Single cell type - SLC16A4 - The Human Protein Atlas

SLC16A4

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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.	SLC16A4
Gene descriptionⁱ Full gene name according to HGNC.	Solute carrier family 16 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.	6

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.	Proximal tubular cells - Transmembrane transport (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 (Proximal tubular cells, Collecting duct cells, Extravillous trophoblasts)
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.	0.66
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)
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 enriched (memory B-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 enhanced (Proximal tubular cells, Collecting duct cells, Extravillous trophoblasts)

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)

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 enriched (memory B-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

SLC16A4 is part of cluster 38 Proximal tubular cells - Transmembrane transport with confidenceⁱ 1
131 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.
CUBN	Cubilin	0.8878	38
SLC13A1	Solute carrier family 13 member 1	0.8820	38
SLC34A1	Solute carrier family 34 member 1	0.8669	38
SLC17A1	Solute carrier family 17 member 1	0.8585	38
SLC47A2	Solute carrier family 47 member 2	0.8580	38
CLEC18C	C-type lectin domain family 18 member C	0.8569	38
NAT8	N-acetyltransferase 8 (putative)	0.8564	38
SLC36A2	Solute carrier family 36 member 2	0.8546	38
FMO1	Flavin containing dimethylaniline monoxygenase 1	0.8517	38
SLC22A6	Solute carrier family 22 member 6	0.8499	38
SLC17A3	Solute carrier family 17 member 3	0.8495	38
SLC22A2	Solute carrier family 22 member 2	0.8456	38
SLC22A8	Solute carrier family 22 member 8	0.8441	38
SLC22A12	Solute carrier family 22 member 12	0.8415	38
CLTRN	Collectrin, amino acid transport regulator	0.8369	38

IMMUNE CELLS

SLC16A4 is part of cluster 18 Non-specific - Translation with confidenceⁱ 0.98
120 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.
H2AC14	H2A clustered histone 14	0.9762	18
SOBP	Sine oculis binding protein homolog	0.9762	18
IGHV7-81	Immunoglobulin heavy variable 7-81 (non-functional)	0.9762	23
PTPRK	Protein tyrosine phosphatase receptor type K	0.9762	18
DYNLT2B	Dynein light chain Tctex-type 2B	0.9524	18
C12orf42	Chromosome 12 open reading frame 42	0.9524	18
RAB30	RAB30, member RAS oncogene family	0.9524	14
MAJIN	Membrane anchored junction protein	0.9524	14
PRICKLE1	Prickle planar cell polarity protein 1	0.9286	18
CLEC17A	C-type lectin domain containing 17A	0.9286	18
PKIG	CAMP-dependent protein kinase inhibitor gamma	0.9286	18
RECQL4	RecQ like helicase 4	0.9286	23
LIMS2	LIM zinc finger domain containing 2	0.9286	18
PNPLA7	Patatin like phospholipase domain containing 7	0.9286	18
MBD4	Methyl-CpG binding domain 4, DNA glycosylase	0.9286	18

Adipocytes	2.0 nTPM
Breast	2.1 nTPM
Adipose tissue	2.0 nTPM

Alveolar cells type 1	9.8 nTPM
Lung	9.8 nTPM

Alveolar cells type 2	10.9 nTPM
Lung	10.9 nTPM

Astrocytes	2.2 nTPM
Brain	2.2 nTPM

B-cells	5.4 nTPM
Kidney	15.6 nTPM
Adipose tissue	14.4 nTPM
Liver	9.7 nTPM
Salivary gland	6.6 nTPM
Esophagus	5.9 nTPM
Lymph node	5.0 nTPM
Bone marrow	3.0 nTPM
Lung	2.7 nTPM
Thymus	2.3 nTPM
Skin	1.7 nTPM
PBMC	1.5 nTPM
Spleen	0.8 nTPM
Stomach	0.4 nTPM

Ciliated cells	3.2 nTPM
Bronchus	5.6 nTPM
Endometrium	3.1 nTPM
Lung	2.6 nTPM
Fallopian tube	1.3 nTPM

Club cells	6.1 nTPM
Prostate	8.2 nTPM
Bronchus	7.2 nTPM
Lung	2.9 nTPM

Endothelial cells	3.4 nTPM
Ovary	9.3 nTPM
Endometrium	8.2 nTPM
Prostate	7.3 nTPM
Placenta	5.1 nTPM
Testis	4.9 nTPM
Heart muscle	4.0 nTPM
Skeletal muscle	3.2 nTPM
Skin	3.1 nTPM
Salivary gland	3.0 nTPM
Esophagus	2.6 nTPM
Fallopian tube	2.5 nTPM
Vascular	2.1 nTPM
Thymus	2.0 nTPM
Lung	1.9 nTPM
Tongue	1.6 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	0.1 nTPM
Colon	0.4 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	15.0 nTPM
Esophagus	29.6 nTPM
Breast	26.6 nTPM
Skeletal muscle	23.7 nTPM
Fallopian tube	19.6 nTPM
Vascular	17.4 nTPM
Stomach	17.3 nTPM
Prostate	15.8 nTPM
Heart muscle	15.7 nTPM
Thymus	13.4 nTPM
Salivary gland	13.3 nTPM
Lung	12.6 nTPM
Adipose tissue	11.5 nTPM
Skin	9.5 nTPM
Placenta	6.0 nTPM
Liver	4.7 nTPM
Pancreas	2.8 nTPM

Granulocytes	2.8 nTPM
Tongue	4.9 nTPM
Fallopian tube	2.5 nTPM
Lung	1.0 nTPM

Intestinal goblet cells	1.5 nTPM
Small intestine	3.3 nTPM
Rectum	0.8 nTPM
Colon	0.5 nTPM

Lymphatic endothelial cells	0.5 nTPM
Fallopian tube	0.9 nTPM
Ovary	0.0 nTPM

Macrophages	1.6 nTPM
Kidney	9.7 nTPM
Skin	3.3 nTPM
Skeletal muscle	2.6 nTPM
Breast	2.6 nTPM
Testis	2.5 nTPM
Endometrium	2.5 nTPM
Prostate	2.1 nTPM
Esophagus	1.3 nTPM
Fallopian tube	1.2 nTPM
Adipose tissue	0.7 nTPM
Lung	0.6 nTPM
Vascular	0.5 nTPM
Salivary gland	0.4 nTPM
Thymus	0.4 nTPM
Tongue	0.3 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	2.4 nTPM
Small intestine	6.9 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM

Basal prostatic cells	14.1 nTPM
Prostate	14.1 nTPM

Basal respiratory cells	10.2 nTPM
Bronchus	10.2 nTPM

Bipolar cells	12.7 nTPM
Eye	12.7 nTPM

Cytotrophoblasts	36.9 nTPM
Placenta	36.9 nTPM

Plasma cells	1.6 nTPM
Esophagus	5.2 nTPM
Thymus	2.0 nTPM
Liver	1.5 nTPM
Salivary gland	1.3 nTPM
Fallopian tube	1.3 nTPM
Spleen	1.0 nTPM
Stomach	0.4 nTPM
Bone marrow	0.0 nTPM

Schwann cells	30.6 nTPM
Esophagus	71.9 nTPM
Vascular	18.3 nTPM
Adipose tissue	1.6 nTPM

Serous glandular cells	1.7 nTPM
Salivary gland	3.3 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	7.0 nTPM
Placenta	24.0 nTPM
Ovary	11.6 nTPM
Tongue	9.3 nTPM
Vascular	8.1 nTPM
Lung	7.1 nTPM
Liver	6.4 nTPM
Skin	6.3 nTPM
Prostate	6.1 nTPM
Skeletal muscle	5.7 nTPM
Breast	5.4 nTPM
Endometrium	5.0 nTPM
Fallopian tube	4.1 nTPM
Salivary gland	3.7 nTPM
Esophagus	3.6 nTPM
Adipose tissue	3.1 nTPM
Thymus	2.4 nTPM

T-cells	3.2 nTPM
PBMC	8.8 nTPM
Liver	7.4 nTPM
Kidney	7.1 nTPM
Skeletal muscle	5.3 nTPM
Breast	5.0 nTPM
Lung	4.5 nTPM
Skin	4.2 nTPM
Adipose tissue	3.9 nTPM
Prostate	3.9 nTPM
Endometrium	3.4 nTPM
Salivary gland	3.3 nTPM
Vascular	3.2 nTPM
Fallopian tube	2.6 nTPM
Tongue	1.6 nTPM
Thymus	1.4 nTPM
Spleen	1.1 nTPM
Bone marrow	0.7 nTPM
Lymph node	0.2 nTPM
Colon	0.0 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM

Undifferentiated cells	1.5 nTPM
Small intestine	3.7 nTPM
Rectum	0.6 nTPM
Colon	0.4 nTPM

Amygdala excitatory	10.4 nTPM
Cerebral cortex	14.2 nTPM
Amygdala	11.6 nTPM
Thalamus	11.3 nTPM
Hippocampus	10.9 nTPM
Basal ganglia	10.5 nTPM
Hypothalamus	4.1 nTPM

Astrocyte	13.3 nTPM
Hypothalamus	24.6 nTPM
Spinal cord	23.6 nTPM
Medulla oblongata	18.8 nTPM
Cerebellum	14.9 nTPM
Basal ganglia	11.7 nTPM
Pons	9.9 nTPM
Cerebral cortex	9.1 nTPM
Thalamus	8.8 nTPM
Amygdala	8.7 nTPM
Midbrain	8.1 nTPM
Hippocampus	8.0 nTPM

Bergmann glia	8.0 nTPM
Medulla oblongata	8.5 nTPM
Cerebellum	8.4 nTPM
Pons	7.2 nTPM

Central nervous system macrophage	9.1 nTPM
Hypothalamus	17.6 nTPM
Thalamus	10.9 nTPM
Basal ganglia	9.9 nTPM
Spinal cord	9.7 nTPM
Amygdala	9.4 nTPM
Medulla oblongata	9.1 nTPM
Cerebellum	7.9 nTPM
Pons	7.2 nTPM
Midbrain	6.9 nTPM
Cerebral cortex	6.6 nTPM
Hippocampus	5.1 nTPM

Cerebellar inhibitory	17.4 nTPM
Medulla oblongata	23.2 nTPM
Spinal cord	22.0 nTPM
Pons	14.8 nTPM
Cerebellum	14.7 nTPM
Midbrain	12.1 nTPM

Cge interneuron	9.6 nTPM
Basal ganglia	11.8 nTPM
Amygdala	10.9 nTPM
Hippocampus	10.8 nTPM
Cerebral cortex	10.7 nTPM
Midbrain	10.7 nTPM
Thalamus	8.7 nTPM
Hypothalamus	3.9 nTPM

Choroid plexus epithelial cell	40.4 nTPM
Hippocampus	47.1 nTPM
Medulla oblongata	42.0 nTPM
Thalamus	38.4 nTPM
Basal ganglia	34.1 nTPM

Committed oligodendrocyte precursor	5.3 nTPM
Medulla oblongata	10.3 nTPM
Thalamus	8.6 nTPM
Amygdala	6.2 nTPM
Pons	6.2 nTPM
Basal ganglia	5.5 nTPM
Hypothalamus	5.5 nTPM
Hippocampus	5.4 nTPM
Midbrain	5.0 nTPM
Cerebellum	3.2 nTPM
Cerebral cortex	2.5 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	11.8 nTPM
Midbrain	18.9 nTPM
Basal ganglia	13.9 nTPM
Cerebral cortex	12.5 nTPM
Hippocampus	11.6 nTPM
Amygdala	9.7 nTPM
Hypothalamus	4.2 nTPM

Deep-layer intratelencephalic	13.5 nTPM
Basal ganglia	18.1 nTPM
Amygdala	15.6 nTPM
Hippocampus	15.1 nTPM
Cerebral cortex	14.2 nTPM
Hypothalamus	4.4 nTPM

Deep-layer near-projecting	10.4 nTPM
Hippocampus	18.9 nTPM
Basal ganglia	11.3 nTPM
Cerebral cortex	10.8 nTPM
Amygdala	9.1 nTPM
Hypothalamus	1.7 nTPM

Eccentric medium spiny neuron	10.5 nTPM
Basal ganglia	13.9 nTPM
Cerebral cortex	11.6 nTPM
Amygdala	11.0 nTPM
Hippocampus	9.5 nTPM
Thalamus	8.7 nTPM
Hypothalamus	8.2 nTPM

Endothelial cell	76.0 nTPM
Cerebellum	88.3 nTPM
Midbrain	85.1 nTPM
Cerebral cortex	80.6 nTPM
Hypothalamus	79.4 nTPM
Thalamus	77.9 nTPM
Spinal cord	77.7 nTPM
Hippocampus	75.7 nTPM
Pons	75.5 nTPM
Amygdala	74.9 nTPM
Medulla oblongata	70.8 nTPM
Basal ganglia	50.3 nTPM

Ependymal cell	18.9 nTPM
Thalamus	25.9 nTPM
Medulla oblongata	25.5 nTPM
Hypothalamus	20.5 nTPM
Amygdala	19.3 nTPM
Hippocampus	19.2 nTPM
Spinal cord	17.2 nTPM
Pons	14.1 nTPM
Midbrain	14.0 nTPM
Basal ganglia	13.9 nTPM