Single cell type - PNCK - The Human Protein Atlas

PNCK

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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.	PNCK
Gene descriptionⁱ Full gene name according to HGNC.	Pregnancy up-regulated nonubiquitous CaM kinase
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.	14

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.	Extravillous trophoblasts - 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 (Extravillous trophoblasts, Syncytiotrophoblasts, Ionocytes, Basal respiratory cells, Cone photoreceptor cells, Excitatory neurons)
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.	0.79
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.	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 enhanced (Extravillous trophoblasts, Syncytiotrophoblasts, Ionocytes, Basal respiratory cells, Cone photoreceptor cells, Excitatory neurons)

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: 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

PNCK is part of cluster 4 Extravillous trophoblasts - Unknown function with confidenceⁱ 1
182 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.
MTHFD1L	Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1 like	0.6222	4
HILPDA	Hypoxia inducible lipid droplet associated	0.5896	35
PADI1	Peptidyl arginine deiminase 1	0.5877	4
SLC16A3	Solute carrier family 16 member 3	0.5838	4
GPR32	G protein-coupled receptor 32	0.5609	4
ACAN	Aggrecan	0.5468	4
HMGB3	High mobility group box 3	0.5456	4
GPR78	G protein-coupled receptor 78	0.5411	4
GCM1	Glial cells missing transcription factor 1	0.5406	4
KRTAP2-1	Keratin associated protein 2-1	0.5352	4
NLRP2	NLR family pyrin domain containing 2	0.5346	4
CLDN19	Claudin 19	0.5328	4
SLC6A8	Solute carrier family 6 member 8	0.5298	5
FANCE	FA complementation group E	0.5297	4
XAGE2	X antigen family member 2	0.5252	4

Adipocytes	0.0 nTPM
Adipose tissue	0.0 nTPM
Breast	0.0 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	0.0 nTPM
Lung	0.0 nTPM

Astrocytes	18.0 nTPM
Brain	18.0 nTPM

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

Ciliated cells	1.5 nTPM
Bronchus	5.2 nTPM
Endometrium	0.6 nTPM
Fallopian tube	0.3 nTPM
Lung	0.0 nTPM

Club cells	11.5 nTPM
Bronchus	33.2 nTPM
Prostate	0.9 nTPM
Lung	0.4 nTPM

Endothelial cells	0.2 nTPM
Ovary	1.5 nTPM
Placenta	0.6 nTPM
Skin	0.6 nTPM
Lung	0.4 nTPM
Prostate	0.3 nTPM
Thymus	0.3 nTPM
Endometrium	0.2 nTPM
Fallopian tube	0.2 nTPM
Testis	0.0 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Salivary gland	0.0 nTPM
Tongue	0.0 nTPM
Vascular	0.0 nTPM
Breast	0.0 nTPM

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

Fibroblasts	0.3 nTPM
Placenta	1.4 nTPM
Pancreas	0.9 nTPM
Prostate	0.7 nTPM
Fallopian tube	0.6 nTPM
Lung	0.3 nTPM
Thymus	0.3 nTPM
Skin	0.2 nTPM
Vascular	0.2 nTPM
Breast	0.2 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM
Salivary gland	0.0 nTPM

Granulocytes	0.1 nTPM
Fallopian tube	0.2 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	0.3 nTPM
Small intestine	0.8 nTPM
Rectum	0.3 nTPM
Colon	0.0 nTPM

Lymphatic endothelial cells	0.0 nTPM
Fallopian tube	0.1 nTPM
Ovary	0.0 nTPM

Macrophages	0.2 nTPM
Skin	1.1 nTPM
Testis	0.6 nTPM
Vascular	0.5 nTPM
Prostate	0.3 nTPM
Thymus	0.2 nTPM
Breast	0.2 nTPM
Salivary gland	0.1 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	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
Lung	0.0 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Paneth cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Bipolar cells	20.0 nTPM
Eye	20.0 nTPM

Cytotrophoblasts	13.9 nTPM
Placenta	13.9 nTPM

Endometrial stromal cells	4.5 nTPM
Endometrium	4.5 nTPM

Plasma cells	0.0 nTPM
Fallopian tube	0.3 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
Thymus	0.0 nTPM

Schwann cells	0.3 nTPM
Vascular	1.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.1 nTPM
Salivary gland	0.2 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	3.4 nTPM
Thymus	17.4 nTPM
Fallopian tube	14.2 nTPM
Vascular	7.7 nTPM
Skin	6.5 nTPM
Placenta	3.6 nTPM
Ovary	2.0 nTPM
Salivary gland	1.3 nTPM
Prostate	0.6 nTPM
Endometrium	0.5 nTPM
Breast	0.5 nTPM
Adipose tissue	0.2 nTPM
Liver	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM

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

Undifferentiated cells	0.3 nTPM
Small intestine	0.7 nTPM
Colon	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	62.7 nTPM
Basal ganglia	81.6 nTPM
Hippocampus	68.8 nTPM
Cerebral cortex	68.7 nTPM
Thalamus	56.3 nTPM
Amygdala	53.8 nTPM
Hypothalamus	47.0 nTPM

Astrocyte	35.0 nTPM
Spinal cord	50.5 nTPM
Cerebellum	42.1 nTPM
Midbrain	37.5 nTPM
Hippocampus	35.6 nTPM
Hypothalamus	33.8 nTPM
Pons	33.8 nTPM
Thalamus	33.6 nTPM
Cerebral cortex	32.1 nTPM
Medulla oblongata	31.0 nTPM
Basal ganglia	29.4 nTPM
Amygdala	25.1 nTPM

Bergmann glia	13.4 nTPM
Cerebellum	15.1 nTPM
Pons	14.4 nTPM
Medulla oblongata	10.7 nTPM

Central nervous system macrophage	3.9 nTPM
Cerebral cortex	10.5 nTPM
Hypothalamus	8.1 nTPM
Hippocampus	5.2 nTPM
Amygdala	4.0 nTPM
Basal ganglia	3.0 nTPM
Thalamus	3.0 nTPM
Medulla oblongata	2.9 nTPM
Midbrain	2.0 nTPM
Pons	1.7 nTPM
Cerebellum	1.3 nTPM
Spinal cord	1.2 nTPM

Cerebellar inhibitory	17.8 nTPM
Midbrain	25.2 nTPM
Pons	25.0 nTPM
Cerebellum	20.9 nTPM
Medulla oblongata	15.3 nTPM
Spinal cord	2.7 nTPM

Cge interneuron	51.1 nTPM
Basal ganglia	66.1 nTPM
Cerebral cortex	63.4 nTPM
Hippocampus	51.1 nTPM
Hypothalamus	50.5 nTPM
Midbrain	49.6 nTPM
Amygdala	48.4 nTPM
Thalamus	28.7 nTPM

Choroid plexus epithelial cell	2.4 nTPM
Thalamus	5.5 nTPM
Basal ganglia	2.2 nTPM
Medulla oblongata	1.9 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	29.3 nTPM
Hypothalamus	43.7 nTPM
Hippocampus	43.5 nTPM
Amygdala	40.6 nTPM
Cerebral cortex	34.8 nTPM
Pons	34.5 nTPM
Basal ganglia	27.9 nTPM
Thalamus	25.2 nTPM
Midbrain	20.2 nTPM
Medulla oblongata	19.4 nTPM
Cerebellum	17.4 nTPM
Spinal cord	14.7 nTPM

Deep-layer corticothalamic and 6b	45.8 nTPM
Midbrain	61.0 nTPM
Hippocampus	48.0 nTPM
Basal ganglia	47.3 nTPM
Hypothalamus	41.9 nTPM
Amygdala	38.3 nTPM
Cerebral cortex	38.1 nTPM

Deep-layer intratelencephalic	50.4 nTPM
Basal ganglia	65.2 nTPM
Amygdala	55.4 nTPM
Cerebral cortex	46.7 nTPM
Hypothalamus	46.7 nTPM
Hippocampus	38.0 nTPM

Deep-layer near-projecting	61.8 nTPM
Basal ganglia	77.2 nTPM
Cerebral cortex	63.8 nTPM
Hypothalamus	59.5 nTPM
Amygdala	56.2 nTPM
Hippocampus	52.4 nTPM

Eccentric medium spiny neuron	67.0 nTPM
Hypothalamus	77.7 nTPM
Basal ganglia	72.5 nTPM
Cerebral cortex	69.8 nTPM
Amygdala	63.7 nTPM
Thalamus	60.1 nTPM
Hippocampus	58.4 nTPM

Endothelial cell	3.5 nTPM
Cerebral cortex	6.4 nTPM
Hypothalamus	6.2 nTPM
Thalamus	5.6 nTPM
Spinal cord	3.5 nTPM
Hippocampus	3.2 nTPM
Basal ganglia	2.8 nTPM
Pons	2.5 nTPM
Cerebellum	2.3 nTPM
Amygdala	2.2 nTPM
Medulla oblongata	2.1 nTPM
Midbrain	1.9 nTPM

Ependymal cell	17.6 nTPM
Amygdala	25.0 nTPM
Hippocampus	24.6 nTPM
Hypothalamus	23.2 nTPM
Basal ganglia	21.7 nTPM
Spinal cord	15.3 nTPM
Pons	14.9 nTPM
Midbrain	12.7 nTPM
Thalamus	12.1 nTPM
Medulla oblongata	8.8 nTPM