Single cell type - ZNF473 - The Human Protein Atlas

ZNF473

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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.	ZNF473
Gene descriptionⁱ Full gene name according to HGNC.	Zinc finger protein 473
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.	7

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.	Spermatocytes & Spermatids - Spermatid development (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 (Early spermatids, Spermatocytes, Late spermatids)
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.	0.73
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 (Ependymal cell)
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 (Early spermatids, Spermatocytes, Late spermatids)

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 (Ependymal cell)

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

ZNF473 is part of cluster 70 Spermatocytes & Spermatids - Spermatid development with confidenceⁱ 1
376 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.
SYCE3	Synaptonemal complex central element protein 3	0.6439	70
C11orf91	Chromosome 11 open reading frame 91	0.6202	70
BRDT	Bromodomain testis associated	0.6160	70
ATP23	ATP23 metallopeptidase and ATP synthase assembly factor homolog	0.6148	70
LCA5L	Lebercilin LCA5 like	0.6090	70
PKDREJ	Polycystin family receptor for egg jelly	0.6050	70
ZPBP	Zona pellucida binding protein	0.5941	70
DYNLT2	Dynein light chain Tctex-type 2	0.5858	70
CTAGE6	CTAGE family member 6	0.5830	70
SPESP1	Sperm equatorial segment protein 1	0.5829	70
CCDC110	Coiled-coil domain containing 110	0.5819	70
DYRK3	Dual specificity tyrosine phosphorylation regulated kinase 3	0.5816	70
RSPH6A	Radial spoke head 6 homolog A	0.5800	70
ACR	Acrosin	0.5771	70
SLCO6A1	Solute carrier organic anion transporter family member 6A1	0.5759	70

IMMUNE CELLS

ZNF473 is part of cluster 32 Basophils - Transcription with confidenceⁱ 0.95
291 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.
CCND1	Cyclin D1	0.9762	32
H2AC16	H2A clustered histone 16	0.9524	32
ITPR1	Inositol 1,4,5-trisphosphate receptor type 1	0.9286	32
ENSG00000285827	Novel protein	0.9286	24
NPIPB5	Nuclear pore complex interacting protein family member B5	0.9286	14
ARL17A	ADP ribosylation factor like GTPase 17A	0.9286	32
NSUN5	NOP2/Sun RNA methyltransferase 5	0.9286	32
F2RL3	F2R like thrombin or trypsin receptor 3	0.9048	20
PLPP5	Phospholipid phosphatase 5	0.9048	32
PAF1	PAF1 homolog, Paf1/RNA polymerase II complex component	0.9048	32
TRMT10B	TRNA methyltransferase 10B	0.9048	32
ZNF581	Zinc finger protein 581	0.9048	32
FKRP	Fukutin related protein	0.9048	20
NPIPA1	Nuclear pore complex interacting protein family member A1	0.9048	32
ZNF142	Zinc finger protein 142	0.9048	32

Adipocytes	2.8 nTPM
Breast	3.4 nTPM
Adipose tissue	2.2 nTPM

Alveolar cells type 1	2.7 nTPM
Lung	2.7 nTPM

Alveolar cells type 2	2.6 nTPM
Lung	2.6 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	4.9 nTPM
Esophagus	11.8 nTPM
Stomach	9.3 nTPM
Spleen	6.2 nTPM
Lung	5.4 nTPM
Kidney	5.2 nTPM
Liver	4.8 nTPM
Lymph node	4.8 nTPM
Thymus	4.2 nTPM
Salivary gland	3.6 nTPM
Bone marrow	3.5 nTPM
PBMC	3.1 nTPM
Adipose tissue	2.5 nTPM
Skin	0.0 nTPM

Ciliated cells	5.6 nTPM
Lung	6.2 nTPM
Fallopian tube	5.9 nTPM
Endometrium	5.3 nTPM
Bronchus	5.2 nTPM

Club cells	2.0 nTPM
Bronchus	2.3 nTPM
Lung	2.3 nTPM
Prostate	1.5 nTPM

Endothelial cells	3.8 nTPM
Esophagus	11.6 nTPM
Endometrium	8.1 nTPM
Fallopian tube	5.1 nTPM
Liver	5.0 nTPM
Heart muscle	4.9 nTPM
Vascular	4.3 nTPM
Thymus	4.2 nTPM
Skin	4.1 nTPM
Tongue	3.5 nTPM
Prostate	3.4 nTPM
Salivary gland	3.0 nTPM
Lung	2.8 nTPM
Skeletal muscle	2.5 nTPM
Ovary	2.1 nTPM
Testis	1.5 nTPM
Placenta	1.1 nTPM
Breast	0.9 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	2.9 nTPM
Small intestine	6.9 nTPM
Colon	2.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	3.2 nTPM
Heart muscle	6.7 nTPM
Stomach	5.8 nTPM
Liver	4.7 nTPM
Placenta	4.4 nTPM
Esophagus	3.6 nTPM
Thymus	3.3 nTPM
Fallopian tube	2.9 nTPM
Pancreas	2.7 nTPM
Skeletal muscle	2.5 nTPM
Vascular	2.4 nTPM
Salivary gland	2.1 nTPM
Skin	2.0 nTPM
Lung	2.0 nTPM
Prostate	2.0 nTPM
Breast	1.8 nTPM
Adipose tissue	1.7 nTPM

Granulocytes	1.7 nTPM
Fallopian tube	2.7 nTPM
Lung	2.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	2.4 nTPM
Rectum	3.3 nTPM
Colon	3.0 nTPM
Small intestine	1.0 nTPM

Lymphatic endothelial cells	3.7 nTPM
Fallopian tube	7.4 nTPM
Ovary	0.0 nTPM

Macrophages	2.2 nTPM
Esophagus	5.1 nTPM
Bone marrow	4.1 nTPM
Kidney	3.5 nTPM
Lung	3.4 nTPM
Skin	3.3 nTPM
Spleen	3.0 nTPM
Thymus	2.9 nTPM
Vascular	2.4 nTPM
Tongue	2.3 nTPM
Testis	1.9 nTPM
Fallopian tube	1.9 nTPM
Endometrium	1.8 nTPM
Breast	1.8 nTPM
Salivary gland	1.6 nTPM
Prostate	1.5 nTPM
Adipose tissue	1.2 nTPM
Skeletal muscle	0.4 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	1.8 nTPM
Colon	3.6 nTPM
Rectum	1.7 nTPM
Small intestine	0.0 nTPM

Basal squamous epithelial cells	5.5 nTPM
Esophagus	5.5 nTPM

Bipolar cells	0.7 nTPM
Eye	0.7 nTPM

Cone photoreceptor cells	8.5 nTPM
Eye	8.5 nTPM

Early spermatids	114.1 nTPM
Testis	114.1 nTPM

Plasma cells	3.6 nTPM
Thymus	5.4 nTPM
Esophagus	5.2 nTPM
Stomach	5.0 nTPM
Spleen	4.3 nTPM
Liver	4.0 nTPM
Bone marrow	3.0 nTPM
Salivary gland	1.3 nTPM
Fallopian tube	0.6 nTPM

Schwann cells	1.7 nTPM
Vascular	3.7 nTPM
Adipose tissue	1.6 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	1.0 nTPM
Salivary gland	2.0 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	2.8 nTPM
Esophagus	4.8 nTPM
Liver	4.7 nTPM
Tongue	4.2 nTPM
Skin	4.0 nTPM
Fallopian tube	3.4 nTPM
Thymus	3.2 nTPM
Placenta	2.9 nTPM
Endometrium	2.5 nTPM
Lung	2.4 nTPM
Skeletal muscle	2.3 nTPM
Ovary	2.3 nTPM
Adipose tissue	2.2 nTPM
Vascular	1.9 nTPM
Breast	1.9 nTPM
Salivary gland	1.3 nTPM
Prostate	0.6 nTPM

T-cells	3.0 nTPM
Stomach	6.7 nTPM
Esophagus	4.9 nTPM
Thymus	4.5 nTPM
Lymph node	4.1 nTPM
Spleen	4.0 nTPM
Salivary gland	3.5 nTPM
Liver	3.2 nTPM
PBMC	3.1 nTPM
Bone marrow	3.1 nTPM
Colon	2.9 nTPM
Endometrium	2.8 nTPM
Skin	2.8 nTPM
Tongue	2.5 nTPM
Prostate	2.4 nTPM
Vascular	2.4 nTPM
Lung	2.1 nTPM
Breast	2.0 nTPM
Skeletal muscle	1.9 nTPM
Adipose tissue	1.8 nTPM
Fallopian tube	1.6 nTPM
Kidney	0.0 nTPM

Undifferentiated cells	3.0 nTPM
Colon	4.9 nTPM
Rectum	2.3 nTPM
Small intestine	1.9 nTPM

Amygdala excitatory	5.9 nTPM
Hippocampus	6.8 nTPM
Cerebral cortex	6.7 nTPM
Amygdala	6.0 nTPM
Thalamus	5.4 nTPM
Hypothalamus	5.3 nTPM
Basal ganglia	5.2 nTPM

Astrocyte	2.9 nTPM
Hypothalamus	4.1 nTPM
Pons	3.4 nTPM
Midbrain	3.3 nTPM
Amygdala	3.2 nTPM
Cerebellum	3.2 nTPM
Cerebral cortex	2.8 nTPM
Thalamus	2.8 nTPM
Hippocampus	2.6 nTPM
Medulla oblongata	2.5 nTPM
Basal ganglia	2.4 nTPM
Spinal cord	1.8 nTPM

Bergmann glia	3.0 nTPM
Medulla oblongata	4.3 nTPM
Cerebellum	3.2 nTPM
Pons	1.4 nTPM

Central nervous system macrophage	5.0 nTPM
Spinal cord	5.9 nTPM
Pons	5.6 nTPM
Thalamus	5.3 nTPM
Amygdala	5.2 nTPM
Midbrain	5.2 nTPM
Cerebellum	5.1 nTPM
Hippocampus	4.8 nTPM
Hypothalamus	4.8 nTPM
Basal ganglia	4.6 nTPM
Medulla oblongata	4.4 nTPM
Cerebral cortex	4.2 nTPM

Cerebellar inhibitory	4.7 nTPM
Spinal cord	5.5 nTPM
Cerebellum	5.1 nTPM
Midbrain	5.0 nTPM
Pons	4.7 nTPM
Medulla oblongata	3.5 nTPM

Cge interneuron	5.5 nTPM
Cerebral cortex	6.2 nTPM
Amygdala	5.9 nTPM
Hippocampus	5.9 nTPM
Hypothalamus	5.6 nTPM
Basal ganglia	5.4 nTPM
Thalamus	5.2 nTPM
Midbrain	4.1 nTPM

Choroid plexus epithelial cell	7.7 nTPM
Medulla oblongata	11.4 nTPM
Hippocampus	8.3 nTPM
Basal ganglia	8.2 nTPM
Thalamus	2.7 nTPM

Committed oligodendrocyte precursor	3.5 nTPM
Amygdala	6.2 nTPM
Pons	5.3 nTPM
Basal ganglia	4.4 nTPM
Hippocampus	4.1 nTPM
Thalamus	4.1 nTPM
Spinal cord	3.7 nTPM
Hypothalamus	3.4 nTPM
Midbrain	3.4 nTPM
Cerebral cortex	2.5 nTPM
Cerebellum	1.6 nTPM
Medulla oblongata	0.0 nTPM

Deep-layer corticothalamic and 6b	6.2 nTPM
Amygdala	6.5 nTPM
Cerebral cortex	6.5 nTPM
Basal ganglia	6.4 nTPM
Hippocampus	6.3 nTPM
Hypothalamus	6.2 nTPM
Midbrain	5.5 nTPM

Deep-layer intratelencephalic	5.8 nTPM
Basal ganglia	6.3 nTPM
Hippocampus	6.1 nTPM
Cerebral cortex	5.8 nTPM
Amygdala	5.7 nTPM
Hypothalamus	5.3 nTPM

Deep-layer near-projecting	5.6 nTPM
Basal ganglia	6.6 nTPM
Amygdala	6.1 nTPM
Hypothalamus	6.0 nTPM
Cerebral cortex	5.6 nTPM
Hippocampus	3.6 nTPM

Eccentric medium spiny neuron	6.7 nTPM
Hippocampus	7.5 nTPM
Basal ganglia	7.3 nTPM
Cerebral cortex	7.3 nTPM
Hypothalamus	6.7 nTPM
Thalamus	6.1 nTPM
Amygdala	5.4 nTPM

Endothelial cell	4.0 nTPM
Cerebellum	7.7 nTPM
Medulla oblongata	7.2 nTPM
Hippocampus	5.1 nTPM
Basal ganglia	4.7 nTPM
Amygdala	4.5 nTPM
Hypothalamus	3.7 nTPM
Midbrain	2.8 nTPM
Pons	2.5 nTPM
Thalamus	2.3 nTPM
Spinal cord	1.7 nTPM
Cerebral cortex	1.3 nTPM

Ependymal cell	24.8 nTPM
Hypothalamus	61.6 nTPM
Thalamus	32.8 nTPM
Medulla oblongata	28.5 nTPM
Midbrain	25.4 nTPM
Pons	21.6 nTPM
Hippocampus	19.6 nTPM
Basal ganglia	15.7 nTPM
Amygdala	14.2 nTPM
Spinal cord	3.8 nTPM