Single cell type - PDK2 - The Human Protein Atlas

PDK2

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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.	PDK2
Gene descriptionⁱ Full gene name according to HGNC.	Pyruvate dehydrogenase kinase 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes 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.	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.	Proximal enterocytes - Digestion (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 (Proximal enterocytes, Proximal tubular cells)
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.	0.40
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 (Proximal enterocytes, Proximal tubular cells)

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

PDK2 is part of cluster 22 Proximal enterocytes - Digestion with confidenceⁱ 1
255 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.
EPHX2	Epoxide hydrolase 2	0.6474	22
PPP1R16A	Protein phosphatase 1 regulatory subunit 16A	0.6227	22
SAT2	Spermidine/spermine N1-acetyltransferase family member 2	0.6164	22
DHRS4L2	Dehydrogenase/reductase 4 like 2	0.6047	22
GBA3	Glucosylceramidase beta 3 (gene/pseudogene)	0.5975	22
ACY3	Aminoacylase 3	0.5926	56
ERICH4	Glutamate rich 4	0.5632	22
PCK1	Phosphoenolpyruvate carboxykinase 1	0.5592	56
ANXA13	Annexin A13	0.5558	16
PEPD	Peptidase D	0.5536	22
FUT6	Fucosyltransferase 6	0.5487	22
GSTA1	Glutathione S-transferase alpha 1	0.5486	22
SCRN2	Secernin 2	0.5474	56
MT1E	Metallothionein 1E	0.5442	56
CRYL1	Crystallin lambda 1	0.5435	56

IMMUNE CELLS

PDK2 is part of cluster 8 Plasmacytoid DCs - Unknown function with confidenceⁱ 0.66
236 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.
LTBP4	Latent transforming growth factor beta binding protein 4	1.0000	8
NPRL3	NPR3 like, GATOR1 complex subunit	1.0000	8
FPGS	Folylpolyglutamate synthase	0.9762	8
CARD11	Caspase recruitment domain family member 11	0.9762	8
LETM1	Leucine zipper and EF-hand containing transmembrane protein 1	0.9762	8
PHB1	Prohibitin 1	0.9762	8
CFAP410	Cilia and flagella associated protein 410	0.9762	8
TRMT44	TRNA methyltransferase 44 homolog	0.9762	8
OTUD6B	OTU deubiquitinase 6B	0.9762	8
NGLY1	N-glycanase 1	0.9762	8
ABI2	Abl interactor 2	0.9762	8
PGBD1	PiggyBac transposable element derived 1	0.9762	8
MBTPS2	Membrane bound transcription factor peptidase, site 2	0.9762	8
GRSF1	G-rich RNA sequence binding factor 1	0.9762	8
PXDN	Peroxidasin	0.9762	8

Adipocytes	17.3 nTPM
Breast	20.5 nTPM
Adipose tissue	14.0 nTPM

Alveolar cells type 1	4.6 nTPM
Lung	4.6 nTPM

Alveolar cells type 2	10.0 nTPM
Lung	10.0 nTPM

Astrocytes	17.3 nTPM
Brain	17.3 nTPM

B-cells	11.4 nTPM
Kidney	20.8 nTPM
Liver	19.3 nTPM
Bone marrow	14.3 nTPM
PBMC	13.9 nTPM
Thymus	11.4 nTPM
Spleen	10.5 nTPM
Skin	10.2 nTPM
Lymph node	10.1 nTPM
Adipose tissue	9.9 nTPM
Stomach	8.9 nTPM
Salivary gland	7.6 nTPM
Esophagus	5.9 nTPM
Lung	5.4 nTPM

Ciliated cells	12.6 nTPM
Lung	22.9 nTPM
Fallopian tube	11.8 nTPM
Bronchus	9.0 nTPM
Endometrium	6.6 nTPM

Club cells	13.5 nTPM
Prostate	17.4 nTPM
Lung	12.2 nTPM
Bronchus	10.9 nTPM

Dendritic cells	31.8 nTPM
Adipose tissue	34.9 nTPM
PBMC	28.8 nTPM

Endothelial cells	13.5 nTPM
Breast	34.3 nTPM
Ovary	20.4 nTPM
Liver	18.9 nTPM
Prostate	16.4 nTPM
Tongue	16.3 nTPM
Placenta	15.3 nTPM
Testis	14.3 nTPM
Esophagus	14.3 nTPM
Thymus	14.2 nTPM
Vascular	11.5 nTPM
Salivary gland	10.7 nTPM
Lung	9.9 nTPM
Endometrium	9.8 nTPM
Skeletal muscle	9.3 nTPM
Fallopian tube	9.3 nTPM
Skin	9.2 nTPM
Pancreas	7.8 nTPM
Heart muscle	1.2 nTPM

Enteroendocrine cells	34.3 nTPM
Colon	38.3 nTPM
Small intestine	37.8 nTPM
Rectum	26.8 nTPM

Fibroblasts	15.8 nTPM
Breast	28.4 nTPM
Placenta	25.3 nTPM
Esophagus	24.1 nTPM
Skin	22.5 nTPM
Adipose tissue	19.4 nTPM
Prostate	18.5 nTPM
Stomach	17.3 nTPM
Vascular	14.1 nTPM
Fallopian tube	14.0 nTPM
Liver	13.0 nTPM
Pancreas	12.7 nTPM
Salivary gland	12.6 nTPM
Thymus	12.4 nTPM
Skeletal muscle	11.2 nTPM
Lung	5.5 nTPM
Heart muscle	2.2 nTPM

Granulocytes	9.2 nTPM
Lung	16.6 nTPM
Fallopian tube	6.0 nTPM
Tongue	4.9 nTPM

Intestinal goblet cells	58.0 nTPM
Small intestine	62.2 nTPM
Rectum	56.8 nTPM
Colon	54.9 nTPM

Lymphatic endothelial cells	14.8 nTPM
Ovary	16.4 nTPM
Fallopian tube	13.2 nTPM

Macrophages	8.9 nTPM
Pancreas	14.4 nTPM
Breast	12.8 nTPM
Kidney	11.5 nTPM
Prostate	11.4 nTPM
Skin	10.0 nTPM
Vascular	9.9 nTPM
Tongue	9.4 nTPM
Lung	8.8 nTPM
Endometrium	8.6 nTPM
Salivary gland	8.2 nTPM
Testis	8.1 nTPM
Bone marrow	8.1 nTPM
Fallopian tube	8.1 nTPM
Esophagus	7.7 nTPM
Skeletal muscle	7.3 nTPM
Adipose tissue	6.8 nTPM
Spleen	6.0 nTPM
Thymus	5.8 nTPM
Stomach	5.1 nTPM

Basal prostatic cells	25.4 nTPM
Prostate	25.4 nTPM

Basal respiratory cells	11.1 nTPM
Bronchus	11.1 nTPM

Basal squamous epithelial cells	16.8 nTPM
Esophagus	16.8 nTPM

Collecting duct cells	17.5 nTPM
Kidney	17.5 nTPM

Paneth cells	61.6 nTPM
Small intestine	79.4 nTPM
Colon	57.9 nTPM
Rectum	47.4 nTPM

Plasma cells	26.1 nTPM
Esophagus	36.4 nTPM
Spleen	31.8 nTPM
Bone marrow	30.2 nTPM
Liver	29.0 nTPM
Thymus	28.2 nTPM
Stomach	28.1 nTPM
Salivary gland	13.0 nTPM
Fallopian tube	12.5 nTPM

Schwann cells	33.2 nTPM
Esophagus	59.9 nTPM
Vascular	32.4 nTPM
Adipose tissue	7.4 nTPM

Serous glandular cells	26.9 nTPM
Salivary gland	27.3 nTPM
Tongue	26.5 nTPM

Smooth muscle cells	27.2 nTPM
Breast	45.3 nTPM
Fallopian tube	42.3 nTPM
Ovary	37.8 nTPM
Thymus	33.9 nTPM
Lung	30.6 nTPM
Vascular	28.9 nTPM
Esophagus	28.8 nTPM
Skin	28.6 nTPM
Prostate	28.6 nTPM
Placenta	26.1 nTPM
Adipose tissue	19.8 nTPM
Endometrium	19.0 nTPM
Salivary gland	18.3 nTPM
Tongue	17.4 nTPM
Liver	15.3 nTPM
Skeletal muscle	14.7 nTPM

Suprabasal keratinocytes	18.1 nTPM
Skin	18.2 nTPM
Tongue	18.0 nTPM

T-cells	10.6 nTPM
Kidney	16.8 nTPM
Skin	15.8 nTPM
PBMC	15.7 nTPM
Liver	14.3 nTPM
Thymus	13.2 nTPM
Prostate	12.3 nTPM
Breast	12.0 nTPM
Bone marrow	11.5 nTPM
Skeletal muscle	11.3 nTPM
Stomach	11.1 nTPM
Lymph node	11.0 nTPM
Lung	9.1 nTPM
Spleen	8.5 nTPM
Salivary gland	8.4 nTPM
Vascular	8.4 nTPM
Tongue	8.2 nTPM
Colon	7.8 nTPM
Esophagus	7.3 nTPM
Adipose tissue	7.1 nTPM
Fallopian tube	6.9 nTPM
Endometrium	6.5 nTPM

Undifferentiated cells	39.4 nTPM
Small intestine	52.4 nTPM
Rectum	35.6 nTPM
Colon	30.1 nTPM

Amygdala excitatory	24.8 nTPM
Hippocampus	29.4 nTPM
Cerebral cortex	26.7 nTPM
Basal ganglia	25.6 nTPM
Amygdala	24.7 nTPM
Thalamus	24.0 nTPM
Hypothalamus	18.3 nTPM

Astrocyte	23.7 nTPM
Cerebral cortex	35.2 nTPM
Hippocampus	27.6 nTPM
Midbrain	26.4 nTPM
Amygdala	24.9 nTPM
Basal ganglia	24.9 nTPM
Cerebellum	24.8 nTPM
Thalamus	24.8 nTPM
Pons	22.9 nTPM
Spinal cord	19.8 nTPM
Hypothalamus	14.7 nTPM
Medulla oblongata	14.5 nTPM

Bergmann glia	32.3 nTPM
Pons	40.3 nTPM
Cerebellum	35.4 nTPM
Medulla oblongata	21.3 nTPM

Central nervous system macrophage	8.2 nTPM
Cerebral cortex	11.3 nTPM
Amygdala	8.8 nTPM
Cerebellum	8.8 nTPM
Pons	8.2 nTPM
Thalamus	7.9 nTPM
Midbrain	7.8 nTPM
Hippocampus	7.7 nTPM
Hypothalamus	7.7 nTPM
Spinal cord	7.7 nTPM
Medulla oblongata	7.5 nTPM
Basal ganglia	7.0 nTPM

Cerebellar inhibitory	26.0 nTPM
Cerebellum	32.1 nTPM
Medulla oblongata	31.3 nTPM
Pons	28.4 nTPM
Midbrain	27.1 nTPM
Spinal cord	11.0 nTPM

Cge interneuron	26.2 nTPM
Thalamus	30.1 nTPM
Cerebral cortex	28.8 nTPM
Hippocampus	26.5 nTPM
Midbrain	26.2 nTPM
Basal ganglia	25.8 nTPM
Amygdala	23.1 nTPM
Hypothalamus	23.1 nTPM

Choroid plexus epithelial cell	14.1 nTPM
Thalamus	19.2 nTPM
Basal ganglia	14.3 nTPM
Medulla oblongata	11.7 nTPM
Hippocampus	11.1 nTPM

Committed oligodendrocyte precursor	27.1 nTPM
Pons	38.1 nTPM
Cerebral cortex	37.4 nTPM
Cerebellum	31.7 nTPM
Medulla oblongata	29.7 nTPM
Spinal cord	29.4 nTPM
Hippocampus	29.2 nTPM
Midbrain	26.0 nTPM
Amygdala	22.6 nTPM
Basal ganglia	21.4 nTPM
Hypothalamus	16.4 nTPM
Thalamus	16.4 nTPM

Deep-layer corticothalamic and 6b	21.6 nTPM
Cerebral cortex	26.9 nTPM
Basal ganglia	25.0 nTPM
Amygdala	22.0 nTPM
Hypothalamus	20.1 nTPM
Hippocampus	19.9 nTPM
Midbrain	15.5 nTPM

Deep-layer intratelencephalic	25.5 nTPM
Cerebral cortex	29.3 nTPM
Hippocampus	27.0 nTPM
Amygdala	25.6 nTPM
Basal ganglia	23.8 nTPM
Hypothalamus	22.0 nTPM

Deep-layer near-projecting	15.1 nTPM
Hippocampus	16.3 nTPM
Cerebral cortex	16.2 nTPM
Hypothalamus	15.4 nTPM
Basal ganglia	15.1 nTPM
Amygdala	12.5 nTPM

Eccentric medium spiny neuron	24.3 nTPM
Hypothalamus	33.3 nTPM
Basal ganglia	27.1 nTPM
Thalamus	25.1 nTPM
Cerebral cortex	23.5 nTPM
Amygdala	20.1 nTPM
Hippocampus	16.6 nTPM