Single cell type - CTU2 - The Human Protein Atlas

CTU2

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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.	CTU2
Gene descriptionⁱ Full gene name according to HGNC.	Cytosolic thiouridylase subunit 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes
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.	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.	Non-specific - Basic cellular processes (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 (Oocytes)
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.	0.48
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 (Oocytes)

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

CTU2 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 1
835 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.
NOC4L	Nucleolar complex associated 4 homolog	0.5890	67
DPH2	Diphthamide biosynthesis 2	0.5745	39
RPUSD1	RNA pseudouridine synthase domain containing 1	0.5578	39
MYBBP1A	MYB binding protein 1a	0.5571	39
PUS1	Pseudouridine synthase 1	0.5408	39
ATAD3B	ATPase family AAA domain containing 3B	0.5263	39
NCLN	Nicalin	0.5243	39
BOP1	BOP1 ribosomal biogenesis factor	0.5192	39
DOHH	Deoxyhypusine hydroxylase	0.5104	39
PPAN	Peter pan homolog	0.5035	39
ATAD3A	ATPase family AAA domain containing 3A	0.4996	39
NOC2L	NOC2 like nucleolar associated transcriptional repressor	0.4987	39
TRMT61A	TRNA methyltransferase 61A	0.4790	39
WDR4	WD repeat domain 4	0.4659	39
SLX9	SLX9 ribosome biogenesis factor	0.4645	39

IMMUNE CELLS

CTU2 is part of cluster 30 Non-specific - DNA binding with confidenceⁱ 1
263 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.
RRP1	Ribosomal RNA processing 1	0.9762	30
NACA2	Nascent polypeptide associated complex subunit alpha 2	0.9524	30
NAT10	N-acetyltransferase 10	0.9524	30
FASTKD2	FAST kinase domains 2	0.9524	30
ARMCX5	Armadillo repeat containing X-linked 5	0.9524	30
MRPS14	Mitochondrial ribosomal protein S14	0.9286	33
KMT2B	Lysine methyltransferase 2B	0.9286	30
MSANTD4	Myb/SANT DNA binding domain containing 4 with coiled-coils	0.9286	30
CEP350	Centrosomal protein 350	0.9286	30
CDK4	Cyclin dependent kinase 4	0.9286	30
NUP210	Nucleoporin 210	0.9286	30
NDUFAF7	NADH:ubiquinone oxidoreductase complex assembly factor 7	0.9286	30
ZFY	Zinc finger protein Y-linked	0.9286	30
NCL	Nucleolin	0.9048	30
NAA25	N-alpha-acetyltransferase 25, NatB auxiliary subunit	0.9048	30

Adipocytes	5.9 nTPM
Breast	8.7 nTPM
Adipose tissue	3.2 nTPM

Alveolar cells type 1	11.8 nTPM
Lung	11.8 nTPM

Alveolar cells type 2	11.1 nTPM
Lung	11.1 nTPM

Astrocytes	2.2 nTPM
Brain	2.2 nTPM

B-cells	8.8 nTPM
Esophagus	23.6 nTPM
Stomach	10.5 nTPM
Kidney	10.4 nTPM
Liver	9.7 nTPM
Bone marrow	8.8 nTPM
Lymph node	8.2 nTPM
Spleen	8.1 nTPM
Thymus	8.1 nTPM
PBMC	7.7 nTPM
Salivary gland	5.7 nTPM
Lung	5.4 nTPM
Adipose tissue	4.9 nTPM
Skin	3.4 nTPM

Ciliated cells	5.5 nTPM
Lung	7.3 nTPM
Fallopian tube	7.0 nTPM
Bronchus	4.4 nTPM
Endometrium	3.4 nTPM

Club cells	6.9 nTPM
Bronchus	9.0 nTPM
Lung	7.5 nTPM
Prostate	4.3 nTPM

Endothelial cells	7.5 nTPM
Fallopian tube	17.4 nTPM
Lung	14.4 nTPM
Breast	14.1 nTPM
Pancreas	12.9 nTPM
Placenta	9.1 nTPM
Thymus	7.6 nTPM
Skin	6.8 nTPM
Skeletal muscle	6.4 nTPM
Endometrium	6.3 nTPM
Tongue	5.8 nTPM
Ovary	5.6 nTPM
Liver	5.0 nTPM
Esophagus	4.7 nTPM
Vascular	4.7 nTPM
Salivary gland	4.4 nTPM
Testis	3.4 nTPM
Prostate	3.4 nTPM
Heart muscle	2.3 nTPM

Enteroendocrine cells	7.6 nTPM
Colon	9.1 nTPM
Small intestine	6.9 nTPM
Rectum	6.7 nTPM

Fibroblasts	9.0 nTPM
Pancreas	18.9 nTPM
Lung	13.1 nTPM
Stomach	13.0 nTPM
Thymus	13.0 nTPM
Placenta	12.6 nTPM
Fallopian tube	11.8 nTPM
Skeletal muscle	9.8 nTPM
Breast	8.4 nTPM
Adipose tissue	8.1 nTPM
Salivary gland	6.3 nTPM
Skin	6.2 nTPM
Esophagus	6.0 nTPM
Vascular	6.0 nTPM
Prostate	5.3 nTPM
Heart muscle	3.3 nTPM
Liver	2.4 nTPM

Granulocytes	5.2 nTPM
Fallopian tube	9.2 nTPM
Lung	6.6 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	4.8 nTPM
Colon	6.4 nTPM
Small intestine	4.1 nTPM
Rectum	3.8 nTPM

Lymphatic endothelial cells	4.9 nTPM
Ovary	5.5 nTPM
Fallopian tube	4.4 nTPM

Macrophages	5.9 nTPM
Breast	11.1 nTPM
Stomach	10.3 nTPM
Lung	9.6 nTPM
Bone marrow	9.1 nTPM
Pancreas	8.2 nTPM
Prostate	6.3 nTPM
Testis	6.2 nTPM
Thymus	6.2 nTPM
Endometrium	5.5 nTPM
Fallopian tube	5.3 nTPM
Adipose tissue	4.7 nTPM
Skin	4.5 nTPM
Kidney	4.4 nTPM
Tongue	4.4 nTPM
Salivary gland	4.1 nTPM
Skeletal muscle	3.6 nTPM
Spleen	3.0 nTPM
Esophagus	2.6 nTPM
Vascular	2.3 nTPM

Paneth cells	6.0 nTPM
Rectum	7.3 nTPM
Colon	7.2 nTPM
Small intestine	3.5 nTPM

Basal keratinocytes	11.5 nTPM
Skin	14.5 nTPM
Tongue	8.6 nTPM

Bipolar cells	12.8 nTPM
Eye	12.8 nTPM

Collecting duct cells	3.9 nTPM
Kidney	3.9 nTPM

Cone photoreceptor cells	10.2 nTPM
Eye	10.2 nTPM

Plasma cells	16.2 nTPM
Thymus	26.3 nTPM
Liver	20.0 nTPM
Spleen	18.5 nTPM
Stomach	17.2 nTPM
Bone marrow	16.6 nTPM
Salivary gland	13.9 nTPM
Fallopian tube	11.9 nTPM
Esophagus	5.2 nTPM

Schwann cells	9.1 nTPM
Esophagus	12.0 nTPM
Adipose tissue	8.6 nTPM
Vascular	6.8 nTPM

Serous glandular cells	4.1 nTPM
Salivary gland	8.1 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	9.3 nTPM
Fallopian tube	16.6 nTPM
Thymus	14.7 nTPM
Breast	12.9 nTPM
Skeletal muscle	12.2 nTPM
Placenta	11.7 nTPM
Esophagus	10.8 nTPM
Prostate	10.3 nTPM
Skin	9.9 nTPM
Ovary	9.6 nTPM
Salivary gland	8.5 nTPM
Adipose tissue	7.1 nTPM
Vascular	6.7 nTPM
Tongue	5.1 nTPM
Endometrium	5.0 nTPM
Liver	4.7 nTPM
Lung	3.5 nTPM

T-cells	9.3 nTPM
Breast	22.3 nTPM
Fallopian tube	14.6 nTPM
Adipose tissue	12.1 nTPM
Skeletal muscle	11.7 nTPM
Spleen	11.7 nTPM
Stomach	11.6 nTPM
Thymus	10.5 nTPM
Lung	9.4 nTPM
PBMC	9.3 nTPM
Lymph node	8.9 nTPM
Liver	8.7 nTPM
Endometrium	8.0 nTPM
Skin	7.7 nTPM
Bone marrow	7.4 nTPM
Vascular	7.2 nTPM
Colon	6.8 nTPM
Prostate	6.0 nTPM
Tongue	5.8 nTPM
Kidney	5.3 nTPM
Esophagus	4.9 nTPM
Salivary gland	4.9 nTPM

Undifferentiated cells	11.8 nTPM
Colon	18.6 nTPM
Small intestine	8.7 nTPM
Rectum	8.2 nTPM

Amygdala excitatory	5.4 nTPM
Basal ganglia	6.6 nTPM
Hippocampus	6.2 nTPM
Cerebral cortex	5.8 nTPM
Amygdala	5.6 nTPM
Thalamus	4.5 nTPM
Hypothalamus	3.6 nTPM

Astrocyte	4.4 nTPM
Cerebellum	5.8 nTPM
Pons	5.4 nTPM
Spinal cord	5.2 nTPM
Thalamus	5.2 nTPM
Midbrain	4.9 nTPM
Cerebral cortex	4.7 nTPM
Medulla oblongata	4.7 nTPM
Basal ganglia	4.0 nTPM
Hippocampus	4.0 nTPM
Amygdala	2.6 nTPM
Hypothalamus	2.3 nTPM

Bergmann glia	3.2 nTPM
Cerebellum	4.6 nTPM
Pons	2.9 nTPM
Medulla oblongata	2.1 nTPM

Central nervous system macrophage	2.5 nTPM
Spinal cord	4.1 nTPM
Cerebral cortex	2.8 nTPM
Cerebellum	2.6 nTPM
Hippocampus	2.6 nTPM
Amygdala	2.5 nTPM
Thalamus	2.5 nTPM
Medulla oblongata	2.4 nTPM
Midbrain	2.3 nTPM
Hypothalamus	2.2 nTPM
Basal ganglia	1.9 nTPM
Pons	1.9 nTPM

Cerebellar inhibitory	5.9 nTPM
Pons	7.4 nTPM
Cerebellum	5.9 nTPM
Midbrain	5.6 nTPM
Spinal cord	5.5 nTPM
Medulla oblongata	5.2 nTPM

Cge interneuron	5.4 nTPM
Cerebral cortex	6.6 nTPM
Hippocampus	5.8 nTPM
Basal ganglia	5.5 nTPM
Midbrain	5.4 nTPM
Thalamus	5.3 nTPM
Amygdala	4.8 nTPM
Hypothalamus	4.6 nTPM

Choroid plexus epithelial cell	1.3 nTPM
Medulla oblongata	3.0 nTPM
Basal ganglia	2.1 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	7.3 nTPM
Spinal cord	14.7 nTPM
Pons	10.6 nTPM
Cerebral cortex	8.2 nTPM
Cerebellum	7.9 nTPM
Hippocampus	7.8 nTPM
Midbrain	7.6 nTPM
Amygdala	5.6 nTPM
Basal ganglia	5.5 nTPM
Thalamus	5.4 nTPM
Medulla oblongata	3.9 nTPM
Hypothalamus	3.4 nTPM

Deep-layer corticothalamic and 6b	6.4 nTPM
Midbrain	8.9 nTPM
Basal ganglia	6.8 nTPM
Cerebral cortex	6.5 nTPM
Hippocampus	6.0 nTPM
Amygdala	5.8 nTPM
Hypothalamus	4.6 nTPM

Deep-layer intratelencephalic	6.2 nTPM
Basal ganglia	6.9 nTPM
Cerebral cortex	6.9 nTPM
Hippocampus	6.3 nTPM
Amygdala	6.0 nTPM
Hypothalamus	4.9 nTPM

Deep-layer near-projecting	6.5 nTPM
Hippocampus	8.5 nTPM
Cerebral cortex	7.2 nTPM
Basal ganglia	6.6 nTPM
Amygdala	5.5 nTPM
Hypothalamus	4.7 nTPM

Eccentric medium spiny neuron	5.5 nTPM
Basal ganglia	6.6 nTPM
Cerebral cortex	6.1 nTPM
Hypothalamus	5.7 nTPM
Thalamus	5.6 nTPM
Amygdala	5.3 nTPM
Hippocampus	3.7 nTPM

Endothelial cell	2.1 nTPM
Cerebral cortex	3.8 nTPM
Thalamus	3.4 nTPM
Midbrain	2.8 nTPM
Hypothalamus	2.5 nTPM
Pons	2.5 nTPM
Medulla oblongata	2.1 nTPM
Basal ganglia	1.9 nTPM
Hippocampus	1.9 nTPM
Amygdala	1.1 nTPM
Cerebellum	0.8 nTPM
Spinal cord	0.0 nTPM

Ependymal cell	3.6 nTPM
Midbrain	7.0 nTPM
Medulla oblongata	5.3 nTPM
Amygdala	4.0 nTPM
Basal ganglia	3.8 nTPM
Hippocampus	3.8 nTPM
Pons	3.5 nTPM
Thalamus	2.4 nTPM
Spinal cord	1.9 nTPM
Hypothalamus	0.9 nTPM