Single cell type - PRDM16 - The Human Protein Atlas

PRDM16

Search result

Field

Term

Cluster

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.	PRDM16
Gene descriptionⁱ Full gene name according to HGNC.	PR/SET domain 16
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Disease related genes Enzymes Human disease related genes Potential drug targets 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.	6

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 enriched (Astrocytes)
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.	0.84
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 (Choroid plexus epithelial cell, Astrocyte)
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.	Immune cell enriched (NK-cell)
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 (Astrocytes)

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 (Choroid plexus epithelial cell, Astrocyte)

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: Immune cell enriched (NK-cell)
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

PRDM16 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.
RANBP3L	RAN binding protein 3 like	0.8772	47
PRODH	Proline dehydrogenase 1	0.8324	47
NTSR2	Neurotensin receptor 2	0.8258	47
SLCO1C1	Solute carrier organic anion transporter family member 1C1	0.8234	47
PSD2	Pleckstrin and Sec7 domain containing 2	0.8026	47
GPC5	Glypican 5	0.7943	47
GFAP	Glial fibrillary acidic protein	0.7898	47
ATP1A2	ATPase Na+/K+ transporting subunit alpha 2	0.7772	47
PRSS50	Serine protease 50	0.7770	47
ADGRV1	Adhesion G protein-coupled receptor V1	0.7764	47
ZNRF3	Zinc and ring finger 3	0.7725	47
SLC1A2	Solute carrier family 1 member 2	0.7635	47
NPFF	Neuropeptide FF-amide peptide precursor	0.7559	47
GABRG1	Gamma-aminobutyric acid type A receptor subunit gamma1	0.7548	47
HPSE2	Heparanase 2 (inactive)	0.7424	47

IMMUNE CELLS

PRDM16 is part of cluster 15 NK-cells - Unknown function with confidenceⁱ 1
158 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.
TNFRSF11A	TNF receptor superfamily member 11a	1.0000	15
SPRY2	Sprouty RTK signaling antagonist 2	1.0000	15
RNF165	Ring finger protein 165	1.0000	15
ENSG00000285025	Mitochondrial elongation factor 1	0.9762	15
AGK	Acylglycerol kinase	0.9762	15
HOXA10	Homeobox A10	0.9762	15
GOLGA8O	Golgin A8 family member O	0.9762	15
CYTL1	Cytokine like 1	0.9762	15
LGALS9B	Galectin 9B	0.9762	15
PTGER1	Prostaglandin E receptor 1	0.9762	15
ZNF221	Zinc finger protein 221	0.9762	15
CABLES1	Cdk5 and Abl enzyme substrate 1	0.9762	15
RRN3	RRN3 homolog, RNA polymerase I transcription factor	0.9762	15
SMIM24	Small integral membrane protein 24	0.9524	15
CLASP1	Cytoplasmic linker associated protein 1	0.9524	15

Adipocytes	4.2 nTPM
Adipose tissue	5.7 nTPM
Breast	2.8 nTPM

Alveolar cells type 1	12.6 nTPM
Lung	12.6 nTPM

Alveolar cells type 2	12.3 nTPM
Lung	12.3 nTPM

B-cells	0.2 nTPM
Bone marrow	0.7 nTPM
Lymph node	0.6 nTPM
Adipose tissue	0.4 nTPM
Thymus	0.4 nTPM
Salivary gland	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Basal keratinocytes	0.2 nTPM
Skin	0.2 nTPM
Tongue	0.2 nTPM

Ciliated cells	1.7 nTPM
Lung	5.3 nTPM
Bronchus	0.8 nTPM
Fallopian tube	0.4 nTPM
Endometrium	0.2 nTPM

Club cells	2.8 nTPM
Lung	5.2 nTPM
Bronchus	2.5 nTPM
Prostate	0.6 nTPM

Endothelial cells	2.7 nTPM
Thymus	7.7 nTPM
Skeletal muscle	7.0 nTPM
Esophagus	4.3 nTPM
Prostate	4.1 nTPM
Tongue	4.1 nTPM
Skin	3.7 nTPM
Salivary gland	3.6 nTPM
Vascular	3.2 nTPM
Ovary	2.6 nTPM
Heart muscle	2.5 nTPM
Lung	1.8 nTPM
Testis	1.5 nTPM
Fallopian tube	1.5 nTPM
Endometrium	0.4 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	2.4 nTPM
Small intestine	3.4 nTPM
Rectum	3.4 nTPM
Colon	0.4 nTPM

Fibroblasts	1.0 nTPM
Vascular	4.0 nTPM
Salivary gland	2.8 nTPM
Pancreas	2.2 nTPM
Prostate	2.0 nTPM
Thymus	2.0 nTPM
Stomach	1.4 nTPM
Heart muscle	0.5 nTPM
Esophagus	0.5 nTPM
Adipose tissue	0.4 nTPM
Lung	0.3 nTPM
Skin	0.2 nTPM
Fallopian tube	0.2 nTPM
Skeletal muscle	0.1 nTPM
Breast	0.1 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM

Granulocytes	0.7 nTPM
Lung	2.0 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	0.6 nTPM
Rectum	1.3 nTPM
Small intestine	0.5 nTPM
Colon	0.0 nTPM

Lymphatic endothelial cells	2.8 nTPM
Ovary	5.5 nTPM
Fallopian tube	0.1 nTPM

Macrophages	0.2 nTPM
Vascular	1.6 nTPM
Endometrium	0.6 nTPM
Skeletal muscle	0.3 nTPM
Prostate	0.2 nTPM
Thymus	0.2 nTPM
Fallopian tube	0.2 nTPM
Lung	0.1 nTPM
Salivary gland	0.1 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Skin	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Tongue	0.0 nTPM
Breast	0.0 nTPM

Paneth cells	4.3 nTPM
Colon	7.2 nTPM
Small intestine	3.5 nTPM
Rectum	2.2 nTPM

Cholangiocytes	22.9 nTPM
Liver	22.9 nTPM

Collecting duct cells	3.9 nTPM
Kidney	3.9 nTPM

Plasma cells	0.1 nTPM
Fallopian tube	0.6 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Salivary gland	0.0 nTPM

Schwann cells	23.0 nTPM
Vascular	44.9 nTPM
Esophagus	24.0 nTPM
Adipose tissue	0.0 nTPM

Serous glandular cells	0.0 nTPM
Salivary gland	0.1 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	10.6 nTPM
Vascular	29.6 nTPM
Prostate	25.5 nTPM
Esophagus	16.8 nTPM
Skin	16.6 nTPM
Breast	16.3 nTPM
Thymus	14.9 nTPM
Salivary gland	13.6 nTPM
Fallopian tube	9.9 nTPM
Ovary	9.3 nTPM
Skeletal muscle	7.0 nTPM
Adipose tissue	4.5 nTPM
Tongue	3.9 nTPM
Lung	1.2 nTPM
Endometrium	1.1 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM

T-cells	0.3 nTPM
Vascular	1.2 nTPM
Spleen	1.0 nTPM
Skin	0.7 nTPM
Salivary gland	0.7 nTPM
Bone marrow	0.6 nTPM
Liver	0.3 nTPM
Lung	0.3 nTPM
Prostate	0.3 nTPM
Breast	0.2 nTPM
Endometrium	0.1 nTPM
Fallopian tube	0.1 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Stomach	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM

Undifferentiated cells	1.3 nTPM
Rectum	2.0 nTPM
Small intestine	1.5 nTPM
Colon	0.3 nTPM

Amygdala excitatory	1.2 nTPM
Basal ganglia	1.7 nTPM
Hypothalamus	1.5 nTPM
Thalamus	1.4 nTPM
Amygdala	0.9 nTPM
Cerebral cortex	0.8 nTPM
Hippocampus	0.6 nTPM

Astrocyte	195.6 nTPM
Amygdala	399.6 nTPM
Cerebral cortex	349.7 nTPM
Hippocampus	308.0 nTPM
Basal ganglia	216.4 nTPM
Thalamus	202.6 nTPM
Hypothalamus	176.8 nTPM
Midbrain	157.9 nTPM
Cerebellum	116.5 nTPM
Pons	101.9 nTPM
Medulla oblongata	66.9 nTPM
Spinal cord	54.7 nTPM

Bergmann glia	4.3 nTPM
Cerebellum	5.8 nTPM
Medulla oblongata	4.3 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	1.0 nTPM
Basal ganglia	2.1 nTPM
Hippocampus	1.4 nTPM
Medulla oblongata	1.4 nTPM
Amygdala	1.1 nTPM
Cerebral cortex	0.9 nTPM
Spinal cord	0.9 nTPM
Hypothalamus	0.7 nTPM
Midbrain	0.6 nTPM
Cerebellum	0.5 nTPM
Thalamus	0.5 nTPM
Pons	0.4 nTPM

Cerebellar inhibitory	1.0 nTPM
Spinal cord	2.7 nTPM
Medulla oblongata	0.9 nTPM
Pons	0.9 nTPM
Midbrain	0.3 nTPM
Cerebellum	0.2 nTPM

Cge interneuron	0.6 nTPM
Hypothalamus	0.9 nTPM
Hippocampus	0.8 nTPM
Amygdala	0.6 nTPM
Basal ganglia	0.6 nTPM
Cerebral cortex	0.6 nTPM
Thalamus	0.5 nTPM
Midbrain	0.2 nTPM

Choroid plexus epithelial cell	612.6 nTPM
Basal ganglia	1098.7 nTPM
Medulla oblongata	525.0 nTPM
Thalamus	452.2 nTPM
Hippocampus	374.4 nTPM

Committed oligodendrocyte precursor	15.9 nTPM
Medulla oblongata	78.8 nTPM
Basal ganglia	50.9 nTPM
Pons	13.3 nTPM
Thalamus	7.2 nTPM
Hippocampus	6.2 nTPM
Midbrain	5.9 nTPM
Amygdala	5.1 nTPM
Cerebellum	3.2 nTPM
Hypothalamus	2.0 nTPM
Cerebral cortex	1.9 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	1.3 nTPM
Midbrain	3.3 nTPM
Hypothalamus	1.4 nTPM
Hippocampus	0.9 nTPM
Amygdala	0.8 nTPM
Basal ganglia	0.7 nTPM
Cerebral cortex	0.5 nTPM

Deep-layer intratelencephalic	1.3 nTPM
Hypothalamus	1.7 nTPM
Basal ganglia	1.4 nTPM
Cerebral cortex	1.4 nTPM
Amygdala	1.3 nTPM
Hippocampus	1.0 nTPM

Deep-layer near-projecting	1.4 nTPM
Hypothalamus	2.4 nTPM
Cerebral cortex	1.6 nTPM
Amygdala	1.4 nTPM
Basal ganglia	1.1 nTPM
Hippocampus	0.7 nTPM

Eccentric medium spiny neuron	0.4 nTPM
Cerebral cortex	0.8 nTPM
Amygdala	0.6 nTPM
Hypothalamus	0.6 nTPM
Basal ganglia	0.4 nTPM
Thalamus	0.2 nTPM
Hippocampus	0.0 nTPM

Endothelial cell	23.7 nTPM
Hypothalamus	69.5 nTPM
Amygdala	34.7 nTPM
Cerebral cortex	30.7 nTPM
Pons	30.6 nTPM
Medulla oblongata	24.6 nTPM
Basal ganglia	24.2 nTPM
Hippocampus	13.5 nTPM
Thalamus	11.9 nTPM
Midbrain	9.5 nTPM
Cerebellum	7.7 nTPM
Spinal cord	3.5 nTPM

Ependymal cell	52.8 nTPM
Amygdala	94.4 nTPM
Basal ganglia	94.2 nTPM
Hypothalamus	86.6 nTPM
Thalamus	66.8 nTPM
Hippocampus	59.1 nTPM
Midbrain	33.6 nTPM
Pons	18.9 nTPM
Medulla oblongata	15.8 nTPM
Spinal cord	5.7 nTPM