Single cell type - IL13RA1 - The Human Protein Atlas

IL13RA1

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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.	IL13RA1
Gene descriptionⁱ Full gene name according to HGNC.	Interleukin 13 receptor subunit alpha 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	CD markers Transporters
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.	3

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.	Dendritic cells - Antigen presentation (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 (Langerhans cells, Macrophages)
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.	0.41
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 (Central nervous system macrophage, Endothelial 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.	Group enriched (neutrophil, myeloid DC, eosinophil, classical monocyte)
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 (Langerhans cells, Macrophages)

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 (Central nervous system macrophage, Endothelial 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: Group enriched (neutrophil, myeloid DC, eosinophil, classical monocyte)
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

IL13RA1 is part of cluster 28 Dendritic cells - Antigen presentation with confidenceⁱ 1
245 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.
RBPJ	Recombination signal binding protein for immunoglobulin kappa J region	0.6305	28
FPR3	Formyl peptide receptor 3	0.6164	58
CLIC2	Chloride intracellular channel 2	0.5898	28
CLEC10A	C-type lectin domain containing 10A	0.5872	28
TCHH	Trichohyalin	0.5754	58
CST3	Cystatin C	0.5703	28
VENTX	VENT homeobox	0.5697	29
CD209	CD209 molecule	0.5559	58
FGL2	Fibrinogen like 2	0.5549	29
POMK	Protein O-mannose kinase	0.5487	28
RNASE1	Ribonuclease A family member 1, pancreatic	0.5486	58
ASCL4	Achaete-scute family bHLH transcription factor 4	0.5477	28
MS4A4E	Membrane spanning 4-domains A4E	0.5366	58
IL1R2	Interleukin 1 receptor type 2	0.5322	28
CD1C	CD1c molecule	0.5307	28

IMMUNE CELLS

IL13RA1 is part of cluster 7 Non-specific - Innate immune response with confidenceⁱ 1
237 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.
FOLR3	Folate receptor gamma	0.9762	21
SPINT1	Serine peptidase inhibitor, Kunitz type 1	0.9762	7
IL6R	Interleukin 6 receptor	0.9762	7
DCTN4	Dynactin subunit 4	0.9762	21
SIRPD	Signal regulatory protein delta	0.9524	7
AGTRAP	Angiotensin II receptor associated protein	0.9524	21
TOP3A	DNA topoisomerase III alpha	0.9524	7
TALDO1	Transaldolase 1	0.9524	21
LAPTM5	Lysosomal protein transmembrane 5	0.9524	38
ANXA9	Annexin A9	0.9524	7
PSRC1	Proline and serine rich coiled-coil 1	0.9524	7
KDM7A	Lysine demethylase 7A	0.9524	7
PHAF1	Phagosome assembly factor 1	0.9524	38
SGK1	Serum/glucocorticoid regulated kinase 1	0.9524	21
ATP6V0B	ATPase H+ transporting V0 subunit b	0.9524	7

Adipocytes	33.5 nTPM
Breast	33.9 nTPM
Adipose tissue	33.2 nTPM

Alveolar cells type 1	84.7 nTPM
Lung	84.7 nTPM

Alveolar cells type 2	40.0 nTPM
Lung	40.0 nTPM

Astrocytes	0.9 nTPM
Brain	0.9 nTPM

B-cells	27.2 nTPM
Thymus	77.4 nTPM
Adipose tissue	67.9 nTPM
Salivary gland	49.4 nTPM
Liver	38.6 nTPM
Skin	22.0 nTPM
Lung	21.5 nTPM
PBMC	18.5 nTPM
Esophagus	17.7 nTPM
Stomach	14.3 nTPM
Spleen	10.1 nTPM
Lymph node	7.4 nTPM
Kidney	5.2 nTPM
Bone marrow	3.0 nTPM

Ciliated cells	39.6 nTPM
Bronchus	48.7 nTPM
Lung	47.1 nTPM
Fallopian tube	36.3 nTPM
Endometrium	26.4 nTPM

Club cells	32.8 nTPM
Lung	39.1 nTPM
Bronchus	36.1 nTPM
Prostate	23.3 nTPM

Endothelial cells	59.2 nTPM
Liver	99.5 nTPM
Lung	93.7 nTPM
Vascular	92.0 nTPM
Heart muscle	86.4 nTPM
Thymus	72.3 nTPM
Fallopian tube	71.3 nTPM
Testis	67.8 nTPM
Salivary gland	66.8 nTPM
Endometrium	62.3 nTPM
Esophagus	59.9 nTPM
Tongue	59.7 nTPM
Pancreas	43.9 nTPM
Prostate	40.0 nTPM
Skeletal muscle	36.2 nTPM
Skin	31.8 nTPM
Placenta	29.0 nTPM
Ovary	28.1 nTPM
Breast	24.6 nTPM

Enteroendocrine cells	56.8 nTPM
Small intestine	82.4 nTPM
Rectum	58.7 nTPM
Colon	29.3 nTPM

Fibroblasts	46.1 nTPM
Adipose tissue	114.8 nTPM
Liver	90.1 nTPM
Skeletal muscle	84.6 nTPM
Fallopian tube	60.0 nTPM
Vascular	55.8 nTPM
Stomach	41.8 nTPM
Skin	40.3 nTPM
Salivary gland	36.9 nTPM
Pancreas	35.9 nTPM
Lung	34.7 nTPM
Thymus	33.5 nTPM
Breast	30.0 nTPM
Esophagus	29.2 nTPM
Prostate	29.0 nTPM
Heart muscle	15.8 nTPM
Placenta	4.6 nTPM

Granulocytes	9.6 nTPM
Tongue	19.4 nTPM
Lung	5.5 nTPM
Fallopian tube	4.0 nTPM

Intestinal goblet cells	136.3 nTPM
Rectum	164.7 nTPM
Small intestine	127.0 nTPM
Colon	117.1 nTPM

Lymphatic endothelial cells	12.1 nTPM
Fallopian tube	24.2 nTPM
Ovary	0.0 nTPM

Macrophages	147.4 nTPM
Testis	393.7 nTPM
Adipose tissue	351.3 nTPM
Tongue	259.9 nTPM
Prostate	250.8 nTPM
Salivary gland	223.8 nTPM
Vascular	206.2 nTPM
Thymus	161.2 nTPM
Fallopian tube	137.1 nTPM
Skeletal muscle	117.1 nTPM
Esophagus	115.6 nTPM
Skin	99.2 nTPM
Breast	90.9 nTPM
Lung	81.9 nTPM
Pancreas	69.9 nTPM
Spleen	53.1 nTPM
Endometrium	51.7 nTPM
Stomach	46.3 nTPM
Kidney	46.0 nTPM
Bone marrow	44.6 nTPM

Paneth cells	32.7 nTPM
Rectum	34.5 nTPM
Colon	32.6 nTPM
Small intestine	31.1 nTPM

Basal keratinocytes	32.3 nTPM
Tongue	47.2 nTPM
Skin	17.3 nTPM

Basal prostatic cells	11.8 nTPM
Prostate	11.8 nTPM

Basal respiratory cells	15.6 nTPM
Bronchus	15.6 nTPM

Basal squamous epithelial cells	19.7 nTPM
Esophagus	19.7 nTPM

Plasma cells	6.1 nTPM
Salivary gland	17.0 nTPM
Liver	10.0 nTPM
Fallopian tube	10.0 nTPM
Esophagus	5.2 nTPM
Thymus	4.1 nTPM
Stomach	1.7 nTPM
Spleen	0.7 nTPM
Bone marrow	0.0 nTPM

Schwann cells	18.4 nTPM
Adipose tissue	30.1 nTPM
Vascular	13.1 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	22.6 nTPM
Salivary gland	27.5 nTPM
Tongue	17.7 nTPM

Smooth muscle cells	34.7 nTPM
Liver	115.0 nTPM
Vascular	57.6 nTPM
Fallopian tube	43.2 nTPM
Skeletal muscle	36.8 nTPM
Adipose tissue	36.5 nTPM
Tongue	36.2 nTPM
Esophagus	33.6 nTPM
Thymus	33.5 nTPM
Skin	28.9 nTPM
Salivary gland	27.8 nTPM
Lung	27.0 nTPM
Breast	19.1 nTPM
Endometrium	18.6 nTPM
Prostate	16.4 nTPM
Placenta	14.3 nTPM
Ovary	11.1 nTPM

Suprabasal keratinocytes	56.6 nTPM
Tongue	101.2 nTPM
Skin	12.0 nTPM

T-cells	2.9 nTPM
Vascular	13.3 nTPM
Tongue	10.9 nTPM
Endometrium	6.1 nTPM
Skin	3.5 nTPM
Salivary gland	3.2 nTPM
Liver	3.1 nTPM
Skeletal muscle	3.0 nTPM
Fallopian tube	2.6 nTPM
Esophagus	2.4 nTPM
PBMC	2.3 nTPM
Lung	2.1 nTPM
Kidney	1.8 nTPM
Prostate	1.4 nTPM
Breast	1.3 nTPM
Colon	1.0 nTPM
Lymph node	0.7 nTPM
Adipose tissue	0.6 nTPM
Stomach	0.5 nTPM
Thymus	0.5 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	27.3 nTPM
Rectum	36.1 nTPM
Small intestine	26.8 nTPM
Colon	18.9 nTPM

Amygdala excitatory	0.8 nTPM
Amygdala	1.2 nTPM
Basal ganglia	1.0 nTPM
Cerebral cortex	1.0 nTPM
Hypothalamus	0.9 nTPM
Hippocampus	0.7 nTPM
Thalamus	0.0 nTPM

Astrocyte	5.5 nTPM
Medulla oblongata	8.0 nTPM
Pons	7.8 nTPM
Hypothalamus	7.3 nTPM
Spinal cord	7.1 nTPM
Midbrain	6.7 nTPM
Cerebellum	5.7 nTPM
Basal ganglia	4.6 nTPM
Amygdala	4.1 nTPM
Thalamus	3.6 nTPM
Hippocampus	3.5 nTPM
Cerebral cortex	2.1 nTPM

Bergmann glia	1.9 nTPM
Pons	2.9 nTPM
Medulla oblongata	2.1 nTPM
Cerebellum	0.8 nTPM

Central nervous system macrophage	384.0 nTPM
Amygdala	483.4 nTPM
Hypothalamus	423.3 nTPM
Thalamus	412.8 nTPM
Midbrain	405.3 nTPM
Basal ganglia	400.6 nTPM
Hippocampus	388.1 nTPM
Pons	368.8 nTPM
Cerebral cortex	354.2 nTPM
Cerebellum	351.4 nTPM
Medulla oblongata	341.3 nTPM
Spinal cord	295.3 nTPM

Cerebellar inhibitory	0.7 nTPM
Pons	1.2 nTPM
Midbrain	0.9 nTPM
Cerebellum	0.8 nTPM
Medulla oblongata	0.7 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	2.4 nTPM
Thalamus	5.4 nTPM
Midbrain	4.1 nTPM
Basal ganglia	1.9 nTPM
Amygdala	1.4 nTPM
Hippocampus	1.3 nTPM
Hypothalamus	1.3 nTPM
Cerebral cortex	1.1 nTPM

Choroid plexus epithelial cell	25.3 nTPM
Thalamus	32.9 nTPM
Hippocampus	27.7 nTPM
Basal ganglia	21.3 nTPM
Medulla oblongata	19.4 nTPM

Committed oligodendrocyte precursor	4.6 nTPM
Basal ganglia	11.5 nTPM
Cerebellum	7.9 nTPM
Hippocampus	6.5 nTPM
Hypothalamus	6.1 nTPM
Spinal cord	3.7 nTPM
Thalamus	3.6 nTPM
Amygdala	3.4 nTPM
Cerebral cortex	3.2 nTPM
Midbrain	2.5 nTPM
Medulla oblongata	1.3 nTPM
Pons	0.9 nTPM

Deep-layer corticothalamic and 6b	0.3 nTPM
Basal ganglia	0.5 nTPM
Amygdala	0.3 nTPM
Cerebral cortex	0.3 nTPM
Hippocampus	0.3 nTPM
Hypothalamus	0.2 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	0.4 nTPM
Amygdala	0.5 nTPM
Basal ganglia	0.5 nTPM
Hippocampus	0.3 nTPM
Hypothalamus	0.3 nTPM
Cerebral cortex	0.2 nTPM

Deep-layer near-projecting	0.1 nTPM
Cerebral cortex	0.3 nTPM
Hypothalamus	0.2 nTPM
Amygdala	0.0 nTPM
Basal ganglia	0.0 nTPM
Hippocampus	0.0 nTPM

Eccentric medium spiny neuron	0.4 nTPM
Amygdala	0.8 nTPM
Cerebral cortex	0.5 nTPM
Basal ganglia	0.4 nTPM
Thalamus	0.3 nTPM
Hypothalamus	0.2 nTPM
Hippocampus	0.0 nTPM

Endothelial cell	135.2 nTPM
Cerebral cortex	163.7 nTPM
Amygdala	162.1 nTPM
Midbrain	149.3 nTPM
Hippocampus	144.9 nTPM
Basal ganglia	144.5 nTPM
Thalamus	139.5 nTPM
Pons	131.7 nTPM
Cerebellum	127.8 nTPM
Spinal cord	113.9 nTPM
Medulla oblongata	106.7 nTPM
Hypothalamus	103.0 nTPM