Single cell type - SLC36A4 - The Human Protein Atlas

SLC36A4

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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.	SLC36A4
Gene descriptionⁱ Full gene name according to HGNC.	Solute carrier family 36 member 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Metabolic proteins 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
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.	Low cell type specificity
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.	0.35
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.	Low cell type specificity
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: Low cell type specificity

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: Low cell type specificity

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

SLC36A4 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.
TMEM170B	Transmembrane protein 170B	0.6094	29
UBE2D1	Ubiquitin conjugating enzyme E2 D1	0.5686	74
C9orf72	C9orf72-SMCR8 complex subunit	0.5579	29
RRP12	Ribosomal RNA processing 12 homolog	0.5525	29
CTSS	Cathepsin S	0.5471	29
FCAR	Fc alpha receptor	0.5373	29
MEFV	MEFV innate immuity regulator, pyrin	0.5360	29
PILRA	Paired immunoglobin like type 2 receptor alpha	0.5337	29
LIPN	Lipase family member N	0.5310	29
CD300E	CD300e molecule	0.5212	29
SLC2A6	Solute carrier family 2 member 6	0.5130	29
ACOD1	Aconitate decarboxylase 1	0.5117	29
C5AR1	Complement C5a receptor 1	0.5107	29
AMPD2	Adenosine monophosphate deaminase 2	0.5092	29
LILRA2	Leukocyte immunoglobulin like receptor A2	0.5049	29

IMMUNE CELLS

SLC36A4 is part of cluster 38 Monocytes & Neutrophils - Degranulation with confidenceⁱ 1
501 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.
DDX3X	DEAD-box helicase 3 X-linked	1.0000	38
PSMD13	Proteasome 26S subunit, non-ATPase 13	1.0000	38
ANKRD22	Ankyrin repeat domain 22	1.0000	38
COPS3	COP9 signalosome subunit 3	1.0000	38
PLCB2	Phospholipase C beta 2	1.0000	38
SLC16A6	Solute carrier family 16 member 6	0.9762	28
PIK3R5	Phosphoinositide-3-kinase regulatory subunit 5	0.9762	38
NUP58	Nucleoporin 58	0.9762	38
HMGCR	3-hydroxy-3-methylglutaryl-CoA reductase	0.9762	38
HIPK3	Homeodomain interacting protein kinase 3	0.9762	38
MVP	Major vault protein	0.9762	38
MEFV	MEFV innate immuity regulator, pyrin	0.9762	38
XRN2	5'-3' exoribonuclease 2	0.9762	28
UBE2D1	Ubiquitin conjugating enzyme E2 D1	0.9762	38
METTL22	Methyltransferase 22, Kin17 lysine	0.9762	38

Adipocytes	12.0 nTPM
Breast	12.2 nTPM
Adipose tissue	11.9 nTPM

Alveolar cells type 1	23.1 nTPM
Lung	23.1 nTPM

Alveolar cells type 2	26.4 nTPM
Lung	26.4 nTPM

Astrocytes	34.1 nTPM
Brain	34.1 nTPM

B-cells	26.2 nTPM
Stomach	43.0 nTPM
Spleen	42.1 nTPM
Lymph node	38.2 nTPM
Thymus	37.6 nTPM
Adipose tissue	32.9 nTPM
Salivary gland	30.2 nTPM
Liver	24.2 nTPM
PBMC	20.0 nTPM
Esophagus	17.7 nTPM
Lung	16.1 nTPM
Kidney	15.6 nTPM
Bone marrow	14.1 nTPM
Skin	8.5 nTPM

Ciliated cells	21.8 nTPM
Lung	27.3 nTPM
Fallopian tube	26.1 nTPM
Bronchus	17.0 nTPM
Endometrium	16.9 nTPM

Club cells	9.4 nTPM
Lung	11.5 nTPM
Prostate	10.5 nTPM
Bronchus	6.2 nTPM

Dendritic cells	28.9 nTPM
Adipose tissue	47.1 nTPM
PBMC	10.8 nTPM

Endothelial cells	14.1 nTPM
Skin	29.6 nTPM
Heart muscle	23.1 nTPM
Testis	18.6 nTPM
Salivary gland	15.8 nTPM
Thymus	15.7 nTPM
Esophagus	15.5 nTPM
Endometrium	15.2 nTPM
Vascular	14.0 nTPM
Fallopian tube	13.9 nTPM
Skeletal muscle	13.4 nTPM
Placenta	12.5 nTPM
Prostate	12.3 nTPM
Tongue	11.7 nTPM
Lung	11.0 nTPM
Ovary	9.9 nTPM
Breast	8.8 nTPM
Pancreas	7.8 nTPM
Liver	5.0 nTPM

Enteroendocrine cells	13.0 nTPM
Rectum	28.5 nTPM
Colon	6.9 nTPM
Small intestine	3.4 nTPM

Fibroblasts	17.8 nTPM
Skin	32.0 nTPM
Placenta	23.5 nTPM
Thymus	21.5 nTPM
Salivary gland	20.1 nTPM
Vascular	19.5 nTPM
Adipose tissue	18.0 nTPM
Stomach	17.3 nTPM
Lung	17.2 nTPM
Skeletal muscle	16.7 nTPM
Prostate	16.5 nTPM
Pancreas	15.7 nTPM
Fallopian tube	15.6 nTPM
Breast	13.3 nTPM
Heart muscle	13.0 nTPM
Liver	13.0 nTPM
Esophagus	12.5 nTPM

Granulocytes	18.7 nTPM
Fallopian tube	24.6 nTPM
Tongue	19.4 nTPM
Lung	12.1 nTPM

Intestinal goblet cells	22.1 nTPM
Rectum	30.7 nTPM
Colon	27.1 nTPM
Small intestine	8.6 nTPM

Lymphatic endothelial cells	11.4 nTPM
Fallopian tube	11.9 nTPM
Ovary	10.9 nTPM

Macrophages	46.5 nTPM
Stomach	92.6 nTPM
Adipose tissue	77.5 nTPM
Fallopian tube	75.0 nTPM
Skeletal muscle	69.6 nTPM
Spleen	66.2 nTPM
Pancreas	53.4 nTPM
Bone marrow	50.7 nTPM
Testis	49.0 nTPM
Lung	47.2 nTPM
Kidney	46.9 nTPM
Vascular	38.4 nTPM
Skin	37.9 nTPM
Thymus	36.2 nTPM
Salivary gland	31.4 nTPM
Esophagus	27.0 nTPM
Tongue	25.0 nTPM
Breast	21.8 nTPM
Prostate	20.0 nTPM
Endometrium	18.4 nTPM

Basal respiratory cells	9.1 nTPM
Bronchus	9.1 nTPM

Basal squamous epithelial cells	16.0 nTPM
Esophagus	16.0 nTPM

Bipolar cells	17.4 nTPM
Eye	17.4 nTPM

Cholangiocytes	24.8 nTPM
Liver	24.8 nTPM

Paneth cells	4.5 nTPM
Rectum	6.3 nTPM
Colon	3.6 nTPM
Small intestine	3.5 nTPM

Plasma cells	20.3 nTPM
Esophagus	36.4 nTPM
Stomach	28.1 nTPM
Salivary gland	25.5 nTPM
Fallopian tube	20.6 nTPM
Spleen	15.2 nTPM
Thymus	14.4 nTPM
Liver	13.0 nTPM
Bone marrow	9.1 nTPM

Schwann cells	8.9 nTPM
Adipose tissue	15.6 nTPM
Vascular	11.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	22.2 nTPM
Salivary gland	31.1 nTPM
Tongue	13.3 nTPM

Smooth muscle cells	16.0 nTPM
Skin	25.8 nTPM
Tongue	23.1 nTPM
Fallopian tube	22.2 nTPM
Salivary gland	20.9 nTPM
Vascular	18.7 nTPM
Endometrium	18.3 nTPM
Esophagus	18.0 nTPM
Thymus	16.3 nTPM
Liver	15.3 nTPM
Placenta	13.3 nTPM
Lung	11.8 nTPM
Breast	11.8 nTPM
Prostate	10.9 nTPM
Skeletal muscle	10.4 nTPM
Adipose tissue	10.0 nTPM
Ovary	9.5 nTPM

Suprabasal keratinocytes	21.3 nTPM
Skin	30.6 nTPM
Tongue	11.9 nTPM

T-cells	16.4 nTPM
Lymph node	32.1 nTPM
Spleen	27.9 nTPM
Thymus	25.3 nTPM
Adipose tissue	21.7 nTPM
Salivary gland	21.4 nTPM
Kidney	18.6 nTPM
Stomach	18.6 nTPM
Bone marrow	16.7 nTPM
PBMC	15.9 nTPM
Breast	15.7 nTPM
Fallopian tube	15.0 nTPM
Vascular	14.5 nTPM
Tongue	13.8 nTPM
Skin	13.3 nTPM
Skeletal muscle	13.2 nTPM
Lung	12.9 nTPM
Prostate	10.7 nTPM
Endometrium	10.0 nTPM
Esophagus	9.7 nTPM
Liver	9.6 nTPM
Colon	7.8 nTPM

Undifferentiated cells	8.2 nTPM
Colon	12.1 nTPM
Rectum	10.3 nTPM
Small intestine	2.3 nTPM

Amygdala excitatory	96.9 nTPM
Amygdala	105.3 nTPM
Cerebral cortex	100.3 nTPM
Basal ganglia	96.9 nTPM
Hippocampus	96.6 nTPM
Thalamus	96.2 nTPM
Hypothalamus	86.1 nTPM

Astrocyte	73.8 nTPM
Hypothalamus	100.2 nTPM
Amygdala	95.7 nTPM
Medulla oblongata	70.8 nTPM
Thalamus	70.6 nTPM
Basal ganglia	70.2 nTPM
Hippocampus	69.5 nTPM
Midbrain	69.2 nTPM
Pons	69.0 nTPM
Spinal cord	68.8 nTPM
Cerebral cortex	65.7 nTPM
Cerebellum	61.6 nTPM

Bergmann glia	91.0 nTPM
Cerebellum	104.9 nTPM
Pons	93.5 nTPM
Medulla oblongata	74.6 nTPM

Central nervous system macrophage	83.1 nTPM
Amygdala	114.1 nTPM
Hypothalamus	107.4 nTPM
Spinal cord	89.2 nTPM
Thalamus	82.2 nTPM
Midbrain	80.9 nTPM
Pons	79.5 nTPM
Hippocampus	78.5 nTPM
Basal ganglia	72.3 nTPM
Cerebral cortex	71.9 nTPM
Cerebellum	70.8 nTPM
Medulla oblongata	67.7 nTPM

Cerebellar inhibitory	74.2 nTPM
Pons	80.6 nTPM
Midbrain	76.5 nTPM
Medulla oblongata	75.5 nTPM
Cerebellum	69.5 nTPM
Spinal cord	68.7 nTPM

Cge interneuron	78.4 nTPM
Amygdala	81.9 nTPM
Basal ganglia	79.7 nTPM
Thalamus	78.9 nTPM
Cerebral cortex	78.4 nTPM
Hypothalamus	77.7 nTPM
Hippocampus	77.4 nTPM
Midbrain	74.6 nTPM

Choroid plexus epithelial cell	84.6 nTPM
Basal ganglia	112.0 nTPM
Hippocampus	83.2 nTPM
Thalamus	74.0 nTPM
Medulla oblongata	69.2 nTPM

Committed oligodendrocyte precursor	60.4 nTPM
Cerebral cortex	72.2 nTPM
Amygdala	70.5 nTPM
Medulla oblongata	67.1 nTPM
Hypothalamus	61.5 nTPM
Basal ganglia	61.3 nTPM
Midbrain	60.5 nTPM
Thalamus	59.7 nTPM
Pons	59.3 nTPM
Cerebellum	58.7 nTPM
Hippocampus	52.8 nTPM
Spinal cord	40.5 nTPM

Deep-layer corticothalamic and 6b	75.2 nTPM
Cerebral cortex	78.5 nTPM
Amygdala	77.5 nTPM
Hippocampus	76.1 nTPM
Basal ganglia	75.6 nTPM
Midbrain	72.1 nTPM
Hypothalamus	71.4 nTPM

Deep-layer intratelencephalic	77.1 nTPM
Amygdala	86.4 nTPM
Cerebral cortex	83.7 nTPM
Hippocampus	77.5 nTPM
Basal ganglia	73.7 nTPM
Hypothalamus	64.1 nTPM

Deep-layer near-projecting	72.9 nTPM
Cerebral cortex	80.2 nTPM
Basal ganglia	77.9 nTPM
Amygdala	73.0 nTPM
Hypothalamus	72.8 nTPM
Hippocampus	60.5 nTPM

Eccentric medium spiny neuron	140.3 nTPM
Hypothalamus	155.2 nTPM
Thalamus	145.5 nTPM
Amygdala	143.2 nTPM
Basal ganglia	141.8 nTPM
Cerebral cortex	136.7 nTPM
Hippocampus	119.4 nTPM