Single cell type - ATP8B4 - The Human Protein Atlas

ATP8B4

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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.	ATP8B4
Gene descriptionⁱ Full gene name according to HGNC.	ATPase phospholipid transporting 8B4 (putative)
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes 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.	Membrane, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	6

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.	Macrophages - 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 enriched (Microglial 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.	0.82
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 enriched (Central nervous system macrophage)
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.	Immune cell enhanced (basophil, NK-cell)
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 enriched (Microglial 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 enriched (Central nervous system macrophage)

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: Immune cell enhanced (basophil, NK-cell)
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

ATP8B4 is part of cluster 58 Macrophages - Innate immune response with confidenceⁱ 1
420 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.
CLEC19A	C-type lectin domain containing 19A	0.5406	58
SMIM35	Small integral membrane protein 35	0.5396	76
CCL4L2	C-C motif chemokine ligand 4 like 2	0.5383	58
GPR34	G protein-coupled receptor 34	0.5381	58
SIGLEC8	Sialic acid binding Ig like lectin 8	0.5264	30
RAB39A	RAB39A, member RAS oncogene family	0.5243	58
ADORA3	Adenosine A3 receptor	0.5208	58
MS4A4E	Membrane spanning 4-domains A4E	0.5160	58
HAVCR2	Hepatitis A virus cellular receptor 2	0.5122	28
BMP2K	BMP2 inducible kinase	0.4993	30
CSF1R	Colony stimulating factor 1 receptor	0.4989	58
P2RY12	Purinergic receptor P2Y12	0.4964	58
OR4B1	Olfactory receptor family 4 subfamily B member 1	0.4850	58
CCL3	C-C motif chemokine ligand 3	0.4830	58
FGF20	Fibroblast growth factor 20	0.4799	58

IMMUNE CELLS

ATP8B4 is part of cluster 41 Basophils - Unknown function with confidenceⁱ 0.95
293 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.
LRP12	LDL receptor related protein 12	1.0000	41
ZNF763	Zinc finger protein 763	1.0000	41
ZSCAN16	Zinc finger and SCAN domain containing 16	1.0000	41
EFCAB10	EF-hand calcium binding domain 10	1.0000	41
ZNF620	Zinc finger protein 620	1.0000	41
TMEM81	Transmembrane protein 81	1.0000	41
KRT86	Keratin 86	1.0000	41
F2RL2	Coagulation factor II thrombin receptor like 2	1.0000	41
TMEM143	Transmembrane protein 143	1.0000	41
UBE2Q1	Ubiquitin conjugating enzyme E2 Q1	1.0000	41
C5orf22	Chromosome 5 open reading frame 22	1.0000	41
LANCL3	LanC like family member 3	1.0000	41
DENR	Density regulated re-initiation and release factor	1.0000	41
CENPE	Centromere protein E	1.0000	41
PRKAB2	Protein kinase AMP-activated non-catalytic subunit beta 2	1.0000	41

Adipocytes	1.5 nTPM
Breast	1.5 nTPM
Adipose tissue	1.4 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	0.1 nTPM
Lung	0.1 nTPM

Astrocytes	1.5 nTPM
Brain	1.5 nTPM

B-cells	1.7 nTPM
Adipose tissue	6.6 nTPM
Esophagus	5.9 nTPM
Skin	3.4 nTPM
Stomach	2.1 nTPM
PBMC	1.5 nTPM
Spleen	0.8 nTPM
Thymus	0.5 nTPM
Lymph node	0.4 nTPM
Salivary gland	0.3 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Bone marrow	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	2.2 nTPM
Fallopian tube	3.5 nTPM
Lung	3.3 nTPM
Bronchus	1.5 nTPM
Endometrium	0.3 nTPM

Club cells	0.7 nTPM
Lung	1.5 nTPM
Prostate	0.4 nTPM
Bronchus	0.1 nTPM

Endothelial cells	1.0 nTPM
Heart muscle	9.0 nTPM
Liver	2.5 nTPM
Salivary gland	1.0 nTPM
Tongue	0.7 nTPM
Vascular	0.7 nTPM
Testis	0.6 nTPM
Placenta	0.6 nTPM
Skin	0.6 nTPM
Fallopian tube	0.6 nTPM
Esophagus	0.5 nTPM
Ovary	0.5 nTPM
Skeletal muscle	0.4 nTPM
Thymus	0.4 nTPM
Endometrium	0.2 nTPM
Lung	0.2 nTPM
Prostate	0.2 nTPM
Pancreas	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.1 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	5.4 nTPM
Adipose tissue	22.8 nTPM
Vascular	12.5 nTPM
Salivary gland	8.1 nTPM
Breast	8.0 nTPM
Thymus	7.4 nTPM
Esophagus	6.9 nTPM
Heart muscle	6.3 nTPM
Skeletal muscle	3.6 nTPM
Fallopian tube	3.4 nTPM
Prostate	3.3 nTPM
Stomach	1.4 nTPM
Skin	1.1 nTPM
Placenta	0.6 nTPM
Lung	0.6 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM

Granulocytes	27.6 nTPM
Lung	30.3 nTPM
Tongue	29.1 nTPM
Fallopian tube	23.4 nTPM

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

Lymphatic endothelial cells	0.1 nTPM
Fallopian tube	0.2 nTPM
Ovary	0.0 nTPM

Macrophages	28.1 nTPM
Esophagus	51.4 nTPM
Testis	42.8 nTPM
Bone marrow	41.6 nTPM
Adipose tissue	37.5 nTPM
Vascular	35.2 nTPM
Breast	35.1 nTPM
Prostate	33.8 nTPM
Salivary gland	32.6 nTPM
Fallopian tube	28.8 nTPM
Stomach	28.3 nTPM
Skin	25.6 nTPM
Pancreas	24.7 nTPM
Tongue	23.8 nTPM
Skeletal muscle	23.3 nTPM
Thymus	21.8 nTPM
Spleen	18.0 nTPM
Endometrium	14.1 nTPM
Kidney	11.5 nTPM
Lung	3.8 nTPM

Paneth cells	0.2 nTPM
Rectum	0.5 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Early spermatids	23.0 nTPM
Testis	23.0 nTPM

Plasma cells	1.1 nTPM
Stomach	2.9 nTPM
Salivary gland	2.2 nTPM
Fallopian tube	1.6 nTPM
Liver	1.5 nTPM
Thymus	0.5 nTPM
Spleen	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	2.3 nTPM
Adipose tissue	5.9 nTPM
Vascular	1.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.7 nTPM
Salivary gland	1.5 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	7.9 nTPM
Adipose tissue	35.9 nTPM
Placenta	23.4 nTPM
Fallopian tube	22.3 nTPM
Skeletal muscle	7.5 nTPM
Vascular	6.4 nTPM
Thymus	6.3 nTPM
Esophagus	6.0 nTPM
Tongue	3.9 nTPM
Breast	3.5 nTPM
Skin	2.6 nTPM
Lung	2.4 nTPM
Salivary gland	2.4 nTPM
Endometrium	1.2 nTPM
Prostate	1.2 nTPM
Ovary	0.9 nTPM
Liver	0.4 nTPM

T-cells	12.6 nTPM
Colon	83.8 nTPM
Stomach	48.4 nTPM
Endometrium	39.0 nTPM
Prostate	9.6 nTPM
Liver	9.5 nTPM
Fallopian tube	9.1 nTPM
Skin	8.4 nTPM
Skeletal muscle	8.3 nTPM
Vascular	8.0 nTPM
Bone marrow	7.9 nTPM
Salivary gland	5.4 nTPM
Esophagus	4.9 nTPM
Lung	4.2 nTPM
Spleen	3.9 nTPM
Breast	3.5 nTPM
Adipose tissue	3.3 nTPM
Tongue	2.8 nTPM
Thymus	1.8 nTPM
PBMC	1.0 nTPM
Kidney	0.9 nTPM
Lymph node	0.5 nTPM

Undifferentiated cells	0.2 nTPM
Small intestine	0.4 nTPM
Colon	0.1 nTPM
Rectum	0.1 nTPM

Amygdala excitatory	65.9 nTPM
Hypothalamus	81.3 nTPM
Hippocampus	70.9 nTPM
Basal ganglia	70.4 nTPM
Amygdala	64.5 nTPM
Cerebral cortex	56.8 nTPM
Thalamus	51.3 nTPM

Astrocyte	5.4 nTPM
Medulla oblongata	30.0 nTPM
Spinal cord	4.8 nTPM
Basal ganglia	4.2 nTPM
Amygdala	3.2 nTPM
Hypothalamus	3.1 nTPM
Hippocampus	2.8 nTPM
Midbrain	2.8 nTPM
Cerebellum	2.7 nTPM
Pons	2.2 nTPM
Thalamus	2.1 nTPM
Cerebral cortex	1.7 nTPM

Bergmann glia	0.5 nTPM
Cerebellum	1.5 nTPM
Medulla oblongata	0.0 nTPM
Pons	0.0 nTPM

Central nervous system macrophage	1465.9 nTPM
Amygdala	2054.0 nTPM
Hypothalamus	1773.6 nTPM
Basal ganglia	1583.0 nTPM
Hippocampus	1545.5 nTPM
Midbrain	1438.4 nTPM
Thalamus	1427.4 nTPM
Pons	1349.4 nTPM
Cerebral cortex	1329.5 nTPM
Cerebellum	1302.3 nTPM
Medulla oblongata	1185.5 nTPM
Spinal cord	1136.9 nTPM

Cerebellar inhibitory	144.8 nTPM
Spinal cord	195.2 nTPM
Cerebellum	148.3 nTPM
Medulla oblongata	147.3 nTPM
Pons	117.2 nTPM
Midbrain	115.7 nTPM

Cge interneuron	31.4 nTPM
Hypothalamus	39.4 nTPM
Amygdala	34.6 nTPM
Hippocampus	32.9 nTPM
Midbrain	32.1 nTPM
Basal ganglia	31.4 nTPM
Cerebral cortex	27.7 nTPM
Thalamus	21.8 nTPM

Choroid plexus epithelial cell	5.3 nTPM
Medulla oblongata	9.6 nTPM
Basal ganglia	6.3 nTPM
Thalamus	5.5 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	13.0 nTPM
Basal ganglia	36.1 nTPM
Pons	18.6 nTPM
Hippocampus	18.4 nTPM
Medulla oblongata	16.8 nTPM
Thalamus	10.6 nTPM
Hypothalamus	8.2 nTPM
Amygdala	7.9 nTPM
Cerebellum	7.9 nTPM
Cerebral cortex	7.6 nTPM
Spinal cord	7.4 nTPM
Midbrain	3.4 nTPM

Deep-layer corticothalamic and 6b	36.8 nTPM
Hypothalamus	73.9 nTPM
Basal ganglia	43.7 nTPM
Cerebral cortex	36.1 nTPM
Amygdala	26.5 nTPM
Hippocampus	22.0 nTPM
Midbrain	18.9 nTPM

Deep-layer intratelencephalic	29.9 nTPM
Hypothalamus	40.1 nTPM
Amygdala	31.6 nTPM
Hippocampus	30.5 nTPM
Basal ganglia	28.0 nTPM
Cerebral cortex	19.2 nTPM

Deep-layer near-projecting	44.1 nTPM
Hypothalamus	82.4 nTPM
Amygdala	54.2 nTPM
Basal ganglia	39.3 nTPM
Cerebral cortex	27.0 nTPM
Hippocampus	17.6 nTPM

Eccentric medium spiny neuron	40.6 nTPM
Hypothalamus	56.2 nTPM
Amygdala	42.6 nTPM
Basal ganglia	41.5 nTPM
Cerebral cortex	40.1 nTPM
Thalamus	38.0 nTPM
Hippocampus	24.9 nTPM

Endothelial cell	4.6 nTPM
Basal ganglia	16.8 nTPM
Spinal cord	8.6 nTPM
Hypothalamus	6.2 nTPM
Medulla oblongata	5.1 nTPM
Pons	3.7 nTPM
Midbrain	2.8 nTPM
Thalamus	2.8 nTPM
Amygdala	2.2 nTPM
Hippocampus	1.6 nTPM
Cerebral cortex	0.6 nTPM
Cerebellum	0.0 nTPM

Ependymal cell	21.4 nTPM
Spinal cord	122.7 nTPM
Amygdala	25.0 nTPM
Medulla oblongata	21.7 nTPM
Pons	7.5 nTPM
Hippocampus	3.8 nTPM
Hypothalamus	3.6 nTPM
Thalamus	3.6 nTPM
Basal ganglia	3.5 nTPM
Midbrain	1.3 nTPM