Single cell type - ARAP3 - The Human Protein Atlas

ARAP3

Search result

Field

Term

Cluster

Pathway

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.	ARAP3
Gene descriptionⁱ Full gene name according to HGNC.	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3
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.	Lymphatic endothelial cells - Lymph vessel 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 (Adipocytes, Endothelial cells, Lymphatic endothelial cells, Horizontal cells, 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.	0.74
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.	Group enriched (Endothelial cell, Cerebellar inhibitory)
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.	Group enriched (eosinophil, neutrophil)
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 (Adipocytes, Endothelial cells, Lymphatic endothelial cells, Horizontal cells, 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: Group enriched (Endothelial cell, Cerebellar inhibitory)

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: Group enriched (eosinophil, neutrophil)
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

ARAP3 is part of cluster 54 Lymphatic endothelial cells - Lymph vessel development with confidenceⁱ 1
108 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.
TIE1	Tyrosine kinase with immunoglobulin like and EGF like domains 1	0.8002	54
ROBO4	Roundabout guidance receptor 4	0.7591	41
BMX	BMX non-receptor tyrosine kinase	0.7551	54
HYAL2	Hyaluronidase 2	0.7408	54
ADCY4	Adenylate cyclase 4	0.7336	41
TM4SF18	Transmembrane 4 L six family member 18	0.7129	54
EGFL7	EGF like domain multiple 7	0.7045	41
CLDN5	Claudin 5	0.6977	54
DIPK2B	Divergent protein kinase domain 2B	0.6930	54
GJD3	Gap junction protein delta 3	0.6927	54
KDR	Kinase insert domain receptor	0.6887	54
USHBP1	USH1 protein network component harmonin binding protein 1	0.6871	41
CCM2L	CCM2 like scaffold protein	0.6858	41
KANK3	KN motif and ankyrin repeat domains 3	0.6823	54
RAMP2	Receptor activity modifying protein 2	0.6802	54

IMMUNE CELLS

ARAP3 is part of cluster 19 Eosinophils - Unknown function with confidenceⁱ 1
83 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.
FKBP8	FKBP prolyl isomerase 8	1.0000	19
PPP1R1B	Protein phosphatase 1 regulatory inhibitor subunit 1B	1.0000	19
F12	Coagulation factor XII	1.0000	19
NECTIN2	Nectin cell adhesion molecule 2	1.0000	19
PPDPF	Pancreatic progenitor cell differentiation and proliferation factor	1.0000	19
SEMG1	Semenogelin 1	1.0000	19
GPSM2	G protein signaling modulator 2	1.0000	19
TMIGD3	Transmembrane and immunoglobulin domain containing 3	1.0000	19
RXYLT1	Ribitol xylosyltransferase 1	1.0000	19
GADD45A	Growth arrest and DNA damage inducible alpha	1.0000	19
WAS	WASP actin nucleation promoting factor	1.0000	19
PRSS33	Serine protease 33	1.0000	19
RENBP	Renin binding protein	1.0000	19
CEBPE	CCAAT enhancer binding protein epsilon	1.0000	19
MARK3	Microtubule affinity regulating kinase 3	1.0000	19

Adipocytes	31.1 nTPM
Adipose tissue	37.6 nTPM
Breast	24.7 nTPM

Alveolar cells type 1	2.1 nTPM
Lung	2.1 nTPM

Alveolar cells type 2	1.7 nTPM
Lung	1.7 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	0.7 nTPM
Kidney	5.2 nTPM
PBMC	1.5 nTPM
Thymus	1.5 nTPM
Spleen	0.4 nTPM
Salivary gland	0.1 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	1.5 nTPM
Bronchus	2.3 nTPM
Fallopian tube	2.1 nTPM
Lung	1.3 nTPM
Endometrium	0.4 nTPM

Club cells	3.5 nTPM
Prostate	5.4 nTPM
Bronchus	2.7 nTPM
Lung	2.4 nTPM

Endothelial cells	29.7 nTPM
Thymus	53.4 nTPM
Skeletal muscle	42.1 nTPM
Vascular	39.4 nTPM
Heart muscle	38.3 nTPM
Testis	36.9 nTPM
Esophagus	32.9 nTPM
Salivary gland	30.7 nTPM
Prostate	29.9 nTPM
Lung	29.6 nTPM
Breast	29.0 nTPM
Endometrium	26.6 nTPM
Placenta	25.5 nTPM
Ovary	25.5 nTPM
Tongue	23.3 nTPM
Liver	22.7 nTPM
Fallopian tube	21.4 nTPM
Skin	13.9 nTPM
Pancreas	12.9 nTPM

Enteroendocrine cells	1.6 nTPM
Colon	3.1 nTPM
Rectum	1.7 nTPM
Small intestine	0.0 nTPM

Fibroblasts	4.0 nTPM
Liver	37.9 nTPM
Thymus	3.1 nTPM
Breast	3.0 nTPM
Pancreas	2.8 nTPM
Prostate	2.6 nTPM
Lung	2.3 nTPM
Vascular	2.2 nTPM
Fallopian tube	1.9 nTPM
Placenta	1.8 nTPM
Esophagus	1.8 nTPM
Stomach	1.4 nTPM
Salivary gland	1.0 nTPM
Skin	0.5 nTPM
Skeletal muscle	0.5 nTPM
Heart muscle	0.3 nTPM
Adipose tissue	0.2 nTPM

Granulocytes	0.7 nTPM
Fallopian tube	1.5 nTPM
Lung	0.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	1.0 nTPM
Rectum	1.9 nTPM
Colon	1.2 nTPM
Small intestine	0.0 nTPM

Lymphatic endothelial cells	26.4 nTPM
Ovary	32.7 nTPM
Fallopian tube	20.0 nTPM

Macrophages	2.3 nTPM
Stomach	7.7 nTPM
Thymus	4.9 nTPM
Skeletal muscle	4.2 nTPM
Prostate	4.1 nTPM
Salivary gland	3.5 nTPM
Fallopian tube	3.0 nTPM
Vascular	2.7 nTPM
Testis	2.5 nTPM
Spleen	2.0 nTPM
Breast	1.9 nTPM
Esophagus	1.3 nTPM
Endometrium	1.2 nTPM
Adipose tissue	1.2 nTPM
Lung	1.2 nTPM
Skin	1.1 nTPM
Tongue	1.0 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM

Paneth cells	1.6 nTPM
Small intestine	3.5 nTPM
Rectum	1.5 nTPM
Colon	0.0 nTPM

Basal respiratory cells	3.2 nTPM
Bronchus	3.2 nTPM

Bipolar cells	7.2 nTPM
Eye	7.2 nTPM

Plasma cells	1.0 nTPM
Esophagus	5.2 nTPM
Fallopian tube	1.0 nTPM
Salivary gland	0.9 nTPM
Liver	0.5 nTPM
Thymus	0.5 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	1.2 nTPM
Vascular	3.7 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	1.3 nTPM
Salivary gland	2.7 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	5.1 nTPM
Liver	32.3 nTPM
Skeletal muscle	9.5 nTPM
Thymus	5.9 nTPM
Placenta	5.6 nTPM
Lung	4.7 nTPM
Breast	4.3 nTPM
Ovary	4.0 nTPM
Vascular	3.9 nTPM
Endometrium	3.0 nTPM
Adipose tissue	2.0 nTPM
Prostate	1.8 nTPM
Salivary gland	1.4 nTPM
Esophagus	1.2 nTPM
Skin	1.1 nTPM
Tongue	0.9 nTPM
Fallopian tube	0.7 nTPM

T-cells	1.3 nTPM
Vascular	4.0 nTPM
Thymus	3.1 nTPM
Lung	3.0 nTPM
Esophagus	2.4 nTPM
Skeletal muscle	1.5 nTPM
Breast	1.5 nTPM
Bone marrow	1.4 nTPM
Adipose tissue	1.3 nTPM
Endometrium	1.2 nTPM
Lymph node	1.2 nTPM
Prostate	1.1 nTPM
Colon	1.0 nTPM
Tongue	1.0 nTPM
Stomach	0.8 nTPM
Salivary gland	0.8 nTPM
PBMC	0.5 nTPM
Spleen	0.5 nTPM
Fallopian tube	0.5 nTPM
Skin	0.4 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM

Undifferentiated cells	2.8 nTPM
Rectum	4.2 nTPM
Colon	3.9 nTPM
Small intestine	0.4 nTPM

Amygdala excitatory	6.2 nTPM
Hypothalamus	8.7 nTPM
Amygdala	8.2 nTPM
Hippocampus	5.9 nTPM
Cerebral cortex	5.6 nTPM
Basal ganglia	5.5 nTPM
Thalamus	3.6 nTPM

Astrocyte	1.3 nTPM
Pons	2.5 nTPM
Hypothalamus	2.1 nTPM
Spinal cord	2.0 nTPM
Medulla oblongata	1.2 nTPM
Hippocampus	1.1 nTPM
Midbrain	1.1 nTPM
Amygdala	0.9 nTPM
Basal ganglia	0.8 nTPM
Cerebral cortex	0.7 nTPM
Thalamus	0.7 nTPM
Cerebellum	0.6 nTPM

Bergmann glia	1.1 nTPM
Cerebellum	1.7 nTPM
Pons	1.4 nTPM
Medulla oblongata	0.0 nTPM

Central nervous system macrophage	10.7 nTPM
Amygdala	13.8 nTPM
Cerebellum	13.1 nTPM
Pons	12.4 nTPM
Midbrain	11.2 nTPM
Hippocampus	11.0 nTPM
Hypothalamus	10.9 nTPM
Spinal cord	10.0 nTPM
Thalamus	9.5 nTPM
Basal ganglia	9.1 nTPM
Medulla oblongata	8.8 nTPM
Cerebral cortex	7.8 nTPM

Cerebellar inhibitory	33.6 nTPM
Cerebellum	45.3 nTPM
Medulla oblongata	38.7 nTPM
Midbrain	32.7 nTPM
Spinal cord	30.2 nTPM
Pons	21.1 nTPM

Cge interneuron	2.8 nTPM
Basal ganglia	3.3 nTPM
Hypothalamus	3.3 nTPM
Midbrain	3.3 nTPM
Cerebral cortex	2.7 nTPM
Amygdala	2.5 nTPM
Thalamus	2.5 nTPM
Hippocampus	1.9 nTPM

Choroid plexus epithelial cell	1.0 nTPM
Thalamus	2.7 nTPM
Medulla oblongata	0.9 nTPM
Basal ganglia	0.4 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	1.5 nTPM
Medulla oblongata	3.9 nTPM
Basal ganglia	2.7 nTPM
Hypothalamus	2.0 nTPM
Hippocampus	1.8 nTPM
Pons	1.8 nTPM
Cerebellum	1.6 nTPM
Thalamus	1.6 nTPM
Amygdala	1.1 nTPM
Cerebral cortex	0.0 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	3.8 nTPM
Hypothalamus	5.6 nTPM
Midbrain	4.4 nTPM
Basal ganglia	3.6 nTPM
Cerebral cortex	3.6 nTPM
Amygdala	3.3 nTPM
Hippocampus	2.5 nTPM

Deep-layer intratelencephalic	5.7 nTPM
Hypothalamus	8.8 nTPM
Basal ganglia	6.1 nTPM
Cerebral cortex	5.2 nTPM
Amygdala	4.3 nTPM
Hippocampus	4.3 nTPM

Deep-layer near-projecting	2.6 nTPM
Hypothalamus	4.7 nTPM
Basal ganglia	3.1 nTPM
Cerebral cortex	2.3 nTPM
Amygdala	2.1 nTPM
Hippocampus	0.7 nTPM

Eccentric medium spiny neuron	4.2 nTPM
Cerebral cortex	5.7 nTPM
Amygdala	4.9 nTPM
Hypothalamus	3.9 nTPM
Thalamus	3.7 nTPM
Basal ganglia	3.6 nTPM
Hippocampus	3.3 nTPM

Endothelial cell	96.5 nTPM
Basal ganglia	129.6 nTPM
Amygdala	109.5 nTPM
Cerebellum	103.8 nTPM
Hypothalamus	99.3 nTPM
Pons	96.7 nTPM
Cerebral cortex	96.5 nTPM
Hippocampus	95.9 nTPM
Midbrain	91.7 nTPM
Thalamus	81.9 nTPM
Spinal cord	79.4 nTPM
Medulla oblongata	76.9 nTPM

Ependymal cell	0.7 nTPM
Amygdala	1.7 nTPM
Medulla oblongata	1.3 nTPM
Basal ganglia	0.9 nTPM
Hypothalamus	0.9 nTPM
Thalamus	0.8 nTPM
Hippocampus	0.7 nTPM
Pons	0.4 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM