Single cell type - TMX3 - 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.	TMX3
Gene descriptionⁱ Full gene name according to HGNC.	Thioredoxin related transmembrane protein 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic proteins 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	Intracellular,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

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 many
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

TMX3 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 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
SLC39A10	Solute carrier family 39 member 10	0.6060	21
ADAMTS2	ADAM metallopeptidase with thrombospondin type 1 motif 2	0.5592	50
SNTB2	Syntrophin beta 2	0.5400	21
COL5A2	Collagen type V alpha 2 chain	0.5200	33
MIB1	Mindbomb E3 ubiquitin protein ligase 1	0.5166	44
FGF10	Fibroblast growth factor 10	0.5116	36
SNED1	Sushi, nidogen and EGF like domains 1	0.5053	21
SLIT3	Slit guidance ligand 3	0.4844	50
UHRF1BP1L	UHRF1 binding protein 1 like	0.4783	21
LAMA4	Laminin subunit alpha 4	0.4733	50
WNT10B	Wnt family member 10B	0.4698	50
ADGRA2	Adhesion G protein-coupled receptor A2	0.4684	33
PRRG3	Proline rich and Gla domain 3	0.4619	50
LAMA2	Laminin subunit alpha 2	0.4591	50
PTPRA	Protein tyrosine phosphatase receptor type A	0.4563	50

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	31.4 nTPM
Adipose tissue	37.3 nTPM
Breast	25.5 nTPM

Alveolar cells type 1	28.9 nTPM
Lung	28.9 nTPM

Alveolar cells type 2	27.8 nTPM
Lung	27.8 nTPM

Astrocytes	36.2 nTPM
Brain	36.2 nTPM

B-cells	25.0 nTPM
Spleen	32.2 nTPM
Adipose tissue	32.1 nTPM
Bone marrow	29.4 nTPM
Breast	25.5 nTPM
PBMC	24.3 nTPM
Kidney	23.8 nTPM
Liver	23.3 nTPM
Stomach	23.1 nTPM
Lymph node	20.0 nTPM
Colon	16.0 nTPM

Dendritic cells	44.3 nTPM
PBMC	63.8 nTPM
Adipose tissue	40.6 nTPM
Breast	28.4 nTPM

Endothelial cells	27.3 nTPM
Endometrium	44.3 nTPM
Ovary	37.2 nTPM
Heart muscle	35.1 nTPM
Testis	29.0 nTPM
Breast	27.3 nTPM
Skin	27.1 nTPM
Eye	25.9 nTPM
Liver	25.7 nTPM
Placenta	25.0 nTPM
Prostate	24.9 nTPM
Esophagus	22.1 nTPM
Skeletal muscle	21.3 nTPM
Pancreas	19.3 nTPM
Lung	18.7 nTPM

Fibroblasts	34.5 nTPM
Adipose tissue	49.4 nTPM
Esophagus	44.2 nTPM
Lung	42.4 nTPM
Skeletal muscle	40.6 nTPM
Breast	34.5 nTPM
Prostate	33.3 nTPM
Skin	31.3 nTPM
Heart muscle	28.9 nTPM
Stomach	28.2 nTPM
Ovary	26.1 nTPM
Placenta	20.0 nTPM

Intestinal goblet cells	13.8 nTPM
Rectum	15.4 nTPM
Small intestine	13.3 nTPM
Colon	12.9 nTPM

Macrophages	23.9 nTPM
Lung	44.0 nTPM
Spleen	33.2 nTPM
Breast	28.8 nTPM
Adipose tissue	27.5 nTPM
Esophagus	26.8 nTPM
Testis	26.7 nTPM
Pancreas	25.5 nTPM
Kidney	22.7 nTPM
Bone marrow	22.5 nTPM
Endometrium	22.2 nTPM
Skeletal muscle	21.0 nTPM
Stomach	20.5 nTPM
Ovary	19.8 nTPM
Prostate	17.2 nTPM
PBMC	0.0 nTPM

Paneth cells	15.4 nTPM
Small intestine	26.3 nTPM
Rectum	13.2 nTPM
Colon	6.5 nTPM

Plasma cells	29.8 nTPM
Adipose tissue	41.3 nTPM
Stomach	30.8 nTPM
Bone marrow	26.4 nTPM
Spleen	25.9 nTPM
Esophagus	24.6 nTPM

Respiratory ciliated cells	28.8 nTPM
Lung	36.5 nTPM
Bronchus	21.2 nTPM

Smooth muscle cells	32.0 nTPM
Bronchus	57.5 nTPM
Endometrium	51.1 nTPM
Pancreas	42.1 nTPM
Adipose tissue	39.2 nTPM
Prostate	33.4 nTPM
Ovary	25.9 nTPM
Esophagus	24.8 nTPM
Breast	23.3 nTPM
Skin	21.9 nTPM
Skeletal muscle	21.7 nTPM
Heart muscle	10.4 nTPM

T-cells	23.3 nTPM
Endometrium	35.4 nTPM
Adipose tissue	31.8 nTPM
Bone marrow	30.6 nTPM
Breast	28.5 nTPM
Lung	27.4 nTPM
Skeletal muscle	27.1 nTPM
Ovary	26.7 nTPM
Stomach	26.3 nTPM
Kidney	25.3 nTPM
Spleen	24.6 nTPM
Skin	22.6 nTPM
Lymph node	22.2 nTPM
PBMC	21.5 nTPM
Liver	21.1 nTPM
Colon	20.9 nTPM
Prostate	4.7 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	20.3 nTPM
Skin	20.3 nTPM

Basal respiratory cells	17.6 nTPM
Bronchus	17.6 nTPM

Basal squamous epithelial cells	12.0 nTPM
Esophagus	12.0 nTPM

Cholangiocytes	10.0 nTPM
Liver	10.0 nTPM

Undifferentiated cells	9.4 nTPM
Rectum	10.6 nTPM
Small intestine	9.8 nTPM
Colon	7.9 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