Single cell type - PDPR - The Human Protein Atlas

PDPR

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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.	PDPR
Gene descriptionⁱ Full gene name according to HGNC.	Pyruvate dehydrogenase phosphatase regulatory subunit
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Metabolic 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.	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.	Early spermatids - Spermatogenesis (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 (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.	0.37
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 (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

PDPR is part of cluster 21 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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.
DHX33	DEAH-box helicase 33	0.5749	21
GPATCH2L	G-patch domain containing 2 like	0.5060	21
ZSCAN29	Zinc finger and SCAN domain containing 29	0.5041	21
CRYGB	Crystallin gamma B	0.4924	21
CENPJ	Centromere protein J	0.4698	21
SPATA31D3	SPATA31 subfamily D member 3	0.4664	21
ZSCAN20	Zinc finger and SCAN domain containing 20	0.4654	21
XYLT2	Xylosyltransferase 2	0.4631	21
EFCAB3	EF-hand calcium binding domain 3	0.4564	21
PDCL2	Phosducin like 2	0.4556	21
KLHL11	Kelch like family member 11	0.4528	21
AQR	Aquarius intron-binding spliceosomal factor	0.4509	66
SMIM23	Small integral membrane protein 23	0.4507	21
SPATA25	Spermatogenesis associated 25	0.4490	21
AKNAD1	AKNA domain containing 1	0.4469	21

IMMUNE CELLS

PDPR is part of cluster 32 Basophils - Transcription with confidenceⁱ 0.63
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.
MARCHF2	Membrane associated ring-CH-type finger 2	0.9524	41
DIPK2A	Divergent protein kinase domain 2A	0.9524	41
DSN1	DSN1 component of MIS12 kinetochore complex	0.9524	41
ARHGAP18	Rho GTPase activating protein 18	0.9524	41
CEP131	Centrosomal protein 131	0.9524	32
MIS18BP1	MIS18 binding protein 1	0.9524	41
TMEM214	Transmembrane protein 214	0.9524	32
CTSZ	Cathepsin Z	0.9524	10
TMEM258	Transmembrane protein 258	0.9286	10
COX17	Cytochrome c oxidase copper chaperone COX17	0.9286	32
RBM26	RNA binding motif protein 26	0.9286	32
NT5C	5', 3'-nucleotidase, cytosolic	0.9286	32
NEK8	NIMA related kinase 8	0.9286	41
ECI1	Enoyl-CoA delta isomerase 1	0.9286	10
DNAJC21	DnaJ heat shock protein family (Hsp40) member C21	0.9286	32

Adipocytes	12.6 nTPM
Breast	15.8 nTPM
Adipose tissue	9.5 nTPM

Alveolar cells type 1	8.6 nTPM
Lung	8.6 nTPM

Alveolar cells type 2	10.2 nTPM
Lung	10.2 nTPM

Astrocytes	17.6 nTPM
Brain	17.6 nTPM

B-cells	9.8 nTPM
Salivary gland	21.5 nTPM
Bone marrow	14.3 nTPM
Spleen	12.5 nTPM
Thymus	11.7 nTPM
Lung	10.7 nTPM
Lymph node	10.6 nTPM
Stomach	10.1 nTPM
Liver	9.7 nTPM
Adipose tissue	7.8 nTPM
PBMC	7.7 nTPM
Kidney	5.2 nTPM
Skin	5.1 nTPM
Esophagus	0.0 nTPM

Ciliated cells	12.4 nTPM
Bronchus	13.6 nTPM
Fallopian tube	12.8 nTPM
Lung	12.6 nTPM
Endometrium	10.8 nTPM

Club cells	10.4 nTPM
Lung	11.5 nTPM
Bronchus	10.9 nTPM
Prostate	8.8 nTPM

Dendritic cells	11.1 nTPM
Adipose tissue	11.4 nTPM
PBMC	10.8 nTPM

Endothelial cells	16.6 nTPM
Heart muscle	22.4 nTPM
Liver	21.4 nTPM
Fallopian tube	20.4 nTPM
Endometrium	20.3 nTPM
Breast	20.2 nTPM
Esophagus	19.9 nTPM
Prostate	19.1 nTPM
Tongue	17.9 nTPM
Vascular	17.9 nTPM
Placenta	17.0 nTPM
Skeletal muscle	16.3 nTPM
Ovary	15.9 nTPM
Thymus	14.6 nTPM
Testis	14.0 nTPM
Salivary gland	13.9 nTPM
Lung	13.5 nTPM
Skin	9.6 nTPM
Pancreas	5.2 nTPM

Enteroendocrine cells	12.5 nTPM
Rectum	15.1 nTPM
Colon	12.0 nTPM
Small intestine	10.3 nTPM

Fibroblasts	13.0 nTPM
Salivary gland	22.0 nTPM
Liver	19.0 nTPM
Skeletal muscle	17.7 nTPM
Esophagus	16.9 nTPM
Vascular	15.8 nTPM
Breast	15.8 nTPM
Heart muscle	15.7 nTPM
Adipose tissue	13.4 nTPM
Thymus	11.5 nTPM
Fallopian tube	10.9 nTPM
Skin	10.8 nTPM
Lung	10.8 nTPM
Stomach	8.6 nTPM
Placenta	8.4 nTPM
Prostate	6.6 nTPM
Pancreas	3.9 nTPM

Granulocytes	14.2 nTPM
Tongue	19.4 nTPM
Lung	14.1 nTPM
Fallopian tube	9.2 nTPM

Intestinal goblet cells	9.7 nTPM
Rectum	13.0 nTPM
Small intestine	8.7 nTPM
Colon	7.4 nTPM

Lymphatic endothelial cells	17.8 nTPM
Ovary	21.8 nTPM
Fallopian tube	13.8 nTPM

Macrophages	14.0 nTPM
Spleen	24.1 nTPM
Lung	23.0 nTPM
Bone marrow	18.2 nTPM
Skeletal muscle	17.9 nTPM
Salivary gland	17.2 nTPM
Vascular	16.3 nTPM
Prostate	16.2 nTPM
Fallopian tube	15.9 nTPM
Tongue	15.5 nTPM
Thymus	14.4 nTPM
Esophagus	12.8 nTPM
Pancreas	12.3 nTPM
Adipose tissue	11.7 nTPM
Skin	11.1 nTPM
Testis	10.5 nTPM
Endometrium	9.8 nTPM
Breast	9.0 nTPM
Stomach	7.7 nTPM
Kidney	2.7 nTPM

Basal keratinocytes	8.5 nTPM
Tongue	11.0 nTPM
Skin	6.0 nTPM

Basal respiratory cells	11.2 nTPM
Bronchus	11.2 nTPM

Basal squamous epithelial cells	14.8 nTPM
Esophagus	14.8 nTPM

Bipolar cells	15.0 nTPM
Eye	15.0 nTPM

Paneth cells	4.0 nTPM
Rectum	12.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	7.8 nTPM
Salivary gland	13.9 nTPM
Spleen	12.7 nTPM
Thymus	10.4 nTPM
Liver	10.0 nTPM
Bone marrow	7.6 nTPM
Fallopian tube	5.1 nTPM
Stomach	2.9 nTPM
Esophagus	0.0 nTPM

Schwann cells	16.7 nTPM
Esophagus	24.0 nTPM
Vascular	15.7 nTPM
Adipose tissue	10.5 nTPM

Serous glandular cells	13.5 nTPM
Salivary gland	13.8 nTPM
Tongue	13.3 nTPM

Smooth muscle cells	12.9 nTPM
Tongue	20.1 nTPM
Skeletal muscle	17.9 nTPM
Liver	15.7 nTPM
Salivary gland	15.5 nTPM
Fallopian tube	15.2 nTPM
Vascular	14.9 nTPM
Endometrium	14.7 nTPM
Breast	14.4 nTPM
Esophagus	13.2 nTPM
Skin	12.5 nTPM
Adipose tissue	12.0 nTPM
Thymus	11.7 nTPM
Placenta	9.3 nTPM
Ovary	8.9 nTPM
Lung	5.9 nTPM
Prostate	4.9 nTPM

T-cells	10.4 nTPM
Salivary gland	20.6 nTPM
Endometrium	14.0 nTPM
Skeletal muscle	14.0 nTPM
Tongue	13.2 nTPM
Lung	12.4 nTPM
Adipose tissue	12.2 nTPM
Breast	11.8 nTPM
Prostate	11.7 nTPM
Thymus	11.4 nTPM
Fallopian tube	11.2 nTPM
Bone marrow	10.8 nTPM
Vascular	10.5 nTPM
Lymph node	10.2 nTPM
Spleen	9.9 nTPM
Liver	9.8 nTPM
PBMC	9.0 nTPM
Stomach	8.3 nTPM
Colon	6.8 nTPM
Skin	6.7 nTPM
Kidney	3.5 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	12.8 nTPM
Rectum	15.3 nTPM
Small intestine	14.0 nTPM
Colon	9.2 nTPM

Amygdala excitatory	36.3 nTPM
Hypothalamus	46.6 nTPM
Basal ganglia	38.8 nTPM
Cerebral cortex	35.8 nTPM
Thalamus	34.9 nTPM
Amygdala	32.0 nTPM
Hippocampus	29.5 nTPM

Astrocyte	44.1 nTPM
Pons	49.9 nTPM
Medulla oblongata	48.4 nTPM
Midbrain	47.1 nTPM
Cerebral cortex	46.3 nTPM
Thalamus	46.3 nTPM
Cerebellum	45.0 nTPM
Hippocampus	44.0 nTPM
Hypothalamus	40.8 nTPM
Amygdala	40.4 nTPM
Basal ganglia	39.7 nTPM
Spinal cord	37.6 nTPM

Bergmann glia	29.0 nTPM
Cerebellum	36.9 nTPM
Medulla oblongata	29.8 nTPM
Pons	20.1 nTPM

Central nervous system macrophage	39.7 nTPM
Hippocampus	43.4 nTPM
Cerebellum	43.3 nTPM
Hypothalamus	43.1 nTPM
Cerebral cortex	42.9 nTPM
Medulla oblongata	42.1 nTPM
Midbrain	41.9 nTPM
Amygdala	40.0 nTPM
Pons	38.7 nTPM
Thalamus	38.3 nTPM
Basal ganglia	37.5 nTPM
Spinal cord	25.3 nTPM

Cerebellar inhibitory	36.6 nTPM
Cerebellum	50.8 nTPM
Midbrain	40.1 nTPM
Medulla oblongata	35.4 nTPM
Pons	32.0 nTPM
Spinal cord	24.7 nTPM

Cge interneuron	31.9 nTPM
Hypothalamus	40.2 nTPM
Amygdala	34.2 nTPM
Cerebral cortex	33.1 nTPM
Basal ganglia	31.3 nTPM
Hippocampus	30.3 nTPM
Thalamus	27.5 nTPM
Midbrain	26.5 nTPM

Choroid plexus epithelial cell	55.5 nTPM
Basal ganglia	67.9 nTPM
Hippocampus	66.6 nTPM
Medulla oblongata	57.4 nTPM
Thalamus	30.1 nTPM

Committed oligodendrocyte precursor	32.9 nTPM
Basal ganglia	40.0 nTPM
Hippocampus	38.5 nTPM
Thalamus	37.1 nTPM
Pons	35.4 nTPM
Amygdala	33.3 nTPM
Spinal cord	33.1 nTPM
Cerebellum	31.7 nTPM
Hypothalamus	31.4 nTPM
Cerebral cortex	29.1 nTPM
Midbrain	26.9 nTPM
Medulla oblongata	25.8 nTPM

Deep-layer corticothalamic and 6b	35.0 nTPM
Hypothalamus	41.5 nTPM
Amygdala	37.6 nTPM
Basal ganglia	37.6 nTPM
Cerebral cortex	37.1 nTPM
Hippocampus	35.0 nTPM
Midbrain	21.1 nTPM

Deep-layer intratelencephalic	33.5 nTPM
Amygdala	38.9 nTPM
Hypothalamus	37.3 nTPM
Cerebral cortex	32.2 nTPM
Basal ganglia	31.5 nTPM
Hippocampus	27.7 nTPM

Deep-layer near-projecting	37.2 nTPM
Amygdala	47.3 nTPM
Cerebral cortex	37.3 nTPM
Hypothalamus	36.0 nTPM
Basal ganglia	33.8 nTPM
Hippocampus	31.9 nTPM

Eccentric medium spiny neuron	43.0 nTPM
Basal ganglia	46.2 nTPM
Thalamus	45.5 nTPM
Cerebral cortex	44.7 nTPM
Hypothalamus	43.5 nTPM
Hippocampus	41.5 nTPM
Amygdala	36.5 nTPM

Endothelial cell	38.0 nTPM
Cerebellum	44.9 nTPM
Amygdala	43.6 nTPM
Hippocampus	42.6 nTPM
Hypothalamus	42.2 nTPM
Basal ganglia	41.9 nTPM
Cerebral cortex	39.0 nTPM
Midbrain	37.8 nTPM
Pons	35.0 nTPM
Spinal cord	34.5 nTPM
Thalamus	34.5 nTPM
Medulla oblongata	21.5 nTPM