Single cell type - CCK - The Human Protein Atlas

CCK

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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.	CCK
Gene descriptionⁱ Full gene name according to HGNC.	Cholecystokinin
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Plasma 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.	Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

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.	Neurons - Neuronal signaling (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 (Inhibitory neurons, Excitatory neurons, Enteroendocrine cells, Astrocytes, Oligodendrocytes, Melanocytes, Muller glia 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.	0.84
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 (CGE interneuron, LAMP5-LHX6 and Chandelier)
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data.	Protein predicted to be secreted

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 (Inhibitory neurons, Excitatory neurons, Enteroendocrine cells, Astrocytes, Oligodendrocytes, Melanocytes, Muller glia 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: Cell type enhanced (CGE interneuron, LAMP5-LHX6 and Chandelier)

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

CCK is part of cluster 34 Neurons - Neuronal signaling with confidenceⁱ 1
518 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.
CELF6	CUGBP Elav-like family member 6	0.7928	69
NPTXR	Neuronal pentraxin receptor	0.7545	69
PTPRO	Protein tyrosine phosphatase receptor type O	0.7396	69
CHRM3	Cholinergic receptor muscarinic 3	0.7339	34
PROP1	PROP paired-like homeobox 1	0.7326	69
GRM7	Glutamate metabotropic receptor 7	0.7054	34
GRIN1	Glutamate ionotropic receptor NMDA type subunit 1	0.7049	69
FNDC9	Fibronectin type III domain containing 9	0.7033	69
HTR1E	5-hydroxytryptamine receptor 1E	0.6986	69
LINGO2	Leucine rich repeat and Ig domain containing 2	0.6932	34
RPS6KA6	Ribosomal protein S6 kinase A6	0.6900	65
CREG2	Cellular repressor of E1A stimulated genes 2	0.6899	34
DACH2	Dachshund family transcription factor 2	0.6897	69
SYT16	Synaptotagmin 16	0.6887	69
ARNT2	Aryl hydrocarbon receptor nuclear translocator 2	0.6838	69

Adipocytes	0.3 nTPM
Breast	0.5 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	2.5 nTPM
Lung	2.5 nTPM

Alveolar cells type 2	0.5 nTPM
Lung	0.5 nTPM

B-cells	0.0 nTPM
Lymph node	0.2 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
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM

Basal keratinocytes	3.7 nTPM
Skin	6.6 nTPM
Tongue	0.9 nTPM

Ciliated cells	0.2 nTPM
Lung	0.4 nTPM
Endometrium	0.2 nTPM
Bronchus	0.1 nTPM
Fallopian tube	0.0 nTPM

Club cells	1.6 nTPM
Prostate	4.2 nTPM
Bronchus	0.4 nTPM
Lung	0.1 nTPM

Endothelial cells	0.2 nTPM
Liver	1.3 nTPM
Lung	0.8 nTPM
Skeletal muscle	0.4 nTPM
Skin	0.3 nTPM
Fallopian tube	0.2 nTPM
Endometrium	0.1 nTPM
Testis	0.0 nTPM
Heart muscle	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM
Vascular	0.0 nTPM
Breast	0.0 nTPM
Ovary	0.0 nTPM

Enteroendocrine cells	115.6 nTPM
Small intestine	346.7 nTPM
Colon	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	4.8 nTPM
Lung	55.8 nTPM
Esophagus	7.2 nTPM
Prostate	5.3 nTPM
Skin	2.3 nTPM
Placenta	2.2 nTPM
Fallopian tube	1.4 nTPM
Breast	1.3 nTPM
Skeletal muscle	0.5 nTPM
Pancreas	0.3 nTPM
Salivary gland	0.1 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Adipose tissue	0.0 nTPM
Stomach	0.0 nTPM

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

Intestinal goblet cells	0.1 nTPM
Colon	0.2 nTPM
Small intestine	0.1 nTPM
Rectum	0.0 nTPM

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

Macrophages	0.7 nTPM
Skin	4.5 nTPM
Breast	3.9 nTPM
Esophagus	1.3 nTPM
Adipose tissue	1.0 nTPM
Vascular	0.8 nTPM
Prostate	0.7 nTPM
Fallopian tube	0.6 nTPM
Lung	0.1 nTPM
Salivary gland	0.1 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM

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

Astrocytes	38.1 nTPM
Brain	38.1 nTPM

Bipolar cells	6.5 nTPM
Eye	6.5 nTPM

Collecting duct cells	5.8 nTPM
Kidney	5.8 nTPM

Plasma cells	0.1 nTPM
Salivary gland	0.9 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Thymus	0.0 nTPM
Fallopian tube	0.0 nTPM

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

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

Smooth muscle cells	3.3 nTPM
Liver	14.0 nTPM
Skeletal muscle	9.4 nTPM
Adipose tissue	8.2 nTPM
Skin	7.6 nTPM
Fallopian tube	4.6 nTPM
Salivary gland	3.3 nTPM
Tongue	2.4 nTPM
Breast	1.1 nTPM
Vascular	0.6 nTPM
Placenta	0.3 nTPM
Thymus	0.3 nTPM
Endometrium	0.2 nTPM
Ovary	0.2 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

T-cells	0.0 nTPM
Endometrium	0.2 nTPM
Breast	0.2 nTPM
Tongue	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
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM
Vascular	0.0 nTPM

Undifferentiated cells	0.3 nTPM
Small intestine	0.7 nTPM
Colon	0.2 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	139.9 nTPM
Basal ganglia	183.3 nTPM
Cerebral cortex	149.6 nTPM
Hippocampus	138.3 nTPM
Thalamus	129.8 nTPM
Amygdala	119.7 nTPM
Hypothalamus	119.0 nTPM

Astrocyte	10.0 nTPM
Cerebral cortex	47.3 nTPM
Hippocampus	22.3 nTPM
Amygdala	12.7 nTPM
Hypothalamus	11.2 nTPM
Thalamus	4.4 nTPM
Midbrain	4.3 nTPM
Basal ganglia	3.0 nTPM
Medulla oblongata	2.1 nTPM
Pons	1.3 nTPM
Spinal cord	1.2 nTPM
Cerebellum	0.0 nTPM

Bergmann glia	0.0 nTPM
Cerebellum	0.0 nTPM
Medulla oblongata	0.0 nTPM
Pons	0.0 nTPM

Central nervous system macrophage	15.0 nTPM
Cerebral cortex	86.2 nTPM
Amygdala	25.0 nTPM
Hippocampus	22.6 nTPM
Hypothalamus	11.4 nTPM
Thalamus	8.4 nTPM
Midbrain	3.4 nTPM
Medulla oblongata	2.3 nTPM
Basal ganglia	2.1 nTPM
Spinal cord	2.1 nTPM
Pons	1.7 nTPM
Cerebellum	0.0 nTPM

Cerebellar inhibitory	1.0 nTPM
Midbrain	2.5 nTPM
Pons	1.6 nTPM
Medulla oblongata	0.9 nTPM
Cerebellum	0.1 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	1498.4 nTPM
Basal ganglia	2389.4 nTPM
Amygdala	1869.3 nTPM
Midbrain	1508.1 nTPM
Cerebral cortex	1437.6 nTPM
Hippocampus	1423.8 nTPM
Hypothalamus	955.9 nTPM
Thalamus	904.4 nTPM

Choroid plexus epithelial cell	4.2 nTPM
Hippocampus	13.9 nTPM
Medulla oblongata	3.0 nTPM
Basal ganglia	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	19.1 nTPM
Cerebral cortex	48.1 nTPM
Amygdala	37.2 nTPM
Hippocampus	33.6 nTPM
Medulla oblongata	29.7 nTPM
Hypothalamus	25.3 nTPM
Basal ganglia	11.5 nTPM
Pons	10.6 nTPM
Midbrain	8.4 nTPM
Thalamus	5.6 nTPM
Cerebellum	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	20.8 nTPM
Cerebral cortex	38.5 nTPM
Basal ganglia	26.7 nTPM
Amygdala	18.6 nTPM
Midbrain	14.4 nTPM
Hypothalamus	13.8 nTPM
Hippocampus	12.8 nTPM

Deep-layer intratelencephalic	312.4 nTPM
Basal ganglia	440.4 nTPM
Cerebral cortex	350.5 nTPM
Hippocampus	325.9 nTPM
Amygdala	301.8 nTPM
Hypothalamus	143.2 nTPM

Deep-layer near-projecting	16.6 nTPM
Hippocampus	31.9 nTPM
Cerebral cortex	16.4 nTPM
Amygdala	13.2 nTPM
Basal ganglia	11.7 nTPM
Hypothalamus	9.8 nTPM

Eccentric medium spiny neuron	25.3 nTPM
Amygdala	68.0 nTPM
Cerebral cortex	40.8 nTPM
Hippocampus	24.0 nTPM
Thalamus	9.3 nTPM
Basal ganglia	4.9 nTPM
Hypothalamus	4.7 nTPM

Endothelial cell	8.1 nTPM
Cerebral cortex	42.2 nTPM
Hippocampus	11.5 nTPM
Amygdala	11.2 nTPM
Hypothalamus	11.2 nTPM
Thalamus	6.8 nTPM
Midbrain	3.8 nTPM
Basal ganglia	1.9 nTPM
Medulla oblongata	1.0 nTPM
Cerebellum	0.0 nTPM
Pons	0.0 nTPM
Spinal cord	0.0 nTPM

Ependymal cell	9.4 nTPM
Hypothalamus	15.2 nTPM
Hippocampus	15.1 nTPM
Thalamus	13.4 nTPM
Amygdala	10.8 nTPM
Midbrain	10.2 nTPM
Basal ganglia	7.4 nTPM
Spinal cord	5.7 nTPM
Pons	5.1 nTPM
Medulla oblongata	1.5 nTPM