Single cell type - TMEM98 - The Human Protein Atlas

TMEM98

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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.	TMEM98
Gene descriptionⁱ Full gene name according to HGNC.	Transmembrane protein 98
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes
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.	Connective tissue cells - ECM organization (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 enterocytes, Ovarian stromal cells, Mesothelial 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.	0.47
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, Choroid plexus epithelial cell, 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 enriched (plasmacytoid DC)
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 enterocytes, Ovarian stromal cells, Mesothelial 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: Group enriched (Oligodendrocyte, Choroid plexus epithelial cell, 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 enriched (plasmacytoid DC)
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

TMEM98 is part of cluster 50 Connective tissue cells - ECM organization with confidenceⁱ 1
176 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.
MDK	Midkine	0.7619	50
ADRB3	Adrenoceptor beta 3	0.7081	50
TCF21	Transcription factor 21	0.6733	50
CYP2W1	Cytochrome P450 family 2 subfamily W member 1	0.6552	50
SERPINE2	Serpin family E member 2	0.6297	50
MMP23B	Matrix metallopeptidase 23B	0.6218	50
CCDC8	Coiled-coil domain containing 8	0.6155	50
P3H4	Prolyl 3-hydroxylase family member 4 (inactive)	0.6002	50
PITX2	Paired like homeodomain 2	0.5914	50
CRYGD	Crystallin gamma D	0.5847	6
GCK	Glucokinase	0.5845	50
FKBP7	FKBP prolyl isomerase 7	0.5796	50
RTL1	Retrotransposon Gag like 1	0.5796	50
TMEM216	Transmembrane protein 216	0.5784	50
CHAT	Choline O-acetyltransferase	0.5775	50

IMMUNE CELLS

TMEM98 is part of cluster 8 Plasmacytoid DCs - Unknown function with confidenceⁱ 0.66
236 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.
SHE	Src homology 2 domain containing E	1.0000	8
ABCB6	ATP binding cassette subfamily B member 6 (Langereis blood group)	0.9762	8
ENSG00000286264	Novel protein	0.9762	8
KLRF2	Killer cell lectin like receptor F2	0.9762	8
ZNF888	Zinc finger protein 888	0.9762	8
SPRED2	Sprouty related EVH1 domain containing 2	0.9762	8
PDILT	Protein disulfide isomerase like, testis expressed	0.9762	30
PLAC8	Placenta associated 8	0.9762	8
BRME1	Break repair meiotic recombinase recruitment factor 1	0.9762	8
IRF2BPL	Interferon regulatory factor 2 binding protein like	0.9762	30
ABCA2	ATP binding cassette subfamily A member 2	0.9762	8
YPEL1	Yippee like 1	0.9762	8
EPDR1	Ependymin related 1	0.9762	8
LLGL2	LLGL scribble cell polarity complex component 2	0.9762	8
OFD1	OFD1 centriole and centriolar satellite protein	0.9524	8

Adipocytes	5.8 nTPM
Breast	10.2 nTPM
Adipose tissue	1.4 nTPM

Alveolar cells type 1	108.2 nTPM
Lung	108.2 nTPM

Alveolar cells type 2	35.3 nTPM
Lung	35.3 nTPM

Astrocytes	5.9 nTPM
Brain	5.9 nTPM

B-cells	0.4 nTPM
Skin	3.4 nTPM
Thymus	1.0 nTPM
Adipose tissue	0.4 nTPM
Salivary gland	0.4 nTPM
Lymph node	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	50.8 nTPM
Lung	71.1 nTPM
Bronchus	59.7 nTPM
Fallopian tube	59.0 nTPM
Endometrium	13.6 nTPM

Club cells	66.8 nTPM
Bronchus	79.5 nTPM
Prostate	65.3 nTPM
Lung	55.5 nTPM

Endothelial cells	11.6 nTPM
Breast	81.7 nTPM
Ovary	34.1 nTPM
Placenta	14.2 nTPM
Pancreas	10.3 nTPM
Fallopian tube	8.2 nTPM
Tongue	7.9 nTPM
Esophagus	7.0 nTPM
Thymus	5.9 nTPM
Skin	5.2 nTPM
Lung	5.1 nTPM
Salivary gland	5.0 nTPM
Vascular	4.7 nTPM
Heart muscle	4.3 nTPM
Prostate	3.6 nTPM
Endometrium	3.3 nTPM
Testis	3.1 nTPM
Skeletal muscle	3.0 nTPM
Liver	2.5 nTPM

Enteroendocrine cells	116.5 nTPM
Colon	152.5 nTPM
Small intestine	99.6 nTPM
Rectum	97.3 nTPM

Fibroblasts	85.6 nTPM
Placenta	211.4 nTPM
Breast	168.1 nTPM
Fallopian tube	121.4 nTPM
Adipose tissue	117.5 nTPM
Skin	110.0 nTPM
Esophagus	94.6 nTPM
Pancreas	91.6 nTPM
Skeletal muscle	81.8 nTPM
Stomach	64.8 nTPM
Prostate	64.0 nTPM
Lung	62.2 nTPM
Vascular	54.1 nTPM
Thymus	53.6 nTPM
Salivary gland	46.2 nTPM
Heart muscle	25.8 nTPM
Liver	2.4 nTPM

Granulocytes	15.5 nTPM
Tongue	38.8 nTPM
Fallopian tube	5.6 nTPM
Lung	2.0 nTPM

Intestinal goblet cells	139.6 nTPM
Rectum	161.9 nTPM
Colon	133.6 nTPM
Small intestine	123.3 nTPM

Lymphatic endothelial cells	63.6 nTPM
Fallopian tube	67.2 nTPM
Ovary	60.0 nTPM

Macrophages	2.0 nTPM
Pancreas	6.2 nTPM
Endometrium	4.9 nTPM
Fallopian tube	3.6 nTPM
Skin	3.3 nTPM
Tongue	3.0 nTPM
Breast	2.8 nTPM
Stomach	2.6 nTPM
Vascular	2.5 nTPM
Salivary gland	1.4 nTPM
Esophagus	1.3 nTPM
Skeletal muscle	1.1 nTPM
Bone marrow	1.0 nTPM
Prostate	1.0 nTPM
Thymus	1.0 nTPM
Kidney	0.9 nTPM
Testis	0.6 nTPM
Lung	0.5 nTPM
Adipose tissue	0.1 nTPM
Spleen	0.0 nTPM

Paneth cells	111.5 nTPM
Rectum	158.1 nTPM
Small intestine	96.7 nTPM
Colon	79.6 nTPM

Basal keratinocytes	17.6 nTPM
Skin	20.9 nTPM
Tongue	14.3 nTPM

Basal prostatic cells	3.8 nTPM
Prostate	3.8 nTPM

Basal respiratory cells	107.9 nTPM
Bronchus	107.9 nTPM

Cholangiocytes	76.3 nTPM
Liver	76.3 nTPM

Plasma cells	1.6 nTPM
Fallopian tube	8.0 nTPM
Salivary gland	1.8 nTPM
Thymus	1.7 nTPM
Liver	0.5 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Schwann cells	10.6 nTPM
Vascular	31.9 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	12.5 nTPM
Tongue	13.3 nTPM
Salivary gland	11.8 nTPM

Smooth muscle cells	54.2 nTPM
Placenta	267.7 nTPM
Fallopian tube	76.0 nTPM
Ovary	64.0 nTPM
Breast	61.3 nTPM
Endometrium	49.2 nTPM
Adipose tissue	46.3 nTPM
Tongue	41.3 nTPM
Lung	38.8 nTPM
Esophagus	36.0 nTPM
Skin	33.1 nTPM
Vascular	32.0 nTPM
Liver	31.8 nTPM
Thymus	31.2 nTPM
Skeletal muscle	23.9 nTPM
Salivary gland	21.2 nTPM
Prostate	12.8 nTPM

Suprabasal keratinocytes	10.0 nTPM
Tongue	13.4 nTPM
Skin	6.5 nTPM

T-cells	1.6 nTPM
Endometrium	8.9 nTPM
Skin	4.9 nTPM
Colon	3.9 nTPM
Fallopian tube	2.7 nTPM
Salivary gland	2.3 nTPM
Vascular	2.0 nTPM
Skeletal muscle	1.9 nTPM
Kidney	1.8 nTPM
Tongue	1.8 nTPM
Breast	1.7 nTPM
Prostate	0.6 nTPM
Lung	0.3 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
PBMC	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
Stomach	0.0 nTPM

Undifferentiated cells	161.9 nTPM
Rectum	196.9 nTPM
Small intestine	165.0 nTPM
Colon	123.8 nTPM

Amygdala excitatory	1.4 nTPM
Thalamus	4.1 nTPM
Basal ganglia	1.4 nTPM
Cerebral cortex	0.9 nTPM
Hippocampus	0.8 nTPM
Hypothalamus	0.8 nTPM
Amygdala	0.6 nTPM

Astrocyte	8.9 nTPM
Cerebellum	12.7 nTPM
Basal ganglia	12.0 nTPM
Hippocampus	11.9 nTPM
Spinal cord	11.7 nTPM
Medulla oblongata	10.5 nTPM
Cerebral cortex	8.7 nTPM
Midbrain	8.4 nTPM
Amygdala	7.8 nTPM
Hypothalamus	6.1 nTPM
Thalamus	5.0 nTPM
Pons	3.7 nTPM

Bergmann glia	13.3 nTPM
Cerebellum	17.0 nTPM
Pons	14.4 nTPM
Medulla oblongata	8.5 nTPM

Central nervous system macrophage	3.5 nTPM
Midbrain	6.4 nTPM
Basal ganglia	5.1 nTPM
Spinal cord	4.7 nTPM
Cerebellum	4.6 nTPM
Medulla oblongata	4.6 nTPM
Pons	3.4 nTPM
Hippocampus	3.2 nTPM
Thalamus	3.1 nTPM
Cerebral cortex	1.5 nTPM
Amygdala	1.3 nTPM
Hypothalamus	0.4 nTPM

Cerebellar inhibitory	1.8 nTPM
Pons	4.0 nTPM
Midbrain	2.8 nTPM
Medulla oblongata	1.1 nTPM
Cerebellum	1.0 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.6 nTPM
Basal ganglia	0.8 nTPM
Hippocampus	0.7 nTPM
Midbrain	0.7 nTPM
Thalamus	0.7 nTPM
Amygdala	0.5 nTPM
Cerebral cortex	0.4 nTPM
Hypothalamus	0.3 nTPM

Choroid plexus epithelial cell	140.4 nTPM
Hippocampus	158.1 nTPM
Basal ganglia	146.2 nTPM
Thalamus	134.3 nTPM
Medulla oblongata	123.0 nTPM

Committed oligodendrocyte precursor	84.8 nTPM
Thalamus	189.3 nTPM
Hypothalamus	158.4 nTPM
Amygdala	97.5 nTPM
Medulla oblongata	93.0 nTPM
Basal ganglia	82.1 nTPM
Midbrain	73.1 nTPM
Pons	71.7 nTPM
Cerebellum	58.7 nTPM
Cerebral cortex	46.9 nTPM
Hippocampus	39.6 nTPM
Spinal cord	22.1 nTPM

Deep-layer corticothalamic and 6b	0.6 nTPM
Midbrain	1.1 nTPM
Basal ganglia	0.8 nTPM
Amygdala	0.6 nTPM
Cerebral cortex	0.5 nTPM
Hippocampus	0.4 nTPM
Hypothalamus	0.3 nTPM

Deep-layer intratelencephalic	1.1 nTPM
Basal ganglia	1.3 nTPM
Hippocampus	1.2 nTPM
Hypothalamus	1.2 nTPM
Amygdala	1.0 nTPM
Cerebral cortex	0.7 nTPM

Deep-layer near-projecting	0.3 nTPM
Basal ganglia	0.4 nTPM
Hippocampus	0.3 nTPM
Amygdala	0.2 nTPM
Cerebral cortex	0.2 nTPM
Hypothalamus	0.2 nTPM

Eccentric medium spiny neuron	0.5 nTPM
Thalamus	0.7 nTPM
Amygdala	0.5 nTPM
Cerebral cortex	0.5 nTPM
Basal ganglia	0.4 nTPM
Hippocampus	0.4 nTPM
Hypothalamus	0.3 nTPM

Endothelial cell	3.8 nTPM
Medulla oblongata	8.2 nTPM
Midbrain	7.6 nTPM
Basal ganglia	7.5 nTPM
Cerebellum	4.6 nTPM
Spinal cord	3.5 nTPM
Cerebral cortex	3.2 nTPM
Hippocampus	2.2 nTPM
Thalamus	1.7 nTPM
Hypothalamus	1.2 nTPM
Pons	1.2 nTPM
Amygdala	1.1 nTPM