Single cell type - CNEP1R1 - The Human Protein Atlas

CNEP1R1

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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.	CNEP1R1
Gene descriptionⁱ Full gene name according to HGNC.	CTD nuclear envelope phosphatase 1 regulatory subunit 1
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.	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	5

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.	Monocytes - Innate immune response (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 (Monocytes)
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.	0.51
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 (Monocytes)

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

CNEP1R1 is part of cluster 29 Monocytes - Innate immune response with confidenceⁱ 0.95
447 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.
CSGALNACT2	Chondroitin sulfate N-acetylgalactosaminyltransferase 2	0.5613	29
GPR132	G protein-coupled receptor 132	0.5161	29
RP2	RP2 activator of ARL3 GTPase	0.5123	29
ATP2B1	ATPase plasma membrane Ca2+ transporting 1	0.5069	29
C9orf72	C9orf72-SMCR8 complex subunit	0.5059	29
PAPOLG	Poly(A) polymerase gamma	0.4797	29
MAPK7	Mitogen-activated protein kinase 7	0.4793	29
SRGN	Serglycin	0.4665	29
CYRIA	CYFIP related Rac1 interactor A	0.4658	29
RAP2C	RAP2C, member of RAS oncogene family	0.4655	78
GXYLT1	Glucoside xylosyltransferase 1	0.4566	78
NLRP3	NLR family pyrin domain containing 3	0.4562	29
TNFRSF1B	TNF receptor superfamily member 1B	0.4532	29
SERPINB9	Serpin family B member 9	0.4515	28
RIPK2	Receptor interacting serine/threonine kinase 2	0.4493	29

IMMUNE CELLS

CNEP1R1 is part of cluster 28 Neutrophils - Unknown function with confidenceⁱ 0.99
118 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.
CDC42	Cell division cycle 42	1.0000	28
DPH3	Diphthamide biosynthesis 3	1.0000	28
HNRNPH2	Heterogeneous nuclear ribonucleoprotein H2	0.9762	28
SRXN1	Sulfiredoxin 1	0.9762	28
HCAR3	Hydroxycarboxylic acid receptor 3	0.9762	28
CAPZA2	Capping actin protein of muscle Z-line subunit alpha 2	0.9762	28
MCMBP	Minichromosome maintenance complex binding protein	0.9762	28
TUBA1A	Tubulin alpha 1a	0.9762	37
UBAP1	Ubiquitin associated protein 1	0.9762	28
RETREG2	Reticulophagy regulator family member 2	0.9762	28
CALCOCO2	Calcium binding and coiled-coil domain 2	0.9762	28
TNFSF10	TNF superfamily member 10	0.9762	28
NEDD9	Neural precursor cell expressed, developmentally down-regulated 9	0.9762	28
CHFR	Checkpoint with forkhead and ring finger domains	0.9762	37
PIGB	Phosphatidylinositol glycan anchor biosynthesis class B	0.9762	28

Adipocytes	7.6 nTPM
Adipose tissue	8.9 nTPM
Breast	6.3 nTPM

Alveolar cells type 1	6.2 nTPM
Lung	6.2 nTPM

Alveolar cells type 2	4.6 nTPM
Lung	4.6 nTPM

Astrocytes	8.4 nTPM
Brain	8.4 nTPM

B-cells	10.0 nTPM
Skin	23.7 nTPM
Esophagus	17.7 nTPM
Stomach	12.7 nTPM
Adipose tissue	11.9 nTPM
Thymus	11.8 nTPM
Bone marrow	11.1 nTPM
Spleen	11.1 nTPM
PBMC	9.2 nTPM
Lymph node	8.6 nTPM
Salivary gland	7.8 nTPM
Lung	4.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM

Ciliated cells	3.7 nTPM
Endometrium	5.8 nTPM
Bronchus	3.9 nTPM
Fallopian tube	3.6 nTPM
Lung	1.6 nTPM

Club cells	4.3 nTPM
Bronchus	4.9 nTPM
Lung	4.1 nTPM
Prostate	3.8 nTPM

Endothelial cells	6.9 nTPM
Skin	10.8 nTPM
Heart muscle	10.6 nTPM
Placenta	9.1 nTPM
Esophagus	9.1 nTPM
Fallopian tube	8.1 nTPM
Endometrium	7.4 nTPM
Thymus	7.3 nTPM
Testis	7.0 nTPM
Breast	7.0 nTPM
Lung	6.7 nTPM
Prostate	6.5 nTPM
Vascular	6.4 nTPM
Skeletal muscle	6.2 nTPM
Salivary gland	5.9 nTPM
Tongue	5.6 nTPM
Ovary	5.3 nTPM
Pancreas	2.6 nTPM
Liver	2.5 nTPM

Enteroendocrine cells	2.6 nTPM
Colon	6.1 nTPM
Rectum	1.7 nTPM
Small intestine	0.0 nTPM

Fibroblasts	9.9 nTPM
Heart muscle	16.0 nTPM
Placenta	12.8 nTPM
Adipose tissue	12.8 nTPM
Skin	12.1 nTPM
Prostate	11.2 nTPM
Skeletal muscle	10.6 nTPM
Pancreas	10.5 nTPM
Stomach	10.1 nTPM
Esophagus	9.9 nTPM
Thymus	8.7 nTPM
Lung	7.9 nTPM
Vascular	7.7 nTPM
Breast	7.2 nTPM
Liver	7.1 nTPM
Fallopian tube	7.0 nTPM
Salivary gland	6.8 nTPM

Granulocytes	16.6 nTPM
Tongue	19.4 nTPM
Lung	17.6 nTPM
Fallopian tube	12.7 nTPM

Intestinal goblet cells	5.8 nTPM
Small intestine	7.7 nTPM
Colon	4.9 nTPM
Rectum	4.9 nTPM

Lymphatic endothelial cells	9.0 nTPM
Ovary	10.9 nTPM
Fallopian tube	7.2 nTPM

Macrophages	19.0 nTPM
Stomach	36.0 nTPM
Fallopian tube	34.9 nTPM
Adipose tissue	32.7 nTPM
Thymus	27.4 nTPM
Skin	24.5 nTPM
Skeletal muscle	21.0 nTPM
Vascular	20.5 nTPM
Bone marrow	20.3 nTPM
Spleen	19.0 nTPM
Esophagus	18.0 nTPM
Lung	15.5 nTPM
Kidney	15.0 nTPM
Prostate	14.7 nTPM
Tongue	13.8 nTPM
Testis	11.8 nTPM
Breast	11.1 nTPM
Salivary gland	10.6 nTPM
Pancreas	10.3 nTPM
Endometrium	3.7 nTPM

Paneth cells	4.1 nTPM
Rectum	8.7 nTPM
Small intestine	3.5 nTPM
Colon	0.0 nTPM

Basal respiratory cells	6.0 nTPM
Bronchus	6.0 nTPM

Cone photoreceptor cells	8.5 nTPM
Eye	8.5 nTPM

Cytotrophoblasts	17.2 nTPM
Placenta	17.2 nTPM

Distal tubular cells	3.1 nTPM
Kidney	3.1 nTPM

Plasma cells	6.7 nTPM
Stomach	10.5 nTPM
Spleen	9.1 nTPM
Fallopian tube	8.7 nTPM
Thymus	7.8 nTPM
Bone marrow	7.6 nTPM
Salivary gland	7.2 nTPM
Liver	3.0 nTPM
Esophagus	0.0 nTPM

Schwann cells	13.9 nTPM
Adipose tissue	24.6 nTPM
Esophagus	12.0 nTPM
Vascular	5.2 nTPM

Serous glandular cells	2.8 nTPM
Salivary gland	5.5 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	7.6 nTPM
Liver	12.3 nTPM
Placenta	12.2 nTPM
Skin	10.1 nTPM
Esophagus	8.4 nTPM
Endometrium	8.1 nTPM
Prostate	7.9 nTPM
Salivary gland	7.9 nTPM
Fallopian tube	7.6 nTPM
Lung	7.1 nTPM
Thymus	7.0 nTPM
Adipose tissue	6.5 nTPM
Vascular	6.2 nTPM
Ovary	6.1 nTPM
Skeletal muscle	4.8 nTPM
Tongue	4.5 nTPM
Breast	4.5 nTPM

T-cells	12.3 nTPM
Adipose tissue	23.9 nTPM
Skin	23.8 nTPM
Fallopian tube	16.0 nTPM
Bone marrow	15.1 nTPM
Thymus	14.7 nTPM
Lymph node	13.2 nTPM
Stomach	13.1 nTPM
Prostate	13.0 nTPM
Spleen	12.2 nTPM
Tongue	11.8 nTPM
Breast	10.9 nTPM
Colon	10.7 nTPM
Salivary gland	10.0 nTPM
Esophagus	9.7 nTPM
Lung	9.6 nTPM
Skeletal muscle	9.5 nTPM
Kidney	8.9 nTPM
Endometrium	8.8 nTPM
Vascular	8.4 nTPM
PBMC	7.9 nTPM
Liver	7.7 nTPM

Undifferentiated cells	5.1 nTPM
Rectum	6.2 nTPM
Colon	4.7 nTPM
Small intestine	4.4 nTPM

Amygdala excitatory	14.9 nTPM
Thalamus	16.8 nTPM
Cerebral cortex	16.1 nTPM
Hippocampus	15.9 nTPM
Amygdala	14.0 nTPM
Basal ganglia	13.7 nTPM
Hypothalamus	13.3 nTPM

Astrocyte	12.8 nTPM
Amygdala	16.3 nTPM
Hippocampus	14.2 nTPM
Cerebral cortex	14.0 nTPM
Midbrain	13.5 nTPM
Basal ganglia	13.2 nTPM
Thalamus	13.1 nTPM
Cerebellum	12.6 nTPM
Medulla oblongata	12.5 nTPM
Pons	12.1 nTPM
Hypothalamus	11.6 nTPM
Spinal cord	8.3 nTPM

Bergmann glia	16.2 nTPM
Pons	20.1 nTPM
Cerebellum	17.9 nTPM
Medulla oblongata	10.7 nTPM

Central nervous system macrophage	23.4 nTPM
Spinal cord	42.4 nTPM
Hypothalamus	30.2 nTPM
Medulla oblongata	27.3 nTPM
Pons	21.1 nTPM
Cerebellum	21.0 nTPM
Midbrain	20.7 nTPM
Thalamus	20.4 nTPM
Amygdala	20.1 nTPM
Hippocampus	18.5 nTPM
Basal ganglia	18.1 nTPM
Cerebral cortex	17.2 nTPM

Cerebellar inhibitory	20.0 nTPM
Spinal cord	22.0 nTPM
Pons	20.5 nTPM
Cerebellum	20.0 nTPM
Medulla oblongata	19.9 nTPM
Midbrain	17.4 nTPM

Cge interneuron	20.1 nTPM
Midbrain	22.1 nTPM
Thalamus	20.9 nTPM
Hippocampus	20.7 nTPM
Basal ganglia	20.5 nTPM
Cerebral cortex	20.4 nTPM
Amygdala	19.9 nTPM
Hypothalamus	15.9 nTPM

Choroid plexus epithelial cell	12.3 nTPM
Hippocampus	16.6 nTPM
Medulla oblongata	11.5 nTPM
Thalamus	11.0 nTPM
Basal ganglia	10.1 nTPM

Committed oligodendrocyte precursor	18.4 nTPM
Spinal cord	29.4 nTPM
Medulla oblongata	21.9 nTPM
Midbrain	20.2 nTPM
Pons	19.5 nTPM
Cerebellum	19.0 nTPM
Cerebral cortex	18.4 nTPM
Amygdala	17.5 nTPM
Thalamus	16.0 nTPM
Hippocampus	14.7 nTPM
Basal ganglia	13.7 nTPM
Hypothalamus	11.6 nTPM

Deep-layer corticothalamic and 6b	18.0 nTPM
Midbrain	27.7 nTPM
Cerebral cortex	17.5 nTPM
Hippocampus	17.2 nTPM
Amygdala	16.2 nTPM
Basal ganglia	15.7 nTPM
Hypothalamus	13.5 nTPM

Deep-layer intratelencephalic	16.1 nTPM
Cerebral cortex	18.2 nTPM
Basal ganglia	17.9 nTPM
Hippocampus	16.6 nTPM
Amygdala	14.6 nTPM
Hypothalamus	13.4 nTPM

Deep-layer near-projecting	19.5 nTPM
Hippocampus	23.7 nTPM
Basal ganglia	21.2 nTPM
Cerebral cortex	20.9 nTPM
Amygdala	16.6 nTPM
Hypothalamus	15.2 nTPM

Eccentric medium spiny neuron	17.0 nTPM
Hippocampus	19.5 nTPM
Amygdala	17.1 nTPM
Cerebral cortex	17.0 nTPM
Hypothalamus	17.0 nTPM
Basal ganglia	16.6 nTPM
Thalamus	14.8 nTPM

Endothelial cell	15.7 nTPM
Pons	25.6 nTPM
Cerebral cortex	19.2 nTPM
Amygdala	19.0 nTPM
Thalamus	17.5 nTPM
Cerebellum	15.5 nTPM
Hippocampus	15.4 nTPM
Medulla oblongata	14.4 nTPM
Spinal cord	13.8 nTPM
Basal ganglia	13.0 nTPM
Hypothalamus	11.2 nTPM
Midbrain	8.5 nTPM

Ependymal cell	11.2 nTPM
Thalamus	13.8 nTPM
Pons	13.4 nTPM
Amygdala	13.1 nTPM
Medulla oblongata	13.0 nTPM
Midbrain	12.1 nTPM
Hippocampus	9.6 nTPM
Basal ganglia	9.3 nTPM
Hypothalamus	8.9 nTPM
Spinal cord	7.7 nTPM