Single cell type - SLC38A2 - The Human Protein Atlas

SLC38A2

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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.	SLC38A2
Gene descriptionⁱ Full gene name according to HGNC.	Solute carrier family 38 member 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	FDA approved drug targets 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.	Squamous epithelial cells - Keratinization (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 (Basal keratinocytes, Suprabasal keratinocytes)
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.	0.31
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: Cell type enhanced (Basal keratinocytes, Suprabasal keratinocytes)

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

SLC38A2 is part of cluster 12 Squamous epithelial cells - Keratinization with confidenceⁱ 1
309 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.
TP63	Tumor protein p63	0.7030	12
KLHL21	Kelch like family member 21	0.7002	12
GSDMC	Gasdermin C	0.6914	12
SERPINB5	Serpin family B member 5	0.6904	12
UCN2	Urocortin 2	0.6837	12
SERTAD2	SERTA domain containing 2	0.6606	12
PHF13	PHD finger protein 13	0.6559	12
IRX4	Iroquois homeobox 4	0.6418	12
DUSP7	Dual specificity phosphatase 7	0.6398	12
KRT15	Keratin 15	0.6397	12
DSC3	Desmocollin 3	0.6373	12
SOX15	SRY-box transcription factor 15	0.6308	12
TNS4	Tensin 4	0.6275	12
LGALS7B	Galectin 7B	0.6267	12
LCE1E	Late cornified envelope 1E	0.6251	12

IMMUNE CELLS

SLC38A2 is part of cluster 30 Non-specific - DNA binding with confidenceⁱ 1
263 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.
DDX55	DEAD-box helicase 55	1.0000	30
TRIM61	Tripartite motif containing 61	0.9762	30
GCSH	Glycine cleavage system protein H	0.9762	30
ELAPOR2	Endosome-lysosome associated apoptosis and autophagy regulator family member 2	0.9762	30
PLCXD2	Phosphatidylinositol specific phospholipase C X domain containing 2	0.9524	30
HNRNPUL2	Heterogeneous nuclear ribonucleoprotein U like 2	0.9524	30
PUS7L	Pseudouridine synthase 7 like	0.9524	30
HLCS	Holocarboxylase synthetase	0.9286	30
PIGW	Phosphatidylinositol glycan anchor biosynthesis class W	0.9286	5
ZFP41	ZFP41 zinc finger protein	0.9286	30
GLIPR1L2	GLIPR1 like 2	0.9286	30
TBL1XR1	TBL1X/Y related 1	0.9286	30
SETD5	SET domain containing 5	0.9286	24
UFL1	UFM1 specific ligase 1	0.9286	30
GRAMD2B	GRAM domain containing 2B	0.9286	30

Adipocytes	212.5 nTPM
Breast	222.9 nTPM
Adipose tissue	202.1 nTPM

Alveolar cells type 1	69.2 nTPM
Lung	69.2 nTPM

Alveolar cells type 2	109.0 nTPM
Lung	109.0 nTPM

Astrocytes	29.7 nTPM
Brain	29.7 nTPM

B-cells	171.3 nTPM
Lymph node	609.4 nTPM
Esophagus	466.1 nTPM
Adipose tissue	253.5 nTPM
Skin	249.0 nTPM
Spleen	123.6 nTPM
Stomach	105.0 nTPM
Liver	77.3 nTPM
Thymus	72.6 nTPM
Kidney	67.6 nTPM
Lung	61.7 nTPM
Salivary gland	58.8 nTPM
Bone marrow	50.2 nTPM
PBMC	32.3 nTPM

Basal keratinocytes	837.6 nTPM
Skin	1321.8 nTPM
Tongue	353.4 nTPM

Basal squamous epithelial cells	581.7 nTPM
Esophagus	581.7 nTPM

Ciliated cells	92.7 nTPM
Endometrium	191.7 nTPM
Bronchus	84.5 nTPM
Lung	48.2 nTPM
Fallopian tube	46.5 nTPM

Club cells	136.4 nTPM
Bronchus	193.8 nTPM
Lung	110.1 nTPM
Prostate	105.4 nTPM

Dendritic cells	208.6 nTPM
Adipose tissue	291.3 nTPM
PBMC	125.9 nTPM

Endothelial cells	215.5 nTPM
Breast	498.3 nTPM
Endometrium	450.5 nTPM
Esophagus	448.2 nTPM
Liver	341.4 nTPM
Skin	336.2 nTPM
Tongue	241.2 nTPM
Salivary gland	230.4 nTPM
Placenta	190.7 nTPM
Skeletal muscle	175.0 nTPM
Thymus	142.6 nTPM
Prostate	137.2 nTPM
Vascular	136.0 nTPM
Heart muscle	127.4 nTPM
Ovary	112.2 nTPM
Lung	94.7 nTPM
Testis	87.0 nTPM
Fallopian tube	79.9 nTPM
Pancreas	49.1 nTPM

Enteroendocrine cells	79.1 nTPM
Colon	111.3 nTPM
Small intestine	82.4 nTPM
Rectum	43.6 nTPM

Fibroblasts	201.3 nTPM
Esophagus	343.3 nTPM
Skin	337.3 nTPM
Breast	259.2 nTPM
Adipose tissue	229.9 nTPM
Liver	225.3 nTPM
Stomach	220.5 nTPM
Fallopian tube	219.8 nTPM
Salivary gland	206.0 nTPM
Vascular	190.3 nTPM
Lung	181.9 nTPM
Skeletal muscle	181.4 nTPM
Prostate	180.2 nTPM
Thymus	165.7 nTPM
Heart muscle	114.8 nTPM
Placenta	107.5 nTPM
Pancreas	57.3 nTPM

Granulocytes	133.3 nTPM
Tongue	242.5 nTPM
Lung	80.2 nTPM
Fallopian tube	77.3 nTPM

Intestinal goblet cells	155.0 nTPM
Colon	186.8 nTPM
Small intestine	152.5 nTPM
Rectum	125.7 nTPM

Bipolar cells	34.6 nTPM
Eye	34.6 nTPM

Cholangiocytes	82.0 nTPM
Liver	82.0 nTPM

Collecting duct cells	66.1 nTPM
Kidney	66.1 nTPM

Cone photoreceptor cells	22.1 nTPM
Eye	22.1 nTPM

Lymphatic endothelial cells	304.0 nTPM
Fallopian tube	400.6 nTPM
Ovary	207.3 nTPM

Macrophages	204.5 nTPM
Esophagus	517.6 nTPM
Adipose tissue	425.8 nTPM
Breast	402.1 nTPM
Skin	307.5 nTPM
Skeletal muscle	300.2 nTPM
Endometrium	224.5 nTPM
Tongue	223.4 nTPM
Salivary gland	212.6 nTPM
Fallopian tube	206.4 nTPM
Prostate	161.1 nTPM
Stomach	156.9 nTPM
Vascular	156.1 nTPM
Spleen	122.3 nTPM
Testis	104.8 nTPM
Thymus	100.3 nTPM
Lung	81.5 nTPM
Kidney	79.7 nTPM
Bone marrow	53.7 nTPM
Pancreas	49.3 nTPM

Paneth cells	66.5 nTPM
Colon	79.6 nTPM
Rectum	75.0 nTPM
Small intestine	44.9 nTPM

Plasma cells	236.0 nTPM
Esophagus	504.2 nTPM
Stomach	315.8 nTPM
Spleen	206.6 nTPM
Fallopian tube	205.2 nTPM
Salivary gland	194.3 nTPM
Liver	187.3 nTPM
Thymus	158.5 nTPM
Bone marrow	116.3 nTPM

Schwann cells	257.3 nTPM
Adipose tissue	314.3 nTPM
Esophagus	311.5 nTPM
Vascular	146.3 nTPM

Serous glandular cells	209.8 nTPM
Tongue	225.4 nTPM
Salivary gland	194.3 nTPM

Smooth muscle cells	290.1 nTPM
Esophagus	738.8 nTPM
Adipose tissue	668.1 nTPM
Skin	366.3 nTPM
Tongue	347.6 nTPM
Breast	315.3 nTPM
Endometrium	298.1 nTPM
Skeletal muscle	284.6 nTPM
Liver	247.1 nTPM
Vascular	233.6 nTPM
Ovary	222.9 nTPM
Salivary gland	209.9 nTPM
Lung	194.0 nTPM
Thymus	164.7 nTPM
Prostate	157.5 nTPM
Placenta	106.5 nTPM
Fallopian tube	87.0 nTPM

Suprabasal keratinocytes	705.2 nTPM
Skin	1159.5 nTPM
Tongue	251.0 nTPM

T-cells	237.1 nTPM
Lymph node	549.9 nTPM
Esophagus	545.1 nTPM
Breast	498.0 nTPM
Adipose tissue	459.5 nTPM
Skeletal muscle	375.4 nTPM
Endometrium	314.4 nTPM
Skin	313.3 nTPM
Tongue	252.5 nTPM
Spleen	192.9 nTPM
Vascular	192.2 nTPM
Thymus	174.0 nTPM
Fallopian tube	152.5 nTPM
Liver	149.4 nTPM
Stomach	139.7 nTPM
Colon	130.6 nTPM
Salivary gland	123.4 nTPM
Prostate	119.3 nTPM
Lung	109.3 nTPM
Kidney	83.3 nTPM
Bone marrow	66.4 nTPM
PBMC	39.0 nTPM

Undifferentiated cells	72.8 nTPM
Colon	81.7 nTPM
Rectum	76.2 nTPM
Small intestine	60.6 nTPM

Amygdala excitatory	36.1 nTPM
Thalamus	37.7 nTPM
Basal ganglia	37.1 nTPM
Hippocampus	37.1 nTPM
Hypothalamus	36.5 nTPM
Cerebral cortex	35.5 nTPM
Amygdala	32.7 nTPM

Astrocyte	90.0 nTPM
Spinal cord	260.7 nTPM
Medulla oblongata	129.4 nTPM
Hypothalamus	90.3 nTPM
Cerebellum	89.9 nTPM
Pons	85.4 nTPM
Hippocampus	61.4 nTPM
Cerebral cortex	60.4 nTPM
Midbrain	55.4 nTPM
Amygdala	54.3 nTPM
Thalamus	52.0 nTPM
Basal ganglia	51.3 nTPM

Bergmann glia	89.5 nTPM
Cerebellum	96.3 nTPM
Medulla oblongata	91.6 nTPM
Pons	80.6 nTPM

Central nervous system macrophage	203.3 nTPM
Basal ganglia	237.5 nTPM
Midbrain	237.4 nTPM
Pons	218.3 nTPM
Spinal cord	213.1 nTPM
Amygdala	210.6 nTPM
Thalamus	205.9 nTPM
Medulla oblongata	199.7 nTPM
Cerebellum	197.1 nTPM
Hypothalamus	178.8 nTPM
Hippocampus	169.8 nTPM
Cerebral cortex	168.0 nTPM

Cerebellar inhibitory	64.4 nTPM
Spinal cord	85.2 nTPM
Pons	82.1 nTPM
Midbrain	53.2 nTPM
Medulla oblongata	51.2 nTPM
Cerebellum	50.2 nTPM

Cge interneuron	64.5 nTPM
Thalamus	94.9 nTPM
Hippocampus	68.3 nTPM
Midbrain	64.9 nTPM
Cerebral cortex	61.3 nTPM
Basal ganglia	57.8 nTPM
Amygdala	56.5 nTPM
Hypothalamus	47.6 nTPM

Choroid plexus epithelial cell	5.7 nTPM
Thalamus	13.7 nTPM
Medulla oblongata	4.9 nTPM
Hippocampus	2.8 nTPM
Basal ganglia	1.4 nTPM

Committed oligodendrocyte precursor	100.8 nTPM
Thalamus	149.3 nTPM
Hypothalamus	119.5 nTPM
Pons	113.3 nTPM
Amygdala	105.4 nTPM
Basal ganglia	101.3 nTPM
Spinal cord	99.3 nTPM
Midbrain	95.8 nTPM
Cerebellum	93.5 nTPM
Hippocampus	82.0 nTPM
Cerebral cortex	79.2 nTPM
Medulla oblongata	69.7 nTPM

Deep-layer corticothalamic and 6b	37.7 nTPM
Hippocampus	47.5 nTPM
Cerebral cortex	46.0 nTPM
Midbrain	37.7 nTPM
Amygdala	33.3 nTPM
Basal ganglia	32.2 nTPM
Hypothalamus	29.5 nTPM

Deep-layer intratelencephalic	38.9 nTPM
Cerebral cortex	50.4 nTPM
Hippocampus	42.5 nTPM
Basal ganglia	35.6 nTPM
Amygdala	33.9 nTPM
Hypothalamus	32.2 nTPM