Single cell type - CHMP7 - 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.	CHMP7
Gene descriptionⁱ Full gene name according to HGNC.	Charged multivesicular body protein 7
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.	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	B-cells - Immune response (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	Cell line enhanced (Daudi, U-698)
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

CHMP7 is part of cluster 57 B-cells - Immune response with confidenceⁱ 1
204 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
LTB	Lymphotoxin beta	0.7913	63
BTLA	B and T lymphocyte associated	0.7348	57
CD52	CD52 molecule	0.6872	57
SELL	Selectin L	0.6604	63
ZNF101	Zinc finger protein 101	0.6594	63
SIT1	Signaling threshold regulating transmembrane adaptor 1	0.6558	63
DGKA	Diacylglycerol kinase alpha	0.6402	58
LEF1	Lymphoid enhancer binding factor 1	0.6289	58
LIMD2	LIM domain containing 2	0.6258	63
ARHGAP15	Rho GTPase activating protein 15	0.6241	58
FCMR	Fc fragment of IgM receptor	0.6233	57
CCR9	C-C motif chemokine receptor 9	0.6097	58
CD79B	CD79b molecule	0.6092	57
P2RX5	Purinergic receptor P2X 5	0.6075	57
CD37	CD37 molecule	0.6074	57

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	8.6 nTPM
Breast	10.5 nTPM
Adipose tissue	6.6 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	7.9 nTPM
Lung	7.9 nTPM

Astrocytes	7.2 nTPM
Brain	7.2 nTPM

Basal keratinocytes	13.6 nTPM
Skin	13.6 nTPM

B-cells	48.6 nTPM
PBMC	91.3 nTPM
Kidney	80.9 nTPM
Bone marrow	67.9 nTPM
Spleen	48.2 nTPM
Adipose tissue	44.1 nTPM
Lymph node	42.6 nTPM
Stomach	35.4 nTPM
Liver	27.6 nTPM
Colon	25.5 nTPM
Breast	22.8 nTPM

Dendritic cells	12.7 nTPM
Breast	17.8 nTPM
Adipose tissue	16.3 nTPM
PBMC	4.0 nTPM

Endothelial cells	12.1 nTPM
Placenta	20.5 nTPM
Ovary	20.3 nTPM
Heart muscle	15.1 nTPM
Prostate	13.7 nTPM
Endometrium	13.7 nTPM
Testis	12.2 nTPM
Skeletal muscle	11.9 nTPM
Pancreas	11.6 nTPM
Eye	10.5 nTPM
Esophagus	9.8 nTPM
Breast	9.8 nTPM
Skin	9.3 nTPM
Liver	7.3 nTPM
Lung	3.1 nTPM

Fibroblasts	11.1 nTPM
Prostate	15.6 nTPM
Placenta	13.7 nTPM
Skeletal muscle	13.0 nTPM
Ovary	12.8 nTPM
Esophagus	11.0 nTPM
Heart muscle	10.7 nTPM
Breast	10.6 nTPM
Skin	10.4 nTPM
Stomach	10.4 nTPM
Adipose tissue	9.4 nTPM
Lung	4.5 nTPM

Intestinal goblet cells	13.1 nTPM
Colon	14.3 nTPM
Rectum	13.6 nTPM
Small intestine	11.4 nTPM

Macrophages	13.1 nTPM
Pancreas	20.4 nTPM
Spleen	17.6 nTPM
Kidney	17.5 nTPM
Testis	16.9 nTPM
Ovary	16.6 nTPM
Bone marrow	15.0 nTPM
Skeletal muscle	14.4 nTPM
Esophagus	14.2 nTPM
Stomach	11.7 nTPM
Prostate	11.5 nTPM
Breast	11.2 nTPM
Adipose tissue	10.9 nTPM
Endometrium	10.6 nTPM
Lung	8.2 nTPM
PBMC	0.0 nTPM

Paneth cells	12.4 nTPM
Small intestine	18.8 nTPM
Rectum	11.9 nTPM
Colon	6.5 nTPM

Plasma cells	24.0 nTPM
Stomach	41.6 nTPM
Spleen	40.6 nTPM
Bone marrow	23.0 nTPM
Adipose tissue	8.4 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	7.1 nTPM
Bronchus	8.5 nTPM
Lung	5.8 nTPM

Smooth muscle cells	13.1 nTPM
Pancreas	30.0 nTPM
Ovary	16.5 nTPM
Prostate	15.0 nTPM
Heart muscle	14.8 nTPM
Esophagus	12.4 nTPM
Skeletal muscle	12.0 nTPM
Skin	11.8 nTPM
Endometrium	11.7 nTPM
Breast	9.4 nTPM
Adipose tissue	6.4 nTPM
Bronchus	3.7 nTPM

Collecting duct cells	14.7 nTPM
Kidney	14.7 nTPM

Cone photoreceptor cells	4.2 nTPM
Eye	4.2 nTPM

Cytotrophoblasts	15.8 nTPM
Placenta	15.8 nTPM

Distal tubular cells	19.6 nTPM
Kidney	19.6 nTPM

T-cells	25.7 nTPM
PBMC	84.2 nTPM
Kidney	38.3 nTPM
Colon	35.1 nTPM
Lymph node	34.7 nTPM
Bone marrow	33.3 nTPM
Spleen	32.3 nTPM
Stomach	23.2 nTPM
Liver	21.3 nTPM
Esophagus	19.7 nTPM
Adipose tissue	18.4 nTPM
Breast	18.1 nTPM
Ovary	17.8 nTPM
Skin	15.7 nTPM
Skeletal muscle	15.7 nTPM
Endometrium	12.7 nTPM
Prostate	9.5 nTPM
Lung	7.6 nTPM

Undifferentiated cells	10.8 nTPM
Small intestine	12.5 nTPM
Rectum	11.9 nTPM
Colon	8.1 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