Single cell type - TPM4 - 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.	TPM4
Gene descriptionⁱ Full gene name according to HGNC.	Tropomyosin 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Plasma proteins
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
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	Pancreatic endocrine cells - Mixed 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 (Basal prostatic cells)
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	Cell line enhanced (U-2197)
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: Cell type enhanced (Basal prostatic cells)

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

TPM4 is part of cluster 16 Pancreatic endocrine cells - Mixed function 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
SPOCD1	SPOC domain containing 1	0.7242	22
DKK4	Dickkopf WNT signaling pathway inhibitor 4	0.6701	16
S100A16	S100 calcium binding protein A16	0.6602	16
RFLNA	Refilin A	0.6275	16
LAMC2	Laminin subunit gamma 2	0.6212	16
SLURP2	Secreted LY6/PLAUR domain containing 2	0.6158	16
AC008687.4	Novel protein	0.6129	16
SH3BGRL3	SH3 domain binding glutamate rich protein like 3	0.6115	16
KPNA7	Karyopherin subunit alpha 7	0.6084	16
MYEOV	Myeloma overexpressed	0.6028	16
ERO1A	Endoplasmic reticulum oxidoreductase 1 alpha	0.5984	16
PLAU	Plasminogen activator, urokinase	0.5915	22
TXNRD1	Thioredoxin reductase 1	0.5873	22
MUCL3	Mucin like 3	0.5872	16
MMP1	Matrix metallopeptidase 1	0.5765	16

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	389.4 nTPM
Breast	391.7 nTPM
Adipose tissue	387.1 nTPM

Alveolar cells type 1	400.6 nTPM
Lung	400.6 nTPM

Alveolar cells type 2	156.6 nTPM
Lung	156.6 nTPM

Astrocytes	9.4 nTPM
Brain	9.4 nTPM

B-cells	148.6 nTPM
Breast	215.3 nTPM
Colon	201.3 nTPM
Lymph node	188.2 nTPM
Stomach	184.3 nTPM
Adipose tissue	181.5 nTPM
Spleen	157.8 nTPM
Liver	152.7 nTPM
Bone marrow	81.7 nTPM
Kidney	71.4 nTPM
PBMC	51.3 nTPM

Basal squamous epithelial cells	273.8 nTPM
Esophagus	273.8 nTPM

Dendritic cells	205.6 nTPM
Breast	271.5 nTPM
Adipose tissue	237.8 nTPM
PBMC	107.6 nTPM

Endothelial cells	425.5 nTPM
Lung	910.7 nTPM
Pancreas	749.0 nTPM
Ovary	616.2 nTPM
Prostate	597.4 nTPM
Skin	494.0 nTPM
Esophagus	454.5 nTPM
Placenta	413.8 nTPM
Endometrium	383.4 nTPM
Skeletal muscle	315.3 nTPM
Breast	285.9 nTPM
Liver	220.1 nTPM
Testis	203.9 nTPM
Eye	183.6 nTPM
Heart muscle	128.5 nTPM

Enteroendocrine cells	94.0 nTPM
Colon	156.3 nTPM
Rectum	31.6 nTPM

Fibroblasts	345.1 nTPM
Lung	769.6 nTPM
Placenta	603.9 nTPM
Ovary	530.8 nTPM
Stomach	406.9 nTPM
Prostate	338.5 nTPM
Skin	289.8 nTPM
Esophagus	236.3 nTPM
Heart muscle	178.9 nTPM
Breast	176.3 nTPM
Adipose tissue	140.4 nTPM
Skeletal muscle	124.5 nTPM

Intestinal goblet cells	215.8 nTPM
Colon	423.9 nTPM
Rectum	116.1 nTPM
Small intestine	107.4 nTPM

Macrophages	433.2 nTPM
PBMC	2414.4 nTPM
Pancreas	472.1 nTPM
Stomach	457.1 nTPM
Lung	451.1 nTPM
Prostate	346.1 nTPM
Skeletal muscle	321.3 nTPM
Adipose tissue	320.5 nTPM
Endometrium	280.9 nTPM
Spleen	274.8 nTPM
Esophagus	267.5 nTPM
Ovary	235.7 nTPM
Bone marrow	193.7 nTPM
Breast	170.4 nTPM
Kidney	164.2 nTPM
Testis	127.8 nTPM

Paneth cells	258.8 nTPM
Colon	589.6 nTPM
Rectum	100.4 nTPM
Small intestine	86.3 nTPM

Plasma cells	310.9 nTPM
Esophagus	437.2 nTPM
Stomach	387.2 nTPM
Spleen	326.8 nTPM
Bone marrow	206.0 nTPM
Adipose tissue	197.3 nTPM

Respiratory ciliated cells	133.1 nTPM
Lung	172.0 nTPM
Bronchus	94.1 nTPM

Cholangiocytes	120.1 nTPM
Liver	120.1 nTPM

Collecting duct cells	242.8 nTPM
Kidney	242.8 nTPM

Cone photoreceptor cells	10.4 nTPM
Eye	10.4 nTPM

Cytotrophoblasts	263.5 nTPM
Placenta	263.5 nTPM

Smooth muscle cells	516.6 nTPM
Pancreas	1240.4 nTPM
Ovary	1103.2 nTPM
Endometrium	757.9 nTPM
Prostate	600.2 nTPM
Skin	413.3 nTPM
Adipose tissue	350.3 nTPM
Skeletal muscle	325.0 nTPM
Esophagus	317.9 nTPM
Breast	315.5 nTPM
Heart muscle	175.0 nTPM
Bronchus	83.9 nTPM

T-cells	192.0 nTPM
Skin	367.4 nTPM
Esophagus	294.8 nTPM
Lung	293.1 nTPM
Adipose tissue	231.7 nTPM
Skeletal muscle	225.4 nTPM
Endometrium	206.7 nTPM
Stomach	203.5 nTPM
Prostate	194.1 nTPM
Bone marrow	181.8 nTPM
Breast	178.5 nTPM
Colon	173.9 nTPM
Spleen	153.8 nTPM
Ovary	142.3 nTPM
Lymph node	130.2 nTPM
Kidney	126.0 nTPM
Liver	92.6 nTPM
PBMC	67.5 nTPM

Undifferentiated cells	162.7 nTPM
Colon	305.1 nTPM
Small intestine	94.0 nTPM
Rectum	88.9 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