Single cell type - MTMR4 - The Human Protein Atlas

MTMR4

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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.	MTMR4
Gene descriptionⁱ Full gene name according to HGNC.	Myotubularin related protein 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes
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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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.	Non-specific - Transcription (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.	Low cell type specificity
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.	0.35
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: Low cell type specificity

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

MTMR4 is part of cluster 55 Non-specific - Transcription with confidenceⁱ 1
709 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.
ZNF224	Zinc finger protein 224	0.5607	55
DEPDC5	DEP domain containing 5, GATOR1 subcomplex subunit	0.5597	55
SPHK2	Sphingosine kinase 2	0.5486	71
SZT2	SZT2 subunit of KICSTOR complex	0.5361	55
ZNF606	Zinc finger protein 606	0.5350	55
ZNF75A	Zinc finger protein 75a	0.4970	55
KCNC1	Potassium voltage-gated channel subfamily C member 1	0.4967	71
LONP2	Lon peptidase 2, peroxisomal	0.4886	40
RIC3	RIC3 acetylcholine receptor chaperone	0.4882	55
NRDE2	NRDE-2, necessary for RNA interference, domain containing	0.4826	55
RBM6	RNA binding motif protein 6	0.4822	55
POLR2J3	RNA polymerase II subunit J3	0.4814	55
ZFP14	ZFP14 zinc finger protein	0.4795	55
ELMOD3	ELMO domain containing 3	0.4665	55
ZNF554	Zinc finger protein 554	0.4648	55

IMMUNE CELLS

MTMR4 is part of cluster 14 Non-specific - Unknown function with confidenceⁱ 0.36
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.
ADD2	Adducin 2	0.9524	14
RPAP3	RNA polymerase II associated protein 3	0.9524	14
GPAT2	Glycerol-3-phosphate acyltransferase 2, mitochondrial	0.9524	14
FRS2	Fibroblast growth factor receptor substrate 2	0.9524	14
CD83	CD83 molecule	0.9524	14
RERE	Arginine-glutamic acid dipeptide repeats	0.9524	14
ENSG00000258529	Novel protein	0.9286	23
GCOM1	GCOM1, MYZAP-POLR2M combined locus	0.9286	14
DNMBP	Dynamin binding protein	0.9286	14
KCNN4	Potassium calcium-activated channel subfamily N member 4	0.9286	14
CCT6B	Chaperonin containing TCP1 subunit 6B	0.9048	14
CD80	CD80 molecule	0.9048	14
CEP89	Centrosomal protein 89	0.9048	14
QTRT2	Queuine tRNA-ribosyltransferase accessory subunit 2	0.9048	14
DHX57	DExH-box helicase 57	0.9048	14

Adipocytes	10.2 nTPM
Breast	10.3 nTPM
Adipose tissue	10.1 nTPM

Alveolar cells type 1	11.7 nTPM
Lung	11.7 nTPM

Alveolar cells type 2	12.8 nTPM
Lung	12.8 nTPM

Astrocytes	28.8 nTPM
Brain	28.8 nTPM

B-cells	35.0 nTPM
Liver	58.0 nTPM
Salivary gland	47.6 nTPM
PBMC	44.6 nTPM
Kidney	41.6 nTPM
Lung	38.9 nTPM
Bone marrow	38.1 nTPM
Thymus	36.2 nTPM
Adipose tissue	32.5 nTPM
Skin	27.1 nTPM
Lymph node	24.2 nTPM
Esophagus	23.6 nTPM
Stomach	23.2 nTPM
Spleen	20.0 nTPM

Ciliated cells	8.8 nTPM
Lung	11.2 nTPM
Endometrium	9.1 nTPM
Bronchus	7.9 nTPM
Fallopian tube	7.0 nTPM

Club cells	12.1 nTPM
Lung	14.9 nTPM
Prostate	12.5 nTPM
Bronchus	8.8 nTPM

Endothelial cells	13.4 nTPM
Ovary	28.9 nTPM
Liver	20.2 nTPM
Heart muscle	19.2 nTPM
Skeletal muscle	16.8 nTPM
Pancreas	15.5 nTPM
Testis	14.7 nTPM
Prostate	14.7 nTPM
Salivary gland	13.9 nTPM
Vascular	13.3 nTPM
Tongue	12.5 nTPM
Endometrium	12.2 nTPM
Thymus	10.7 nTPM
Placenta	10.2 nTPM
Lung	9.4 nTPM
Esophagus	8.2 nTPM
Skin	7.9 nTPM
Breast	7.9 nTPM
Fallopian tube	4.9 nTPM

Enteroendocrine cells	13.8 nTPM
Small intestine	17.2 nTPM
Colon	12.4 nTPM
Rectum	11.7 nTPM

Fibroblasts	11.3 nTPM
Salivary gland	18.0 nTPM
Placenta	17.5 nTPM
Prostate	15.2 nTPM
Thymus	14.4 nTPM
Liver	14.2 nTPM
Heart muscle	13.7 nTPM
Vascular	12.9 nTPM
Lung	12.0 nTPM
Breast	12.0 nTPM
Esophagus	10.3 nTPM
Skeletal muscle	9.0 nTPM
Adipose tissue	8.0 nTPM
Skin	7.8 nTPM
Fallopian tube	6.5 nTPM
Pancreas	4.8 nTPM
Stomach	4.3 nTPM

Granulocytes	16.7 nTPM
Lung	23.7 nTPM
Tongue	14.6 nTPM
Fallopian tube	11.9 nTPM

Intestinal goblet cells	17.1 nTPM
Small intestine	24.9 nTPM
Rectum	13.4 nTPM
Colon	13.0 nTPM

Lymphatic endothelial cells	22.0 nTPM
Ovary	38.2 nTPM
Fallopian tube	5.9 nTPM

Macrophages	12.0 nTPM
Prostate	19.1 nTPM
Lung	18.7 nTPM
Adipose tissue	17.9 nTPM
Pancreas	16.4 nTPM
Tongue	14.8 nTPM
Breast	14.5 nTPM
Salivary gland	13.6 nTPM
Vascular	13.4 nTPM
Bone marrow	13.2 nTPM
Thymus	12.2 nTPM
Esophagus	11.6 nTPM
Spleen	10.0 nTPM
Endometrium	9.8 nTPM
Fallopian tube	9.5 nTPM
Testis	9.3 nTPM
Kidney	8.9 nTPM
Skeletal muscle	6.5 nTPM
Skin	5.6 nTPM
Stomach	2.6 nTPM

Paneth cells	19.9 nTPM
Colon	21.7 nTPM
Rectum	20.6 nTPM
Small intestine	17.3 nTPM

Basal prostatic cells	12.3 nTPM
Prostate	12.3 nTPM

Basal respiratory cells	9.2 nTPM
Bronchus	9.2 nTPM

Bipolar cells	34.8 nTPM
Eye	34.8 nTPM

Collecting duct cells	3.9 nTPM
Kidney	3.9 nTPM

Plasma cells	16.4 nTPM
Salivary gland	25.1 nTPM
Fallopian tube	22.5 nTPM
Thymus	19.5 nTPM
Liver	19.0 nTPM
Bone marrow	16.6 nTPM
Stomach	12.6 nTPM
Spleen	11.1 nTPM
Esophagus	5.2 nTPM

Schwann cells	15.4 nTPM
Vascular	19.3 nTPM
Adipose tissue	14.8 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	12.2 nTPM
Salivary gland	15.5 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	13.6 nTPM
Ovary	22.2 nTPM
Endometrium	17.2 nTPM
Thymus	16.6 nTPM
Lung	16.5 nTPM
Prostate	15.8 nTPM
Vascular	15.3 nTPM
Tongue	14.4 nTPM
Skeletal muscle	13.8 nTPM
Liver	13.6 nTPM
Salivary gland	13.3 nTPM
Adipose tissue	12.5 nTPM
Breast	11.6 nTPM
Skin	11.0 nTPM
Esophagus	8.4 nTPM
Placenta	7.7 nTPM
Fallopian tube	7.3 nTPM

T-cells	15.4 nTPM
PBMC	31.6 nTPM
Esophagus	26.8 nTPM
Salivary gland	20.6 nTPM
Lung	19.4 nTPM
Liver	18.5 nTPM
Tongue	17.2 nTPM
Vascular	16.1 nTPM
Thymus	15.5 nTPM
Skin	15.4 nTPM
Kidney	15.1 nTPM
Skeletal muscle	14.7 nTPM
Bone marrow	14.7 nTPM
Endometrium	13.0 nTPM
Fallopian tube	12.0 nTPM
Colon	11.7 nTPM
Stomach	11.0 nTPM
Lymph node	10.7 nTPM
Adipose tissue	10.4 nTPM
Prostate	9.8 nTPM
Spleen	9.6 nTPM
Breast	8.5 nTPM

Undifferentiated cells	12.6 nTPM
Rectum	13.6 nTPM
Small intestine	12.5 nTPM
Colon	11.7 nTPM

Amygdala excitatory	41.2 nTPM
Cerebral cortex	45.2 nTPM
Thalamus	44.5 nTPM
Hippocampus	42.7 nTPM
Basal ganglia	40.4 nTPM
Hypothalamus	39.7 nTPM
Amygdala	34.8 nTPM

Astrocyte	36.9 nTPM
Cerebral cortex	45.1 nTPM
Thalamus	43.1 nTPM
Hippocampus	41.0 nTPM
Amygdala	39.9 nTPM
Cerebellum	39.8 nTPM
Midbrain	38.3 nTPM
Pons	35.4 nTPM
Basal ganglia	32.0 nTPM
Medulla oblongata	31.6 nTPM
Spinal cord	30.7 nTPM
Hypothalamus	29.3 nTPM

Bergmann glia	90.8 nTPM
Cerebellum	105.2 nTPM
Medulla oblongata	85.2 nTPM
Pons	82.0 nTPM

Central nervous system macrophage	47.9 nTPM
Cerebellum	58.8 nTPM
Cerebral cortex	57.6 nTPM
Amygdala	51.2 nTPM
Midbrain	49.7 nTPM
Thalamus	49.4 nTPM
Pons	47.6 nTPM
Hippocampus	47.4 nTPM
Hypothalamus	46.1 nTPM
Medulla oblongata	42.8 nTPM
Spinal cord	38.9 nTPM
Basal ganglia	37.6 nTPM

Cerebellar inhibitory	76.9 nTPM
Midbrain	86.5 nTPM
Spinal cord	85.2 nTPM
Cerebellum	83.3 nTPM
Medulla oblongata	67.2 nTPM
Pons	62.3 nTPM

Cge interneuron	41.3 nTPM
Cerebral cortex	46.2 nTPM
Hypothalamus	44.2 nTPM
Hippocampus	42.2 nTPM
Amygdala	40.9 nTPM
Midbrain	39.4 nTPM
Basal ganglia	39.0 nTPM
Thalamus	37.6 nTPM

Choroid plexus epithelial cell	23.1 nTPM
Basal ganglia	40.3 nTPM
Thalamus	24.7 nTPM
Medulla oblongata	24.5 nTPM
Hippocampus	2.8 nTPM

Committed oligodendrocyte precursor	46.9 nTPM
Thalamus	68.9 nTPM
Hypothalamus	60.1 nTPM
Cerebellum	53.9 nTPM
Pons	50.5 nTPM
Amygdala	49.1 nTPM
Hippocampus	46.8 nTPM
Cerebral cortex	45.0 nTPM
Medulla oblongata	42.6 nTPM
Basal ganglia	39.4 nTPM
Midbrain	33.6 nTPM
Spinal cord	25.8 nTPM

Deep-layer corticothalamic and 6b	40.0 nTPM
Hippocampus	45.6 nTPM
Cerebral cortex	43.1 nTPM
Basal ganglia	40.1 nTPM
Amygdala	38.2 nTPM
Hypothalamus	36.6 nTPM
Midbrain	36.6 nTPM

Deep-layer intratelencephalic	38.9 nTPM
Cerebral cortex	43.8 nTPM
Basal ganglia	40.5 nTPM
Hypothalamus	37.4 nTPM
Amygdala	37.0 nTPM
Hippocampus	36.1 nTPM

Deep-layer near-projecting	47.7 nTPM
Cerebral cortex	58.3 nTPM
Amygdala	57.6 nTPM
Basal ganglia	46.1 nTPM
Hypothalamus	40.7 nTPM
Hippocampus	35.8 nTPM

Eccentric medium spiny neuron	36.7 nTPM
Cerebral cortex	41.6 nTPM
Basal ganglia	38.9 nTPM
Hypothalamus	38.5 nTPM
Thalamus	38.1 nTPM
Amygdala	34.6 nTPM
Hippocampus	28.6 nTPM

Endothelial cell	17.0 nTPM
Basal ganglia	25.2 nTPM
Amygdala	22.4 nTPM
Hippocampus	21.2 nTPM
Thalamus	19.2 nTPM
Pons	18.7 nTPM
Hypothalamus	18.6 nTPM
Midbrain	17.0 nTPM
Cerebral cortex	14.7 nTPM
Medulla oblongata	13.3 nTPM
Cerebellum	11.6 nTPM
Spinal cord	5.2 nTPM

Ependymal cell	17.6 nTPM
Amygdala	27.3 nTPM
Basal ganglia	22.9 nTPM
Hippocampus	20.7 nTPM
Pons	18.5 nTPM
Midbrain	16.5 nTPM
Hypothalamus	16.1 nTPM
Medulla oblongata	14.3 nTPM
Thalamus	12.1 nTPM
Spinal cord	9.6 nTPM