Single cell type - TM7SF3 - The Human Protein Atlas

TM7SF3

Search result

Field

Term

Cluster

Pathway

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.	TM7SF3
Gene descriptionⁱ Full gene name according to HGNC.	Transmembrane 7 superfamily member 3
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, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	12

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 (Late spermatids)
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 (Late spermatids)

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

TM7SF3 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.
ANXA8	Annexin A8	0.5203	12
PLEKHA1	Pleckstrin homology domain containing A1	0.4985	12
VSNL1	Visinin like 1	0.4656	34
IL20RB	Interleukin 20 receptor subunit beta	0.4629	12
TMTC3	Transmembrane O-mannosyltransferase targeting cadherins 3	0.4560	12
EHBP1	EH domain binding protein 1	0.4529	11
FGF5	Fibroblast growth factor 5	0.4474	34
TSLP	Thymic stromal lymphopoietin	0.4463	12
ARHGEF28	Rho guanine nucleotide exchange factor 28	0.4463	34
LAMB4	Laminin subunit beta 4	0.4398	12
KCTD1	Potassium channel tetramerization domain containing 1	0.4324	34
WASF1	WASP family member 1	0.4314	34
FAM83F	Family with sequence similarity 83 member F	0.4296	12
FAT2	FAT atypical cadherin 2	0.4284	12
DLK2	Delta like non-canonical Notch ligand 2	0.4253	35

IMMUNE CELLS

TM7SF3 is part of cluster 45 Eosinophils - Unknown function with confidenceⁱ 0.98
257 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.
CIDEB	Cell death inducing DFFA like effector b	1.0000	45
ARMC10	Armadillo repeat containing 10	1.0000	45
CPNE2	Copine 2	1.0000	45
R3HCC1	R3H domain and coiled-coil containing 1	0.9762	45
HNRNPUL1	Heterogeneous nuclear ribonucleoprotein U like 1	0.9762	45
TRIM62	Tripartite motif containing 62	0.9762	45
RNF11	Ring finger protein 11	0.9762	45
FBXL12	F-box and leucine rich repeat protein 12	0.9762	45
EPS8L1	EPS8 like 1	0.9762	45
ADIPOR2	Adiponectin receptor 2	0.9762	45
REST	RE1 silencing transcription factor	0.9762	45
AKT1	AKT serine/threonine kinase 1	0.9762	45
GUK1	Guanylate kinase 1	0.9762	45
VPS26B	VPS26 retromer complex component B	0.9762	45
PABIR2	PABIR family member 2	0.9762	45

Adipocytes	28.6 nTPM
Adipose tissue	29.1 nTPM
Breast	28.1 nTPM

Alveolar cells type 1	37.2 nTPM
Lung	37.2 nTPM

Alveolar cells type 2	54.1 nTPM
Lung	54.1 nTPM

Astrocytes	26.9 nTPM
Brain	26.9 nTPM

B-cells	22.3 nTPM
Liver	43.5 nTPM
Kidney	41.6 nTPM
Lymph node	22.4 nTPM
Skin	22.0 nTPM
PBMC	21.6 nTPM
Bone marrow	21.3 nTPM
Salivary gland	21.1 nTPM
Lung	20.1 nTPM
Spleen	19.1 nTPM
Thymus	18.3 nTPM
Adipose tissue	14.4 nTPM
Stomach	12.7 nTPM
Esophagus	11.8 nTPM

Ciliated cells	40.2 nTPM
Bronchus	49.7 nTPM
Lung	49.6 nTPM
Fallopian tube	36.6 nTPM
Endometrium	25.1 nTPM

Club cells	52.3 nTPM
Bronchus	69.2 nTPM
Lung	55.5 nTPM
Prostate	32.2 nTPM

Dendritic cells	38.7 nTPM
PBMC	54.0 nTPM
Adipose tissue	23.5 nTPM

Endothelial cells	30.2 nTPM
Heart muscle	59.2 nTPM
Tongue	50.7 nTPM
Placenta	40.3 nTPM
Skin	32.4 nTPM
Skeletal muscle	30.9 nTPM
Prostate	30.9 nTPM
Esophagus	30.1 nTPM
Breast	28.1 nTPM
Lung	28.0 nTPM
Fallopian tube	27.2 nTPM
Thymus	26.2 nTPM
Ovary	25.6 nTPM
Salivary gland	25.0 nTPM
Vascular	25.0 nTPM
Endometrium	23.0 nTPM
Testis	22.6 nTPM
Liver	20.2 nTPM
Pancreas	18.1 nTPM

Enteroendocrine cells	24.2 nTPM
Colon	33.6 nTPM
Rectum	21.8 nTPM
Small intestine	17.2 nTPM

Fibroblasts	25.2 nTPM
Skeletal muscle	36.9 nTPM
Adipose tissue	35.6 nTPM
Esophagus	29.9 nTPM
Heart muscle	27.7 nTPM
Pancreas	26.9 nTPM
Vascular	26.7 nTPM
Breast	25.5 nTPM
Prostate	25.1 nTPM
Skin	24.5 nTPM
Lung	24.5 nTPM
Liver	23.7 nTPM
Thymus	22.9 nTPM
Stomach	21.6 nTPM
Salivary gland	21.1 nTPM
Fallopian tube	17.9 nTPM
Placenta	12.8 nTPM

Granulocytes	32.2 nTPM
Lung	45.9 nTPM
Tongue	29.1 nTPM
Fallopian tube	21.5 nTPM

Intestinal goblet cells	30.2 nTPM
Small intestine	31.7 nTPM
Colon	31.0 nTPM
Rectum	27.9 nTPM

Lymphatic endothelial cells	34.3 nTPM
Fallopian tube	35.9 nTPM
Ovary	32.7 nTPM

Macrophages	27.3 nTPM
Lung	51.4 nTPM
Tongue	45.6 nTPM
Pancreas	37.0 nTPM
Testis	31.6 nTPM
Prostate	30.6 nTPM
Breast	29.5 nTPM
Stomach	28.3 nTPM
Fallopian tube	27.9 nTPM
Salivary gland	26.4 nTPM
Vascular	25.1 nTPM
Kidney	24.8 nTPM
Spleen	24.1 nTPM
Esophagus	23.1 nTPM
Thymus	22.7 nTPM
Skeletal muscle	22.6 nTPM
Adipose tissue	21.6 nTPM
Bone marrow	18.2 nTPM
Endometrium	17.8 nTPM
Skin	11.1 nTPM

Basal respiratory cells	81.4 nTPM
Bronchus	81.4 nTPM

Bipolar cells	51.8 nTPM
Eye	51.8 nTPM

Cholangiocytes	139.3 nTPM
Liver	139.3 nTPM

Collecting duct cells	52.5 nTPM
Kidney	52.5 nTPM

Paneth cells	35.9 nTPM
Rectum	44.0 nTPM
Colon	32.6 nTPM
Small intestine	31.1 nTPM

Plasma cells	38.6 nTPM
Bone marrow	57.4 nTPM
Spleen	53.9 nTPM
Thymus	50.0 nTPM
Liver	44.6 nTPM
Stomach	44.4 nTPM
Fallopian tube	21.9 nTPM
Salivary gland	21.0 nTPM
Esophagus	15.6 nTPM

Schwann cells	39.9 nTPM
Vascular	56.4 nTPM
Esophagus	47.9 nTPM
Adipose tissue	15.2 nTPM

Serous glandular cells	48.7 nTPM
Salivary gland	48.9 nTPM
Tongue	48.6 nTPM

Smooth muscle cells	23.4 nTPM
Lung	37.6 nTPM
Liver	36.5 nTPM
Vascular	29.6 nTPM
Tongue	29.3 nTPM
Salivary gland	25.9 nTPM
Prostate	24.3 nTPM
Thymus	22.5 nTPM
Breast	22.2 nTPM
Adipose tissue	20.7 nTPM
Skeletal muscle	19.9 nTPM
Ovary	19.8 nTPM
Placenta	19.4 nTPM
Fallopian tube	18.2 nTPM
Esophagus	18.0 nTPM
Skin	15.4 nTPM
Endometrium	14.7 nTPM

Suprabasal keratinocytes	67.3 nTPM
Tongue	100.0 nTPM
Skin	34.7 nTPM

T-cells	23.4 nTPM
Esophagus	36.5 nTPM
Colon	31.2 nTPM
Liver	29.7 nTPM
Skeletal muscle	29.1 nTPM
Lung	28.3 nTPM
Breast	26.2 nTPM
Kidney	25.7 nTPM
Tongue	25.7 nTPM
PBMC	24.8 nTPM
Stomach	23.5 nTPM
Endometrium	21.5 nTPM
Bone marrow	21.1 nTPM
Prostate	21.0 nTPM
Salivary gland	19.7 nTPM
Spleen	19.5 nTPM
Fallopian tube	19.1 nTPM
Adipose tissue	18.4 nTPM
Thymus	18.3 nTPM
Skin	17.5 nTPM
Lymph node	16.9 nTPM
Vascular	16.9 nTPM

Undifferentiated cells	44.4 nTPM
Colon	48.3 nTPM
Small intestine	43.3 nTPM
Rectum	41.5 nTPM

Amygdala excitatory	79.7 nTPM
Hypothalamus	95.3 nTPM
Amygdala	91.7 nTPM
Cerebral cortex	84.8 nTPM
Hippocampus	75.7 nTPM
Basal ganglia	73.9 nTPM
Thalamus	56.7 nTPM

Astrocyte	57.6 nTPM
Amygdala	64.6 nTPM
Hypothalamus	61.3 nTPM
Cerebral cortex	60.7 nTPM
Midbrain	59.1 nTPM
Basal ganglia	58.3 nTPM
Hippocampus	58.3 nTPM
Spinal cord	55.5 nTPM
Medulla oblongata	55.4 nTPM
Pons	55.4 nTPM
Thalamus	55.2 nTPM
Cerebellum	49.8 nTPM

Bergmann glia	75.1 nTPM
Cerebellum	83.7 nTPM
Pons	77.7 nTPM
Medulla oblongata	63.9 nTPM

Central nervous system macrophage	139.1 nTPM
Amygdala	152.8 nTPM
Midbrain	150.9 nTPM
Hippocampus	147.7 nTPM
Cerebellum	144.5 nTPM
Hypothalamus	140.5 nTPM
Thalamus	140.4 nTPM
Cerebral cortex	139.7 nTPM
Basal ganglia	137.2 nTPM
Pons	128.1 nTPM
Medulla oblongata	124.1 nTPM
Spinal cord	123.6 nTPM

Cerebellar inhibitory	51.9 nTPM
Spinal cord	60.5 nTPM
Pons	52.5 nTPM
Midbrain	52.3 nTPM
Medulla oblongata	47.1 nTPM
Cerebellum	46.9 nTPM

Cge interneuron	77.9 nTPM
Midbrain	81.4 nTPM
Hypothalamus	80.9 nTPM
Cerebral cortex	80.4 nTPM
Amygdala	78.0 nTPM
Basal ganglia	77.0 nTPM
Thalamus	74.7 nTPM
Hippocampus	72.9 nTPM

Choroid plexus epithelial cell	60.5 nTPM
Basal ganglia	75.2 nTPM
Thalamus	71.2 nTPM
Medulla oblongata	54.0 nTPM
Hippocampus	41.6 nTPM

Committed oligodendrocyte precursor	273.8 nTPM
Hippocampus	456.1 nTPM
Spinal cord	393.7 nTPM
Cerebral cortex	384.4 nTPM
Cerebellum	342.5 nTPM
Midbrain	313.3 nTPM
Pons	271.8 nTPM
Amygdala	236.8 nTPM
Basal ganglia	215.7 nTPM
Hypothalamus	171.4 nTPM
Medulla oblongata	122.6 nTPM
Thalamus	103.8 nTPM

Deep-layer corticothalamic and 6b	95.5 nTPM
Midbrain	116.5 nTPM
Cerebral cortex	111.0 nTPM
Basal ganglia	93.6 nTPM
Hippocampus	88.2 nTPM
Amygdala	85.0 nTPM
Hypothalamus	78.7 nTPM

Deep-layer intratelencephalic	114.6 nTPM
Cerebral cortex	131.6 nTPM
Basal ganglia	115.8 nTPM
Hypothalamus	115.0 nTPM
Amygdala	106.3 nTPM
Hippocampus	104.5 nTPM

Deep-layer near-projecting	76.4 nTPM
Amygdala	83.2 nTPM
Basal ganglia	79.6 nTPM
Hypothalamus	78.6 nTPM
Cerebral cortex	70.5 nTPM
Hippocampus	70.3 nTPM

Eccentric medium spiny neuron	69.7 nTPM
Amygdala	78.1 nTPM
Cerebral cortex	71.2 nTPM
Hypothalamus	69.5 nTPM
Thalamus	68.7 nTPM
Hippocampus	66.7 nTPM
Basal ganglia	63.7 nTPM