Single cell type - CHMP5 - 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.	CHMP5
Gene descriptionⁱ Full gene name according to HGNC.	Charged multivesicular body protein 5
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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.	2

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	Respiratory epithelial cells - Mucosal defense (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

CHMP5 is part of cluster 26 Respiratory epithelial cells - Mucosal defense with confidenceⁱ 1
293 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
MYL12B	Myosin light chain 12B	0.6632	16
SDR16C5	Short chain dehydrogenase/reductase family 16C member 5	0.6223	26
MSLN	Mesothelin	0.6222	26
C4orf3	Chromosome 4 open reading frame 3	0.6184	26
DEFB4A	Defensin beta 4A	0.6039	16
IL36G	Interleukin 36 gamma	0.6025	26
SPRR1B	Small proline rich protein 1B	0.6003	16
PRSS22	Serine protease 22	0.5991	26
SDCBP2	Syndecan binding protein 2	0.5954	16
PORCN	Porcupine O-acyltransferase	0.5918	26
DHRS9	Dehydrogenase/reductase 9	0.5916	53
DEFB4B	Defensin beta 4B	0.5825	16
NMB	Neuromedin B	0.5769	26
CCL20	C-C motif chemokine ligand 20	0.5707	26
SERPINB7	Serpin family B member 7	0.5702	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	182.7 nTPM
Breast	203.4 nTPM
Adipose tissue	161.9 nTPM

Alveolar cells type 1	89.8 nTPM
Lung	89.8 nTPM

Alveolar cells type 2	59.0 nTPM
Lung	59.0 nTPM

Astrocytes	14.0 nTPM
Brain	14.0 nTPM

B-cells	52.9 nTPM
Kidney	85.7 nTPM
Colon	67.1 nTPM
PBMC	61.4 nTPM
Breast	56.2 nTPM
Lymph node	55.6 nTPM
Liver	44.3 nTPM
Spleen	41.2 nTPM
Adipose tissue	40.7 nTPM
Stomach	39.5 nTPM
Bone marrow	37.6 nTPM

Dendritic cells	77.4 nTPM
PBMC	123.5 nTPM
Breast	67.0 nTPM
Adipose tissue	41.5 nTPM

Endothelial cells	133.8 nTPM
Prostate	200.5 nTPM
Skin	162.9 nTPM
Pancreas	154.4 nTPM
Skeletal muscle	152.6 nTPM
Breast	150.9 nTPM
Liver	147.7 nTPM
Testis	147.2 nTPM
Placenta	146.0 nTPM
Eye	125.4 nTPM
Esophagus	116.8 nTPM
Ovary	107.0 nTPM
Endometrium	90.6 nTPM
Heart muscle	90.3 nTPM
Lung	81.1 nTPM

Fibroblasts	104.4 nTPM
Placenta	184.8 nTPM
Prostate	136.1 nTPM
Adipose tissue	125.5 nTPM
Breast	124.5 nTPM
Skin	113.0 nTPM
Esophagus	111.6 nTPM
Stomach	93.6 nTPM
Skeletal muscle	83.7 nTPM
Ovary	69.1 nTPM
Lung	56.9 nTPM
Heart muscle	49.8 nTPM

Intestinal goblet cells	137.9 nTPM
Colon	144.4 nTPM
Rectum	136.4 nTPM
Small intestine	133.1 nTPM

Macrophages	95.3 nTPM
Ovary	139.8 nTPM
Kidney	135.3 nTPM
Testis	111.6 nTPM
Spleen	103.7 nTPM
Lung	99.4 nTPM
Bone marrow	98.7 nTPM
Prostate	96.2 nTPM
Endometrium	96.0 nTPM
Breast	92.4 nTPM
Esophagus	91.2 nTPM
PBMC	81.8 nTPM
Pancreas	79.2 nTPM
Adipose tissue	78.0 nTPM
Stomach	64.5 nTPM
Skeletal muscle	61.4 nTPM

Paneth cells	247.9 nTPM
Colon	388.7 nTPM
Small intestine	221.5 nTPM
Rectum	133.5 nTPM

Plasma cells	45.2 nTPM
Esophagus	74.0 nTPM
Stomach	55.7 nTPM
Spleen	40.9 nTPM
Bone marrow	29.7 nTPM
Adipose tissue	25.8 nTPM

Respiratory ciliated cells	328.9 nTPM
Bronchus	500.4 nTPM
Lung	157.4 nTPM

Smooth muscle cells	130.0 nTPM
Bronchus	172.0 nTPM
Pancreas	171.0 nTPM
Prostate	144.7 nTPM
Skin	132.8 nTPM
Skeletal muscle	132.4 nTPM
Breast	130.4 nTPM
Ovary	128.3 nTPM
Adipose tissue	117.2 nTPM
Heart muscle	109.5 nTPM
Esophagus	103.9 nTPM
Endometrium	88.0 nTPM

T-cells	68.5 nTPM
Ovary	111.2 nTPM
Kidney	96.5 nTPM
Prostate	94.7 nTPM
Skin	94.4 nTPM
Breast	78.3 nTPM
Liver	74.4 nTPM
Colon	66.6 nTPM
Lymph node	66.3 nTPM
Endometrium	65.7 nTPM
Lung	59.2 nTPM
PBMC	57.0 nTPM
Stomach	55.8 nTPM
Skeletal muscle	53.0 nTPM
Spleen	52.5 nTPM
Adipose tissue	52.2 nTPM
Bone marrow	48.2 nTPM
Esophagus	39.3 nTPM

Basal keratinocytes	188.1 nTPM
Skin	188.1 nTPM

Basal prostatic cells	156.2 nTPM
Prostate	156.2 nTPM

Basal respiratory cells	372.5 nTPM
Bronchus	372.5 nTPM

Collecting duct cells	110.3 nTPM
Kidney	110.3 nTPM

Undifferentiated cells	78.5 nTPM
Rectum	81.8 nTPM
Colon	80.1 nTPM
Small intestine	73.5 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