Single cell type - TMEM42 - 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.	TMEM42
Gene descriptionⁱ Full gene name according to HGNC.	Transmembrane protein 42
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.	1

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	Spermatids - 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. Read more	Cell type enhanced (Late spermatids, Early spermatids)
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 many
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: Cell type enhanced (Late spermatids, Early spermatids)

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

TMEM42 is part of cluster 34 Spermatids - Unknown function with confidenceⁱ 1
366 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
ARL2BP	ADP ribosylation factor like GTPase 2 binding protein	0.5589	34
ORAI3	ORAI calcium release-activated calcium modulator 3	0.5557	4
HEMK1	HemK methyltransferase family member 1	0.5211	34
ATRAID	All-trans retinoic acid induced differentiation factor	0.4775	26
TMEM9	Transmembrane protein 9	0.4682	33
NT5C1B-RDH14	NT5C1B-RDH14 readthrough	0.4521	34
C1QTNF3	C1q and TNF related 3	0.4435	50
PSPH	Phosphoserine phosphatase	0.4405	34
KAT8	Lysine acetyltransferase 8	0.4392	34
RAB3IL1	RAB3A interacting protein like 1	0.4343	34
FUT11	Fucosyltransferase 11	0.4343	34
ZNF479	Zinc finger protein 479	0.4310	34
METTL18	Methyltransferase like 18	0.4293	63
ATAD1	ATPase family AAA domain containing 1	0.4233	34
TMEM161A	Transmembrane protein 161A	0.4183	39

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	8.0 nTPM
Breast	9.9 nTPM
Adipose tissue	6.0 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	7.7 nTPM
Lung	7.7 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	14.0 nTPM
Kidney	33.4 nTPM
PBMC	28.5 nTPM
Bone marrow	18.0 nTPM
Liver	11.4 nTPM
Stomach	10.9 nTPM
Spleen	9.7 nTPM
Colon	8.0 nTPM
Adipose tissue	7.5 nTPM
Breast	6.6 nTPM
Lymph node	6.3 nTPM

Dendritic cells	15.1 nTPM
PBMC	23.9 nTPM
Breast	13.5 nTPM
Adipose tissue	7.7 nTPM

Endothelial cells	10.5 nTPM
Liver	18.3 nTPM
Placenta	18.2 nTPM
Testis	15.4 nTPM
Eye	14.6 nTPM
Breast	12.7 nTPM
Heart muscle	9.5 nTPM
Skin	9.1 nTPM
Ovary	9.1 nTPM
Prostate	8.2 nTPM
Pancreas	7.7 nTPM
Endometrium	7.7 nTPM
Esophagus	6.7 nTPM
Skeletal muscle	6.4 nTPM
Lung	3.1 nTPM

Fibroblasts	18.3 nTPM
Esophagus	30.2 nTPM
Placenta	24.6 nTPM
Adipose tissue	24.4 nTPM
Breast	22.9 nTPM
Ovary	19.2 nTPM
Heart muscle	18.2 nTPM
Skeletal muscle	18.2 nTPM
Skin	14.3 nTPM
Stomach	11.9 nTPM
Prostate	11.8 nTPM
Lung	5.6 nTPM

Intestinal goblet cells	10.2 nTPM
Rectum	11.1 nTPM
Small intestine	11.0 nTPM
Colon	8.5 nTPM

Macrophages	11.7 nTPM
Ovary	22.4 nTPM
Testis	22.1 nTPM
Kidney	19.6 nTPM
Breast	15.0 nTPM
Prostate	13.8 nTPM
PBMC	13.6 nTPM
Stomach	11.7 nTPM
Endometrium	9.6 nTPM
Skeletal muscle	9.3 nTPM
Bone marrow	8.7 nTPM
Adipose tissue	7.8 nTPM
Spleen	7.2 nTPM
Lung	6.8 nTPM
Esophagus	4.8 nTPM
Pancreas	2.5 nTPM

Paneth cells	9.3 nTPM
Small intestine	18.8 nTPM
Rectum	9.2 nTPM
Colon	0.0 nTPM

Plasma cells	6.2 nTPM
Stomach	12.2 nTPM
Spleen	6.9 nTPM
Esophagus	6.1 nTPM
Adipose tissue	5.8 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	19.9 nTPM
Bronchus	22.4 nTPM
Lung	17.5 nTPM

Smooth muscle cells	9.0 nTPM
Pancreas	13.2 nTPM
Adipose tissue	12.9 nTPM
Ovary	10.9 nTPM
Esophagus	10.9 nTPM
Breast	10.9 nTPM
Bronchus	10.2 nTPM
Heart muscle	7.6 nTPM
Endometrium	7.4 nTPM
Skin	6.3 nTPM
Skeletal muscle	4.6 nTPM
Prostate	3.4 nTPM

T-cells	12.8 nTPM
PBMC	22.7 nTPM
Liver	21.2 nTPM
Kidney	20.5 nTPM
Bone marrow	16.1 nTPM
Ovary	15.6 nTPM
Breast	14.7 nTPM
Prostate	14.2 nTPM
Spleen	13.9 nTPM
Lung	13.6 nTPM
Colon	11.9 nTPM
Lymph node	11.2 nTPM
Stomach	9.4 nTPM
Endometrium	9.3 nTPM
Adipose tissue	9.3 nTPM
Skeletal muscle	8.2 nTPM
Skin	6.0 nTPM
Esophagus	0.0 nTPM

Basal prostatic cells	14.4 nTPM
Prostate	14.4 nTPM

Basal respiratory cells	31.5 nTPM
Bronchus	31.5 nTPM

Basal squamous epithelial cells	19.4 nTPM
Esophagus	19.4 nTPM

Cholangiocytes	18.6 nTPM
Liver	18.6 nTPM

Undifferentiated cells	10.7 nTPM
Rectum	15.4 nTPM
Small intestine	12.8 nTPM
Colon	3.9 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