Single cell type - CTDNEP1 - The Human Protein Atlas

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.	CTDNEP1
Gene descriptionⁱ Full gene name according to HGNC.	CTD nuclear envelope phosphatase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes
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. Read more	Intracellular,Membrane
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. Read more	Non-specific - Mitochondria (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. Read more	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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

CTDNEP1 is part of cluster 7 Non-specific - Mitochondria with confidenceⁱ 1
481 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
UBE2M	Ubiquitin conjugating enzyme E2 M	0.5683	7
MAZ	MYC associated zinc finger protein	0.5475	53
TBC1D10B	TBC1 domain family member 10B	0.5370	7
MBD2	Methyl-CpG binding domain protein 2	0.5298	41
RRP36	Ribosomal RNA processing 36	0.5296	7
NELFB	Negative elongation factor complex member B	0.5274	7
ALYREF	Aly/REF export factor	0.5190	7
PKN1	Protein kinase N1	0.5155	7
ZNF777	Zinc finger protein 777	0.5074	7
ARL8A	ADP ribosylation factor like GTPase 8A	0.4993	7
STRN4	Striatin 4	0.4980	7
GSK3A	Glycogen synthase kinase 3 alpha	0.4963	7
ZNF787	Zinc finger protein 787	0.4954	9
CTBP1	C-terminal binding protein 1	0.4947	65
AKT1	AKT serine/threonine kinase 1	0.4912	30

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	48.0 nTPM
Adipose tissue	49.9 nTPM
Breast	46.2 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	23.2 nTPM
Lung	23.2 nTPM

Astrocytes	12.7 nTPM
Brain	12.7 nTPM

B-cells	47.1 nTPM
Liver	94.9 nTPM
Adipose tissue	73.7 nTPM
Breast	66.9 nTPM
Colon	59.1 nTPM
PBMC	57.1 nTPM
Kidney	38.1 nTPM
Lymph node	23.3 nTPM
Bone marrow	22.1 nTPM
Stomach	18.2 nTPM
Spleen	18.0 nTPM

Dendritic cells	68.3 nTPM
Adipose tissue	73.8 nTPM
Breast	71.5 nTPM
PBMC	59.8 nTPM

Endothelial cells	47.2 nTPM
Ovary	86.6 nTPM
Pancreas	73.4 nTPM
Liver	65.1 nTPM
Prostate	64.7 nTPM
Breast	56.7 nTPM
Placenta	53.4 nTPM
Testis	48.6 nTPM
Skin	48.3 nTPM
Endometrium	47.9 nTPM
Eye	46.1 nTPM
Skeletal muscle	30.0 nTPM
Esophagus	25.3 nTPM
Heart muscle	11.9 nTPM
Lung	3.1 nTPM

Fibroblasts	43.5 nTPM
Adipose tissue	89.1 nTPM
Ovary	80.4 nTPM
Placenta	57.2 nTPM
Breast	52.3 nTPM
Skin	49.7 nTPM
Skeletal muscle	45.7 nTPM
Prostate	34.9 nTPM
Esophagus	23.1 nTPM
Stomach	20.8 nTPM
Heart muscle	15.0 nTPM
Lung	10.1 nTPM

Intestinal goblet cells	79.6 nTPM
Rectum	84.3 nTPM
Small intestine	83.7 nTPM
Colon	70.7 nTPM

Macrophages	69.8 nTPM
Ovary	145.9 nTPM
Adipose tissue	117.4 nTPM
Prostate	104.3 nTPM
Pancreas	81.7 nTPM
Testis	80.7 nTPM
Skeletal muscle	70.7 nTPM
Breast	65.7 nTPM
Spleen	61.1 nTPM
Endometrium	60.5 nTPM
Bone marrow	57.5 nTPM
Kidney	54.4 nTPM
Esophagus	50.4 nTPM
Stomach	49.8 nTPM
Lung	34.0 nTPM
PBMC	13.6 nTPM

Paneth cells	52.1 nTPM
Rectum	69.9 nTPM
Colon	52.6 nTPM
Small intestine	33.8 nTPM

Plasma cells	41.3 nTPM
Spleen	60.5 nTPM
Adipose tissue	54.3 nTPM
Bone marrow	47.7 nTPM
Stomach	25.3 nTPM
Esophagus	18.4 nTPM

Respiratory ciliated cells	25.8 nTPM
Bronchus	41.5 nTPM
Lung	10.2 nTPM

Smooth muscle cells	51.4 nTPM
Bronchus	148.6 nTPM
Pancreas	78.7 nTPM
Ovary	78.2 nTPM
Adipose tissue	54.3 nTPM
Breast	49.6 nTPM
Endometrium	44.4 nTPM
Prostate	37.5 nTPM
Skeletal muscle	29.2 nTPM
Skin	24.8 nTPM
Esophagus	14.0 nTPM
Heart muscle	5.7 nTPM

T-cells	41.3 nTPM
Ovary	102.3 nTPM
Adipose tissue	72.2 nTPM
Breast	59.9 nTPM
Skeletal muscle	58.7 nTPM
Liver	55.4 nTPM
Colon	50.8 nTPM
PBMC	48.0 nTPM
Endometrium	44.0 nTPM
Kidney	41.1 nTPM
Skin	39.2 nTPM
Stomach	26.9 nTPM
Esophagus	26.2 nTPM
Bone marrow	22.7 nTPM
Lymph node	20.2 nTPM
Spleen	18.1 nTPM
Lung	12.2 nTPM
Prostate	4.7 nTPM

Basal prostatic cells	42.4 nTPM
Prostate	42.4 nTPM

Basal respiratory cells	36.1 nTPM
Bronchus	36.1 nTPM

Basal squamous epithelial cells	19.9 nTPM
Esophagus	19.9 nTPM

Cholangiocytes	37.1 nTPM
Liver	37.1 nTPM

Undifferentiated cells	69.6 nTPM
Colon	70.7 nTPM
Rectum	70.7 nTPM
Small intestine	67.5 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC