Single cell type - SLC44A1 - The Human Protein Atlas

SLC44A1

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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.	SLC44A1
Gene descriptionⁱ Full gene name according to HGNC.	Solute carrier family 44 member 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	CD markers Disease related genes Metabolic proteins Potential drug targets 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.	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.	Oligodendrocytes - Unknown function (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 (Oligodendrocytes)
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.	0.52
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 (Oligodendrocyte, Committed oligodendrocyte precursor)
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.	Immune cell enhanced (NK-cell)
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 (Oligodendrocytes)

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 (Oligodendrocyte, Committed oligodendrocyte precursor)

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: Immune cell enhanced (NK-cell)
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

SLC44A1 is part of cluster 51 Oligodendrocytes - Unknown function with confidenceⁱ 1
302 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.
LPAR1	Lysophosphatidic acid receptor 1	0.7428	51
MAP6D1	MAP6 domain containing 1	0.7271	51
UGT8	UDP glycosyltransferase 8	0.7269	51
PLEKHH1	Pleckstrin homology, MyTH4 and FERM domain containing H1	0.7076	51
PDE8A	Phosphodiesterase 8A	0.7015	51
OPALIN	Oligodendrocytic myelin paranodal and inner loop protein	0.6996	51
ST18	ST18 C2H2C-type zinc finger transcription factor	0.6963	51
MOG	Myelin oligodendrocyte glycoprotein	0.6957	51
OR9A2	Olfactory receptor family 9 subfamily A member 2	0.6918	51
FAM124A	Family with sequence similarity 124 member A	0.6917	51
SLC5A11	Solute carrier family 5 member 11	0.6891	51
PLP1	Proteolipid protein 1	0.6859	51
PLD1	Phospholipase D1	0.6848	51
TRPV5	Transient receptor potential cation channel subfamily V member 5	0.6844	51
MAN2A1	Mannosidase alpha class 2A member 1	0.6802	51

IMMUNE CELLS

SLC44A1 is part of cluster 14 Non-specific - Unknown function with confidenceⁱ 0.87
292 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.
AFF4	ALF transcription elongation factor 4	0.9524	24
MAF1	MAF1 homolog, negative regulator of RNA polymerase III	0.9286	21
ZNF543	Zinc finger protein 543	0.9286	24
HNRNPDL	Heterogeneous nuclear ribonucleoprotein D like	0.9286	14
ENSG00000272617	Novel protein, COG8-PDF readthrough	0.9048	3
ICE1	Interactor of little elongation complex ELL subunit 1	0.9048	3
RUNX3	RUNX family transcription factor 3	0.9048	3
AMFR	Autocrine motility factor receptor	0.9048	14
RAVER1	Ribonucleoprotein, PTB binding 1	0.9048	3
L3MBTL4	L3MBTL histone methyl-lysine binding protein 4	0.8810	14
PDZK1	PDZ domain containing 1	0.8810	14
MFSD4B	Major facilitator superfamily domain containing 4B	0.8810	14
FCRLB	Fc receptor like B	0.8810	14
UBE3A	Ubiquitin protein ligase E3A	0.8810	3
C1orf198	Chromosome 1 open reading frame 198	0.8571	14

Adipocytes	47.3 nTPM
Adipose tissue	52.6 nTPM
Breast	42.0 nTPM

Alveolar cells type 1	51.8 nTPM
Lung	51.8 nTPM

Alveolar cells type 2	37.2 nTPM
Lung	37.2 nTPM

Astrocytes	79.0 nTPM
Brain	79.0 nTPM

B-cells	16.8 nTPM
Skin	37.3 nTPM
Lung	29.5 nTPM
Adipose tissue	24.7 nTPM
Esophagus	17.7 nTPM
Thymus	17.4 nTPM
Salivary gland	17.0 nTPM
Kidney	15.6 nTPM
Lymph node	14.1 nTPM
Spleen	13.6 nTPM
Stomach	11.4 nTPM
Bone marrow	11.3 nTPM
Liver	4.8 nTPM
PBMC	4.6 nTPM

Ciliated cells	37.2 nTPM
Endometrium	57.4 nTPM
Bronchus	45.8 nTPM
Fallopian tube	24.3 nTPM
Lung	21.4 nTPM

Club cells	39.3 nTPM
Prostate	54.0 nTPM
Lung	32.6 nTPM
Bronchus	31.3 nTPM

Endothelial cells	49.4 nTPM
Liver	88.2 nTPM
Placenta	86.9 nTPM
Lung	84.0 nTPM
Esophagus	60.8 nTPM
Prostate	59.0 nTPM
Heart muscle	57.4 nTPM
Tongue	56.2 nTPM
Skeletal muscle	53.1 nTPM
Skin	45.3 nTPM
Vascular	43.6 nTPM
Testis	40.3 nTPM
Thymus	39.0 nTPM
Salivary gland	37.6 nTPM
Endometrium	35.2 nTPM
Fallopian tube	34.7 nTPM
Breast	29.0 nTPM
Ovary	21.6 nTPM
Pancreas	18.1 nTPM

Enteroendocrine cells	150.5 nTPM
Colon	206.1 nTPM
Rectum	149.3 nTPM
Small intestine	96.1 nTPM

Fibroblasts	79.9 nTPM
Salivary gland	203.1 nTPM
Vascular	139.6 nTPM
Skin	113.5 nTPM
Adipose tissue	110.3 nTPM
Thymus	103.4 nTPM
Skeletal muscle	101.7 nTPM
Breast	76.8 nTPM
Esophagus	74.4 nTPM
Prostate	64.0 nTPM
Lung	61.9 nTPM
Heart muscle	55.0 nTPM
Liver	53.4 nTPM
Stomach	41.8 nTPM
Fallopian tube	33.9 nTPM
Placenta	24.0 nTPM
Pancreas	21.9 nTPM

Granulocytes	174.1 nTPM
Lung	208.7 nTPM
Fallopian tube	168.0 nTPM
Tongue	145.5 nTPM

Intestinal goblet cells	153.8 nTPM
Rectum	210.5 nTPM
Small intestine	144.6 nTPM
Colon	106.3 nTPM

Lymphatic endothelial cells	19.5 nTPM
Fallopian tube	33.6 nTPM
Ovary	5.5 nTPM

Macrophages	40.4 nTPM
Stomach	64.3 nTPM
Bone marrow	60.8 nTPM
Adipose tissue	57.5 nTPM
Spleen	50.1 nTPM
Endometrium	48.0 nTPM
Kidney	46.9 nTPM
Tongue	46.6 nTPM
Skeletal muscle	45.9 nTPM
Pancreas	45.2 nTPM
Fallopian tube	40.5 nTPM
Skin	34.5 nTPM
Testis	33.5 nTPM
Thymus	31.7 nTPM
Esophagus	30.8 nTPM
Vascular	30.4 nTPM
Salivary gland	29.5 nTPM
Lung	25.3 nTPM
Breast	23.9 nTPM
Prostate	22.4 nTPM

Paneth cells	146.7 nTPM
Rectum	220.5 nTPM
Colon	123.0 nTPM
Small intestine	96.7 nTPM

Basal keratinocytes	76.3 nTPM
Tongue	79.5 nTPM
Skin	73.1 nTPM

Basal prostatic cells	88.9 nTPM
Prostate	88.9 nTPM

Basal respiratory cells	27.9 nTPM
Bronchus	27.9 nTPM

Basal squamous epithelial cells	74.2 nTPM
Esophagus	74.2 nTPM

Plasma cells	143.2 nTPM
Spleen	212.2 nTPM
Stomach	211.5 nTPM
Esophagus	187.1 nTPM
Bone marrow	135.9 nTPM
Thymus	117.2 nTPM
Fallopian tube	101.0 nTPM
Liver	98.6 nTPM
Salivary gland	81.9 nTPM

Schwann cells	114.9 nTPM
Esophagus	227.6 nTPM
Vascular	93.0 nTPM
Adipose tissue	24.2 nTPM

Serous glandular cells	29.7 nTPM
Salivary gland	37.4 nTPM
Tongue	22.1 nTPM

Smooth muscle cells	42.0 nTPM
Tongue	90.1 nTPM
Skeletal muscle	65.5 nTPM
Vascular	65.3 nTPM
Skin	52.1 nTPM
Adipose tissue	51.7 nTPM
Prostate	49.9 nTPM
Liver	36.5 nTPM
Thymus	36.5 nTPM
Endometrium	36.2 nTPM
Salivary gland	31.0 nTPM
Fallopian tube	30.7 nTPM
Esophagus	30.0 nTPM
Breast	28.1 nTPM
Ovary	23.6 nTPM
Lung	23.5 nTPM
Placenta	21.3 nTPM

Suprabasal keratinocytes	82.0 nTPM
Tongue	87.2 nTPM
Skin	76.9 nTPM

T-cells	17.5 nTPM
Vascular	29.7 nTPM
Esophagus	29.2 nTPM
Endometrium	27.6 nTPM
Liver	25.2 nTPM
Colon	22.4 nTPM
Prostate	20.1 nTPM
Skeletal muscle	20.0 nTPM
Tongue	19.4 nTPM
Skin	18.2 nTPM
Spleen	17.9 nTPM
Stomach	17.1 nTPM
Thymus	15.0 nTPM
Lymph node	14.6 nTPM
Bone marrow	13.0 nTPM
Lung	12.9 nTPM
Salivary gland	12.3 nTPM
PBMC	11.7 nTPM
Breast	10.6 nTPM
Adipose tissue	10.0 nTPM
Fallopian tube	9.9 nTPM
Kidney	9.8 nTPM

Undifferentiated cells	134.9 nTPM
Rectum	161.7 nTPM
Small intestine	127.3 nTPM
Colon	115.6 nTPM

Amygdala excitatory	218.4 nTPM
Amygdala	266.8 nTPM
Cerebral cortex	224.8 nTPM
Basal ganglia	222.9 nTPM
Hypothalamus	221.2 nTPM
Hippocampus	210.1 nTPM
Thalamus	164.3 nTPM

Astrocyte	369.2 nTPM
Cerebellum	448.1 nTPM
Hypothalamus	438.5 nTPM
Midbrain	435.3 nTPM
Pons	426.9 nTPM
Spinal cord	401.8 nTPM
Thalamus	378.5 nTPM
Amygdala	373.9 nTPM
Medulla oblongata	372.1 nTPM
Basal ganglia	305.4 nTPM
Hippocampus	289.8 nTPM
Cerebral cortex	191.3 nTPM

Bergmann glia	131.3 nTPM
Pons	141.0 nTPM
Cerebellum	133.6 nTPM
Medulla oblongata	119.3 nTPM

Central nervous system macrophage	176.6 nTPM
Amygdala	225.4 nTPM
Midbrain	204.6 nTPM
Hippocampus	181.4 nTPM
Basal ganglia	181.3 nTPM
Cerebellum	176.3 nTPM
Thalamus	172.7 nTPM
Spinal cord	172.2 nTPM
Hypothalamus	171.2 nTPM
Cerebral cortex	161.9 nTPM
Pons	159.6 nTPM
Medulla oblongata	136.1 nTPM

Cerebellar inhibitory	123.0 nTPM
Spinal cord	134.7 nTPM
Cerebellum	129.8 nTPM
Medulla oblongata	122.6 nTPM
Pons	120.5 nTPM
Midbrain	107.3 nTPM

Cge interneuron	131.3 nTPM
Hypothalamus	144.9 nTPM
Thalamus	140.8 nTPM
Amygdala	137.6 nTPM
Midbrain	128.8 nTPM
Hippocampus	125.0 nTPM
Cerebral cortex	121.8 nTPM
Basal ganglia	120.4 nTPM

Choroid plexus epithelial cell	276.4 nTPM
Thalamus	534.4 nTPM
Basal ganglia	247.0 nTPM
Medulla oblongata	174.5 nTPM
Hippocampus	149.8 nTPM

Committed oligodendrocyte precursor	2570.1 nTPM
Hypothalamus	3539.6 nTPM
Amygdala	3208.4 nTPM
Spinal cord	2910.2 nTPM
Thalamus	2887.1 nTPM
Hippocampus	2722.8 nTPM
Midbrain	2635.2 nTPM
Cerebral cortex	2521.9 nTPM
Cerebellum	2489.3 nTPM
Basal ganglia	2106.9 nTPM
Pons	1986.7 nTPM
Medulla oblongata	1262.6 nTPM

Deep-layer corticothalamic and 6b	141.5 nTPM
Cerebral cortex	162.5 nTPM
Basal ganglia	154.8 nTPM
Midbrain	147.6 nTPM
Hippocampus	137.1 nTPM
Hypothalamus	129.4 nTPM
Amygdala	117.9 nTPM

Deep-layer intratelencephalic	244.2 nTPM
Amygdala	269.0 nTPM
Basal ganglia	249.7 nTPM
Hippocampus	246.6 nTPM
Cerebral cortex	232.2 nTPM
Hypothalamus	223.4 nTPM

Deep-layer near-projecting	108.8 nTPM
Hypothalamus	125.2 nTPM
Amygdala	113.7 nTPM
Cerebral cortex	111.0 nTPM
Hippocampus	100.2 nTPM
Basal ganglia	94.0 nTPM

Eccentric medium spiny neuron	198.8 nTPM
Hypothalamus	206.1 nTPM
Thalamus	203.9 nTPM
Hippocampus	201.9 nTPM
Amygdala	199.5 nTPM
Cerebral cortex	194.7 nTPM
Basal ganglia	186.5 nTPM

Endothelial cell	145.8 nTPM
Midbrain	178.6 nTPM
Hippocampus	168.3 nTPM
Cerebral cortex	166.2 nTPM
Amygdala	161.0 nTPM
Spinal cord	146.7 nTPM
Pons	143.6 nTPM
Cerebellum	138.6 nTPM
Basal ganglia	131.4 nTPM
Thalamus	131.0 nTPM
Medulla oblongata	130.2 nTPM
Hypothalamus	107.9 nTPM