Single cell type - IRAK3 - The Human Protein Atlas

IRAK3

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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.	IRAK3
Gene descriptionⁱ Full gene name according to HGNC.	Interleukin 1 receptor associated kinase 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Enzymes Human disease related genes Plasma proteins Potential drug targets
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.	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.	Monocytes - 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 (Monocytes)
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.	0.75
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 (Endothelial cell, 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.	Group enriched (non-classical monocyte, intermediate monocyte, classical monocyte, neutrophil, basophil, myeloid DC)
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 (Monocytes)

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 (Endothelial cell, 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: Group enriched (non-classical monocyte, intermediate monocyte, classical monocyte, neutrophil, basophil, myeloid DC)
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

IRAK3 is part of cluster 29 Monocytes - Innate immune response with confidenceⁱ 0.95
447 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.
TLR2	Toll like receptor 2	0.8190	29
FCAR	Fc alpha receptor	0.7652	29
LIPN	Lipase family member N	0.7450	29
C5AR2	Complement C5a receptor 2	0.7432	29
C5AR1	Complement C5a receptor 1	0.7395	29
CLEC4E	C-type lectin domain family 4 member E	0.7176	29
FPR2	Formyl peptide receptor 2	0.7168	74
MEFV	MEFV innate immuity regulator, pyrin	0.6968	29
BCL2A1	BCL2 related protein A1	0.6914	29
ADGRE2	Adhesion G protein-coupled receptor E2	0.6666	29
NFKBIZ	NFKB inhibitor zeta	0.6662	29
IL1A	Interleukin 1 alpha	0.6576	29
ACOD1	Aconitate decarboxylase 1	0.6458	29
IL1B	Interleukin 1 beta	0.6447	29
ITGAX	Integrin subunit alpha X	0.6388	29

IMMUNE CELLS

IRAK3 is part of cluster 40 Monocytes - Innate immune response with confidenceⁱ 1
228 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.
ACRBP	Acrosin binding protein	1.0000	40
TCN2	Transcobalamin 2	1.0000	40
TMEM255B	Transmembrane protein 255B	1.0000	40
ADAP2	ArfGAP with dual PH domains 2	1.0000	40
KNDC1	Kinase non-catalytic C-lobe domain containing 1	1.0000	40
TPPP3	Tubulin polymerization promoting protein family member 3	1.0000	40
SLC7A7	Solute carrier family 7 member 7	1.0000	40
VENTX	VENT homeobox	1.0000	40
SLC37A2	Solute carrier family 37 member 2	1.0000	40
DOCK2	Dedicator of cytokinesis 2	1.0000	40
SLC11A1	Solute carrier family 11 member 1	1.0000	40
ASAH1	N-acylsphingosine amidohydrolase 1	1.0000	40
HMOX1	Heme oxygenase 1	1.0000	40
MARCO	Macrophage receptor with collagenous structure	1.0000	40
ABHD11	Abhydrolase domain containing 11	0.9762	40

Adipocytes	79.8 nTPM
Adipose tissue	122.0 nTPM
Breast	37.6 nTPM

Alveolar cells type 1	6.1 nTPM
Lung	6.1 nTPM

Alveolar cells type 2	23.8 nTPM
Lung	23.8 nTPM

Astrocytes	1.2 nTPM
Brain	1.2 nTPM

B-cells	4.0 nTPM
Liver	9.7 nTPM
Adipose tissue	8.6 nTPM
Salivary gland	7.5 nTPM
Lung	5.4 nTPM
Kidney	5.2 nTPM
Thymus	3.6 nTPM
Spleen	3.2 nTPM
PBMC	3.1 nTPM
Lymph node	2.4 nTPM
Skin	1.7 nTPM
Stomach	1.7 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Ciliated cells	17.4 nTPM
Bronchus	56.2 nTPM
Lung	8.8 nTPM
Fallopian tube	4.1 nTPM
Endometrium	0.5 nTPM

Club cells	34.7 nTPM
Bronchus	69.2 nTPM
Lung	31.5 nTPM
Prostate	3.5 nTPM

Endothelial cells	48.0 nTPM
Skeletal muscle	93.4 nTPM
Heart muscle	83.6 nTPM
Thymus	81.1 nTPM
Vascular	73.5 nTPM
Fallopian tube	73.4 nTPM
Salivary gland	72.3 nTPM
Prostate	63.4 nTPM
Lung	61.7 nTPM
Liver	40.3 nTPM
Esophagus	39.8 nTPM
Tongue	38.4 nTPM
Testis	31.1 nTPM
Breast	28.1 nTPM
Ovary	23.7 nTPM
Skin	20.6 nTPM
Endometrium	20.2 nTPM
Placenta	14.8 nTPM
Pancreas	5.2 nTPM

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

Fibroblasts	27.5 nTPM
Salivary gland	58.0 nTPM
Vascular	44.7 nTPM
Thymus	43.7 nTPM
Heart muscle	41.6 nTPM
Skeletal muscle	40.6 nTPM
Adipose tissue	37.5 nTPM
Lung	35.0 nTPM
Liver	30.8 nTPM
Esophagus	25.3 nTPM
Prostate	21.8 nTPM
Skin	19.1 nTPM
Stomach	14.4 nTPM
Breast	12.9 nTPM
Pancreas	7.0 nTPM
Fallopian tube	6.9 nTPM
Placenta	0.4 nTPM

Granulocytes	86.2 nTPM
Tongue	126.1 nTPM
Fallopian tube	86.5 nTPM
Lung	45.9 nTPM

Intestinal goblet cells	0.5 nTPM
Rectum	1.3 nTPM
Colon	0.2 nTPM
Small intestine	0.0 nTPM

Lymphatic endothelial cells	49.4 nTPM
Fallopian tube	82.5 nTPM
Ovary	16.4 nTPM

Macrophages	130.0 nTPM
Adipose tissue	407.5 nTPM
Stomach	264.9 nTPM
Skeletal muscle	248.6 nTPM
Fallopian tube	220.4 nTPM
Spleen	208.5 nTPM
Vascular	148.2 nTPM
Salivary gland	145.0 nTPM
Thymus	135.1 nTPM
Prostate	107.3 nTPM
Lung	101.6 nTPM
Bone marrow	101.3 nTPM
Testis	91.1 nTPM
Tongue	81.7 nTPM
Kidney	61.1 nTPM
Pancreas	39.1 nTPM
Endometrium	36.9 nTPM
Esophagus	32.1 nTPM
Breast	29.3 nTPM
Skin	10.0 nTPM

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

Basal prostatic cells	12.1 nTPM
Prostate	12.1 nTPM

Basal respiratory cells	31.0 nTPM
Bronchus	31.0 nTPM

Basal squamous epithelial cells	4.9 nTPM
Esophagus	4.9 nTPM

Bipolar cells	0.8 nTPM
Eye	0.8 nTPM

Plasma cells	2.1 nTPM
Fallopian tube	5.5 nTPM
Liver	5.0 nTPM
Salivary gland	4.0 nTPM
Thymus	1.9 nTPM
Stomach	0.4 nTPM
Spleen	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	1.5 nTPM
Vascular	3.7 nTPM
Adipose tissue	0.8 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	28.3 nTPM
Salivary gland	43.3 nTPM
Tongue	13.3 nTPM

Smooth muscle cells	16.8 nTPM
Liver	56.9 nTPM
Tongue	33.2 nTPM
Skeletal muscle	32.8 nTPM
Adipose tissue	20.0 nTPM
Vascular	18.7 nTPM
Placenta	16.4 nTPM
Thymus	15.6 nTPM
Lung	15.3 nTPM
Esophagus	14.4 nTPM
Prostate	11.6 nTPM
Salivary gland	9.6 nTPM
Ovary	7.2 nTPM
Breast	6.9 nTPM
Skin	4.6 nTPM
Endometrium	2.7 nTPM
Fallopian tube	2.3 nTPM

T-cells	3.7 nTPM
Vascular	21.3 nTPM
Salivary gland	11.5 nTPM
Tongue	6.3 nTPM
Lung	5.6 nTPM
Colon	4.9 nTPM
Prostate	4.1 nTPM
Fallopian tube	3.7 nTPM
Skeletal muscle	3.0 nTPM
PBMC	2.6 nTPM
Thymus	2.6 nTPM
Adipose tissue	2.3 nTPM
Endometrium	2.2 nTPM
Skin	2.1 nTPM
Spleen	1.4 nTPM
Liver	1.2 nTPM
Breast	1.1 nTPM
Stomach	0.8 nTPM
Lymph node	0.7 nTPM
Bone marrow	0.7 nTPM
Kidney	0.0 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	0.2 nTPM
Colon	0.3 nTPM
Rectum	0.2 nTPM
Small intestine	0.0 nTPM

Amygdala excitatory	2.0 nTPM
Amygdala	5.1 nTPM
Hippocampus	2.9 nTPM
Cerebral cortex	1.9 nTPM
Basal ganglia	1.3 nTPM
Hypothalamus	0.6 nTPM
Thalamus	0.0 nTPM

Astrocyte	1.9 nTPM
Hypothalamus	3.0 nTPM
Amygdala	2.5 nTPM
Basal ganglia	2.5 nTPM
Spinal cord	2.2 nTPM
Cerebellum	1.6 nTPM
Medulla oblongata	1.6 nTPM
Midbrain	1.6 nTPM
Hippocampus	1.5 nTPM
Pons	1.4 nTPM
Thalamus	1.3 nTPM
Cerebral cortex	1.1 nTPM

Bergmann glia	17.0 nTPM
Cerebellum	26.1 nTPM
Medulla oblongata	19.2 nTPM
Pons	5.8 nTPM

Central nervous system macrophage	417.8 nTPM
Amygdala	528.3 nTPM
Midbrain	468.1 nTPM
Thalamus	430.9 nTPM
Cerebellum	430.0 nTPM
Basal ganglia	424.6 nTPM
Hypothalamus	414.2 nTPM
Pons	412.3 nTPM
Hippocampus	410.1 nTPM
Cerebral cortex	403.9 nTPM
Medulla oblongata	385.5 nTPM
Spinal cord	287.3 nTPM

Cerebellar inhibitory	1.2 nTPM
Spinal cord	2.7 nTPM
Cerebellum	0.9 nTPM
Medulla oblongata	0.9 nTPM
Midbrain	0.9 nTPM
Pons	0.6 nTPM

Cge interneuron	29.2 nTPM
Hypothalamus	45.1 nTPM
Basal ganglia	33.5 nTPM
Cerebral cortex	32.0 nTPM
Amygdala	30.3 nTPM
Hippocampus	24.0 nTPM
Midbrain	23.4 nTPM
Thalamus	15.9 nTPM

Choroid plexus epithelial cell	0.4 nTPM
Medulla oblongata	0.9 nTPM
Basal ganglia	0.5 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	3.8 nTPM
Basal ganglia	9.9 nTPM
Hippocampus	6.0 nTPM
Cerebellum	4.8 nTPM
Amygdala	3.9 nTPM
Medulla oblongata	3.9 nTPM
Cerebral cortex	3.2 nTPM
Pons	2.7 nTPM
Thalamus	2.7 nTPM
Midbrain	2.5 nTPM
Hypothalamus	2.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	0.6 nTPM
Basal ganglia	1.1 nTPM
Amygdala	0.7 nTPM
Hypothalamus	0.7 nTPM
Cerebral cortex	0.6 nTPM
Hippocampus	0.5 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	1.1 nTPM
Basal ganglia	1.6 nTPM
Amygdala	1.4 nTPM
Hippocampus	1.0 nTPM
Hypothalamus	0.8 nTPM
Cerebral cortex	0.7 nTPM

Deep-layer near-projecting	0.5 nTPM
Hippocampus	0.7 nTPM
Hypothalamus	0.6 nTPM
Basal ganglia	0.5 nTPM
Amygdala	0.4 nTPM
Cerebral cortex	0.3 nTPM

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

Endothelial cell	468.8 nTPM
Hypothalamus	820.1 nTPM
Amygdala	541.0 nTPM
Pons	460.6 nTPM
Cerebellum	457.6 nTPM
Hippocampus	434.1 nTPM
Midbrain	424.3 nTPM
Basal ganglia	418.5 nTPM
Thalamus	415.7 nTPM
Cerebral cortex	414.3 nTPM
Medulla oblongata	401.0 nTPM
Spinal cord	369.4 nTPM

Ependymal cell	3.0 nTPM
Hypothalamus	8.0 nTPM
Amygdala	5.7 nTPM
Hippocampus	3.0 nTPM
Pons	2.7 nTPM
Basal ganglia	2.0 nTPM
Spinal cord	1.9 nTPM
Medulla oblongata	1.8 nTPM
Midbrain	1.3 nTPM
Thalamus	0.4 nTPM