 nTPM
Cerebral cortex	32.4 nTPM
Hippocampus	32.2 nTPM

Eccentric medium spiny neuron	34.3 nTPM
Amygdala	36.8 nTPM
Cerebral cortex	35.8 nTPM
Hypothalamus	34.5 nTPM
Thalamus	34.4 nTPM
Basal ganglia	34.3 nTPM
Hippocampus	30.3 nTPM

Endothelial cell	20.5 nTPM
Cerebral cortex	27.5 nTPM
Cerebellum	25.6 nTPM
Basal ganglia	25.2 nTPM
Spinal cord	24.2 nTPM
Midbrain	22.7 nTPM
Pons	20.6 nTPM
Hippocampus	20.2 nTPM
Amygdala	20.1 nTPM
Thalamus	14.1 nTPM
Medulla oblongata	13.3 nTPM
Hypothalamus	12.4 nTPM

Ependymal cell	32.6 nTPM
Basal ganglia	41.0 nTPM
Amygdala	39.8 nTPM
Hippocampus	36.2 nTPM
Thalamus	33.6 nTPM
Pons	33.4 nTPM
Midbrain	33.0 nTPM
Medulla oblongata	27.9 nTPM
Hypothalamus	27.7 nTPM
Spinal cord	21.1 nTPM