Single cell type - TMC5 - The Human Protein Atlas

TMC5

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.	TMC5
Gene descriptionⁱ Full gene name according to HGNC.	Transmembrane channel like 5
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	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.	7

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.	Respiratory epithelial cells - 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 enhanced (Ionocytes, Proximal enterocytes, Ciliated cells, Oocytes, Gastric mucus-secreting cells, Exocrine glandular cells)
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.	0.65
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 enriched (Choroid plexus epithelial 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.	Not detected in immune cells
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 (Ionocytes, Proximal enterocytes, Ciliated cells, Oocytes, Gastric mucus-secreting cells, Exocrine glandular cells)

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 enriched (Choroid plexus epithelial 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: Not detected in immune cells
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

TMC5 is part of cluster 35 Respiratory epithelial cells - Unknown function with confidenceⁱ 1
196 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.
PLEKHS1	Pleckstrin homology domain containing S1	0.7510	35
TMC4	Transmembrane channel like 4	0.7470	35
ADGRF1	Adhesion G protein-coupled receptor F1	0.6876	35
PLXNB2	Plexin B2	0.6710	35
PLEKHG7	Pleckstrin homology and RhoGEF domain containing G7	0.6687	42
CHST6	Carbohydrate sulfotransferase 6	0.6651	42
FUT2	Fucosyltransferase 2	0.6483	35
ABCA13	ATP binding cassette subfamily A member 13	0.6440	35
MUC4	Mucin 4, cell surface associated	0.6389	35
LIPH	Lipase H	0.6386	16
CAPN13	Calpain 13	0.6265	35
ENSG00000288695	Novel protein, SRD5A3-RP11-177J6.1 readthrough	0.6222	35
SLC6A20	Solute carrier family 6 member 20	0.6167	22
AGR3	Anterior gradient 3, protein disulphide isomerase family member	0.6040	22
MYO1A	Myosin IA	0.6003	22

Adipocytes	0.3 nTPM
Breast	0.7 nTPM
Adipose tissue	0.0 nTPM

Alveolar cells type 1	112.0 nTPM
Lung	112.0 nTPM

Alveolar cells type 2	125.7 nTPM
Lung	125.7 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	0.3 nTPM
Stomach	1.7 nTPM
Lung	1.3 nTPM
Salivary gland	0.3 nTPM
Thymus	0.2 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Ciliated cells	265.3 nTPM
Bronchus	528.6 nTPM
Lung	355.6 nTPM
Endometrium	116.8 nTPM
Fallopian tube	60.2 nTPM

Club cells	159.8 nTPM
Bronchus	244.0 nTPM
Lung	165.8 nTPM
Prostate	69.6 nTPM

Endothelial cells	2.8 nTPM
Pancreas	15.5 nTPM
Placenta	12.5 nTPM
Lung	11.9 nTPM
Endometrium	4.5 nTPM
Salivary gland	3.8 nTPM
Skin	0.6 nTPM
Esophagus	0.5 nTPM
Heart muscle	0.4 nTPM
Prostate	0.3 nTPM
Ovary	0.3 nTPM
Thymus	0.2 nTPM
Fallopian tube	0.2 nTPM
Tongue	0.1 nTPM
Vascular	0.1 nTPM
Testis	0.0 nTPM
Liver	0.0 nTPM
Skeletal muscle	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	67.6 nTPM
Small intestine	109.9 nTPM
Colon	54.4 nTPM
Rectum	38.6 nTPM

Fibroblasts	2.0 nTPM
Pancreas	10.2 nTPM
Lung	7.0 nTPM
Salivary gland	4.9 nTPM
Stomach	2.9 nTPM
Thymus	2.8 nTPM
Breast	1.2 nTPM
Adipose tissue	0.7 nTPM
Prostate	0.7 nTPM
Fallopian tube	0.7 nTPM
Vascular	0.6 nTPM
Placenta	0.5 nTPM
Skeletal muscle	0.2 nTPM
Esophagus	0.1 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM

Granulocytes	1.3 nTPM
Lung	3.5 nTPM
Fallopian tube	0.4 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	100.8 nTPM
Small intestine	187.7 nTPM
Rectum	78.3 nTPM
Colon	36.4 nTPM

Lymphatic endothelial cells	2.9 nTPM
Ovary	5.5 nTPM
Fallopian tube	0.4 nTPM

Macrophages	0.7 nTPM
Endometrium	3.1 nTPM
Pancreas	2.1 nTPM
Salivary gland	2.0 nTPM
Breast	1.3 nTPM
Kidney	0.9 nTPM
Lung	0.9 nTPM
Testis	0.6 nTPM
Skeletal muscle	0.4 nTPM
Thymus	0.4 nTPM
Fallopian tube	0.4 nTPM
Adipose tissue	0.2 nTPM
Prostate	0.2 nTPM
Tongue	0.2 nTPM
Vascular	0.1 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	123.8 nTPM
Small intestine	228.0 nTPM
Rectum	103.7 nTPM
Colon	39.8 nTPM

Basal respiratory cells	59.0 nTPM
Bronchus	59.0 nTPM

Cholangiocytes	118.3 nTPM
Liver	118.3 nTPM

Collecting duct cells	23.3 nTPM
Kidney	23.3 nTPM

Cytotrophoblasts	38.4 nTPM
Placenta	38.4 nTPM

Plasma cells	1.9 nTPM
Salivary gland	10.3 nTPM
Stomach	2.5 nTPM
Bone marrow	1.5 nTPM
Liver	0.5 nTPM
Spleen	0.2 nTPM
Thymus	0.2 nTPM
Esophagus	0.0 nTPM
Fallopian tube	0.0 nTPM

Schwann cells	0.2 nTPM
Vascular	0.5 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	27.1 nTPM
Tongue	48.6 nTPM
Salivary gland	5.5 nTPM

Smooth muscle cells	0.9 nTPM
Salivary gland	5.0 nTPM
Fallopian tube	3.2 nTPM
Endometrium	2.7 nTPM
Breast	1.1 nTPM
Liver	0.8 nTPM
Placenta	0.5 nTPM
Thymus	0.5 nTPM
Vascular	0.5 nTPM
Tongue	0.3 nTPM
Skeletal muscle	0.2 nTPM
Ovary	0.1 nTPM
Skin	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

T-cells	0.7 nTPM
Endometrium	4.9 nTPM
Colon	2.9 nTPM
Liver	1.6 nTPM
Salivary gland	1.2 nTPM
Lung	0.8 nTPM
Prostate	0.8 nTPM
Fallopian tube	0.7 nTPM
Thymus	0.6 nTPM
Breast	0.5 nTPM
Vascular	0.4 nTPM
Stomach	0.3 nTPM
Adipose tissue	0.2 nTPM
Tongue	0.1 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Undifferentiated cells	81.6 nTPM
Small intestine	144.2 nTPM
Rectum	64.4 nTPM
Colon	36.1 nTPM

Amygdala excitatory	8.9 nTPM
Hypothalamus	22.1 nTPM
Basal ganglia	18.0 nTPM
Amygdala	6.4 nTPM
Cerebral cortex	3.9 nTPM
Hippocampus	2.4 nTPM
Thalamus	0.9 nTPM

Astrocyte	1.1 nTPM
Spinal cord	2.0 nTPM
Hypothalamus	1.7 nTPM
Medulla oblongata	1.4 nTPM
Basal ganglia	1.2 nTPM
Cerebellum	1.0 nTPM
Hippocampus	1.0 nTPM
Amygdala	0.9 nTPM
Cerebral cortex	0.9 nTPM
Thalamus	0.9 nTPM
Pons	0.8 nTPM
Midbrain	0.7 nTPM

Bergmann glia	0.6 nTPM
Cerebellum	1.9 nTPM
Medulla oblongata	0.0 nTPM
Pons	0.0 nTPM

Central nervous system macrophage	1.1 nTPM
Medulla oblongata	1.9 nTPM
Basal ganglia	1.5 nTPM
Hypothalamus	1.3 nTPM
Cerebellum	1.2 nTPM
Hippocampus	1.2 nTPM
Cerebral cortex	1.1 nTPM
Midbrain	1.0 nTPM
Pons	1.0 nTPM
Spinal cord	0.9 nTPM
Thalamus	0.9 nTPM
Amygdala	0.7 nTPM

Cerebellar inhibitory	1.5 nTPM
Medulla oblongata	2.9 nTPM
Pons	2.0 nTPM
Cerebellum	1.8 nTPM
Midbrain	0.9 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	4.9 nTPM
Amygdala	6.1 nTPM
Basal ganglia	5.9 nTPM
Cerebral cortex	5.8 nTPM
Hypothalamus	4.9 nTPM
Hippocampus	4.8 nTPM
Midbrain	4.6 nTPM
Thalamus	2.5 nTPM

Choroid plexus epithelial cell	50.9 nTPM
Hippocampus	69.3 nTPM
Basal ganglia	49.7 nTPM
Thalamus	43.8 nTPM
Medulla oblongata	40.7 nTPM

Committed oligodendrocyte precursor	2.2 nTPM
Medulla oblongata	11.6 nTPM
Basal ganglia	4.9 nTPM
Cerebellum	1.6 nTPM
Hypothalamus	1.4 nTPM
Cerebral cortex	1.3 nTPM
Hippocampus	1.0 nTPM
Pons	0.9 nTPM
Midbrain	0.8 nTPM
Thalamus	0.5 nTPM
Amygdala	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	10.1 nTPM
Hypothalamus	32.0 nTPM
Amygdala	9.8 nTPM
Hippocampus	8.4 nTPM
Cerebral cortex	6.1 nTPM
Basal ganglia	4.3 nTPM
Midbrain	0.0 nTPM

Deep-layer intratelencephalic	11.4 nTPM
Hypothalamus	21.7 nTPM
Amygdala	11.0 nTPM
Hippocampus	10.5 nTPM
Basal ganglia	7.2 nTPM
Cerebral cortex	6.3 nTPM

Deep-layer near-projecting	1.0 nTPM
Hypothalamus	2.1 nTPM
Cerebral cortex	1.2 nTPM
Amygdala	0.9 nTPM
Hippocampus	0.7 nTPM
Basal ganglia	0.4 nTPM

Eccentric medium spiny neuron	1.0 nTPM
Cerebral cortex	1.2 nTPM
Basal ganglia	1.1 nTPM
Thalamus	1.1 nTPM
Amygdala	1.0 nTPM
Hypothalamus	0.9 nTPM
Hippocampus	0.8 nTPM

Endothelial cell	1.3 nTPM
Hypothalamus	3.7 nTPM
Basal ganglia	2.8 nTPM
Midbrain	1.9 nTPM
Spinal cord	1.7 nTPM
Cerebellum	1.5 nTPM
Medulla oblongata	1.0 nTPM
Hippocampus	0.6 nTPM
Pons	0.6 nTPM
Thalamus	0.6 nTPM
Amygdala	0.0 nTPM
Cerebral cortex	0.0 nTPM

Ependymal cell	8.5 nTPM
Hypothalamus	14.3 nTPM
Thalamus	12.1 nTPM
Midbrain	10.8 nTPM
Basal ganglia	9.6 nTPM
Medulla oblongata	9.2 nTPM
Amygdala	8.5 nTPM
Pons	6.7 nTPM
Hippocampus	5.5 nTPM
Spinal cord	0.0 nTPM