Single cell type - TMEM9 - The Human Protein Atlas

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.	TMEM9
Gene descriptionⁱ Full gene name according to HGNC.	Transmembrane protein 9
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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. Read more	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8

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. Read more	Fibroblasts - 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. Read more	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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

TMEM9 is part of cluster 33 Fibroblasts - ECM organization with confidenceⁱ 1
171 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
ZPLD1	Zona pellucida like domain containing 1	0.4795	5
S100A13	S100 calcium binding protein A13	0.4686	52
TMEM42	Transmembrane protein 42	0.4682	34
OBP2A	Odorant binding protein 2A	0.4671	44
NRSN2	Neurensin 2	0.4633	56
G6PC3	Glucose-6-phosphatase catalytic subunit 3	0.4566	47
CLDN10	Claudin 10	0.4489	26
ETAA1	ETAA1 activator of ATR kinase	0.4470	7
FUCA2	Alpha-L-fucosidase 2	0.4446	33
B3GNT9	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 9	0.4436	33
TCN1	Transcobalamin 1	0.4348	1
FAM114A1	Family with sequence similarity 114 member A1	0.4347	33
RDH10	Retinol dehydrogenase 10	0.4340	5
TCF21	Transcription factor 21	0.4339	33
TMEM106B	Transmembrane protein 106B	0.4331	33

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	20.9 nTPM
Breast	24.3 nTPM
Adipose tissue	17.5 nTPM

Alveolar cells type 1	51.3 nTPM
Lung	51.3 nTPM

Alveolar cells type 2	49.5 nTPM
Lung	49.5 nTPM

Astrocytes	17.0 nTPM
Brain	17.0 nTPM

B-cells	13.4 nTPM
Liver	27.2 nTPM
Stomach	17.7 nTPM
Lymph node	17.0 nTPM
Bone marrow	16.4 nTPM
Spleen	15.3 nTPM
Breast	13.4 nTPM
Adipose tissue	9.0 nTPM
PBMC	8.5 nTPM
Colon	4.8 nTPM
Kidney	4.8 nTPM

Dendritic cells	9.3 nTPM
Breast	12.4 nTPM
PBMC	8.0 nTPM
Adipose tissue	7.4 nTPM

Endothelial cells	26.3 nTPM
Placenta	57.4 nTPM
Eye	34.8 nTPM
Breast	31.6 nTPM
Endometrium	31.1 nTPM
Heart muscle	29.0 nTPM
Ovary	28.2 nTPM
Lung	28.1 nTPM
Testis	26.4 nTPM
Liver	24.7 nTPM
Esophagus	20.1 nTPM
Skin	17.9 nTPM
Prostate	14.0 nTPM
Skeletal muscle	13.2 nTPM
Pancreas	11.6 nTPM

Fibroblasts	59.9 nTPM
Placenta	98.2 nTPM
Breast	80.1 nTPM
Esophagus	77.0 nTPM
Ovary	72.3 nTPM
Adipose tissue	66.2 nTPM
Heart muscle	56.2 nTPM
Skeletal muscle	49.9 nTPM
Skin	46.5 nTPM
Lung	40.2 nTPM
Stomach	40.1 nTPM
Prostate	31.8 nTPM

Intestinal goblet cells	26.9 nTPM
Colon	31.5 nTPM
Rectum	29.1 nTPM
Small intestine	20.2 nTPM

Macrophages	15.6 nTPM
Ovary	29.9 nTPM
Lung	18.0 nTPM
Pancreas	17.8 nTPM
Endometrium	17.7 nTPM
Breast	17.3 nTPM
Prostate	16.0 nTPM
Kidney	15.8 nTPM
Esophagus	15.8 nTPM
Testis	15.1 nTPM
Bone marrow	15.0 nTPM
PBMC	13.6 nTPM
Spleen	12.5 nTPM
Stomach	11.7 nTPM
Adipose tissue	8.9 nTPM
Skeletal muscle	8.8 nTPM

Paneth cells	18.8 nTPM
Small intestine	26.3 nTPM
Rectum	20.1 nTPM
Colon	9.9 nTPM

Plasma cells	18.8 nTPM
Spleen	32.5 nTPM
Stomach	28.8 nTPM
Esophagus	18.4 nTPM
Bone marrow	8.2 nTPM
Adipose tissue	5.8 nTPM

Respiratory ciliated cells	54.5 nTPM
Lung	59.8 nTPM
Bronchus	49.2 nTPM

Smooth muscle cells	42.1 nTPM
Pancreas	86.2 nTPM
Heart muscle	68.4 nTPM
Ovary	47.6 nTPM
Bronchus	42.0 nTPM
Esophagus	40.3 nTPM
Breast	36.6 nTPM
Endometrium	34.2 nTPM
Skin	29.2 nTPM
Adipose tissue	28.3 nTPM
Prostate	26.9 nTPM
Skeletal muscle	23.7 nTPM

T-cells	13.0 nTPM
Ovary	17.8 nTPM
Endometrium	17.6 nTPM
Spleen	17.4 nTPM
Kidney	16.4 nTPM
Stomach	16.3 nTPM
Liver	16.2 nTPM
Lymph node	15.8 nTPM
Bone marrow	15.5 nTPM
Skin	15.2 nTPM
Breast	13.9 nTPM
Colon	13.3 nTPM
PBMC	12.7 nTPM
Prostate	9.5 nTPM
Lung	9.1 nTPM
Skeletal muscle	7.5 nTPM
Adipose tissue	6.9 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	12.9 nTPM
Skin	12.9 nTPM

Basal prostatic cells	31.4 nTPM
Prostate	31.4 nTPM

Basal respiratory cells	65.6 nTPM
Bronchus	65.6 nTPM

Basal squamous epithelial cells	27.3 nTPM
Esophagus	27.3 nTPM

Undifferentiated cells	28.4 nTPM
Small intestine	33.5 nTPM
Rectum	29.2 nTPM
Colon	22.4 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC