Single cell type - CALHM2 - 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.	CALHM2
Gene descriptionⁱ Full gene name according to HGNC.	Calcium homeostasis modulator family member 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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	Membrane
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	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	Cell type enhanced (Extravillous trophoblasts, Hofbauer cells, Hepatic stellate cells, Leydig cells, Fibroblasts)
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 (ASC TERT1, BJ, BJ hTERT+, fHDF/TERT166)
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 (Extravillous trophoblasts, Hofbauer cells, Hepatic stellate cells, Leydig cells, Fibroblasts)

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

CALHM2 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
PROCR	Protein C receptor	0.6752	50
CMTM3	CKLF like MARVEL transmembrane domain containing 3	0.6362	40
MMP2	Matrix metallopeptidase 2	0.6155	50
OLFML1	Olfactomedin like 1	0.6123	50
MXRA8	Matrix remodeling associated 8	0.6024	50
PRELP	Proline and arginine rich end leucine rich repeat protein	0.5987	50
LAMA4	Laminin subunit alpha 4	0.5885	50
IGFBP5	Insulin like growth factor binding protein 5	0.5843	48
C1QTNF7	C1q and TNF related 7	0.5799	50
SOD3	Superoxide dismutase 3	0.5711	50
TMEM43	Transmembrane protein 43	0.5705	50
CTSK	Cathepsin K	0.5679	50
SCARA5	Scavenger receptor class A member 5	0.5679	50
CRTAP	Cartilage associated protein	0.5665	48
ABI3BP	ABI family member 3 binding protein	0.5605	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	18.2 nTPM
Breast	23.7 nTPM
Adipose tissue	12.6 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	0.6 nTPM
Lung	0.6 nTPM

Astrocytes	1.0 nTPM
Brain	1.0 nTPM

B-cells	4.9 nTPM
Bone marrow	9.0 nTPM
Spleen	7.2 nTPM
Stomach	5.4 nTPM
Breast	5.3 nTPM
Kidney	4.8 nTPM
Adipose tissue	4.5 nTPM
Lymph node	4.1 nTPM
Colon	3.2 nTPM
PBMC	2.8 nTPM
Liver	2.5 nTPM

Dendritic cells	11.3 nTPM
Breast	21.5 nTPM
Adipose tissue	8.4 nTPM
PBMC	4.0 nTPM

Endothelial cells	25.5 nTPM
Testis	71.7 nTPM
Liver	53.2 nTPM
Esophagus	42.9 nTPM
Breast	34.2 nTPM
Skin	25.3 nTPM
Lung	21.8 nTPM
Ovary	19.7 nTPM
Endometrium	18.4 nTPM
Heart muscle	17.4 nTPM
Placenta	15.9 nTPM
Skeletal muscle	14.0 nTPM
Prostate	12.4 nTPM
Eye	5.7 nTPM
Pancreas	3.9 nTPM

Fibroblasts	38.2 nTPM
Adipose tissue	72.1 nTPM
Stomach	69.8 nTPM
Esophagus	56.6 nTPM
Skeletal muscle	46.6 nTPM
Heart muscle	45.8 nTPM
Skin	44.2 nTPM
Breast	34.1 nTPM
Placenta	19.6 nTPM
Prostate	15.8 nTPM
Ovary	9.0 nTPM
Lung	6.7 nTPM

Intestinal goblet cells	0.1 nTPM
Rectum	0.4 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Macrophages	21.5 nTPM
Testis	52.3 nTPM
Kidney	46.8 nTPM
Bone marrow	41.2 nTPM
Ovary	29.1 nTPM
Skeletal muscle	18.7 nTPM
Esophagus	15.8 nTPM
Breast	15.5 nTPM
Pancreas	15.3 nTPM
Stomach	14.7 nTPM
Lung	14.1 nTPM
PBMC	13.6 nTPM
Spleen	12.5 nTPM
Adipose tissue	11.5 nTPM
Endometrium	10.9 nTPM
Prostate	10.3 nTPM

Paneth cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	3.1 nTPM
Esophagus	6.1 nTPM
Adipose tissue	3.3 nTPM
Stomach	2.4 nTPM
Spleen	1.9 nTPM
Bone marrow	1.7 nTPM

Respiratory ciliated cells	0.0 nTPM
Lung	0.0 nTPM
Bronchus	0.0 nTPM

Smooth muscle cells	27.9 nTPM
Skin	47.1 nTPM
Esophagus	46.5 nTPM
Skeletal muscle	35.6 nTPM
Heart muscle	33.6 nTPM
Prostate	33.4 nTPM
Adipose tissue	30.1 nTPM
Breast	29.1 nTPM
Ovary	18.1 nTPM
Pancreas	17.8 nTPM
Endometrium	15.2 nTPM
Bronchus	0.0 nTPM

T-cells	19.4 nTPM
Kidney	42.4 nTPM
Bone marrow	36.0 nTPM
Skin	31.3 nTPM
Esophagus	26.2 nTPM
Liver	25.6 nTPM
Skeletal muscle	23.6 nTPM
Ovary	22.3 nTPM
Stomach	19.8 nTPM
Breast	19.5 nTPM
Lung	18.2 nTPM
PBMC	15.2 nTPM
Spleen	15.2 nTPM
Colon	13.3 nTPM
Endometrium	8.1 nTPM
Adipose tissue	7.7 nTPM
Lymph node	5.5 nTPM
Prostate	0.0 nTPM

Basal prostatic cells	2.9 nTPM
Prostate	2.9 nTPM

Cholangiocytes	1.5 nTPM
Liver	1.5 nTPM

Collecting duct cells	3.7 nTPM
Kidney	3.7 nTPM

Excitatory neurons	2.3 nTPM
Brain	2.3 nTPM

Undifferentiated cells	0.0 nTPM
Rectum	0.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 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