Single cell type - CALM1 - 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.	CALM1
Gene descriptionⁱ Full gene name according to HGNC.	Calmodulin 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes FDA approved drug targets Human disease related genes Metabolic proteins RAS pathway related 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	Non-specific - Mitochondria (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

CALM1 is part of cluster 7 Non-specific - Mitochondria with confidenceⁱ 1
481 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
FYB1	FYN binding protein 1	0.5656	7
TGFB1	Transforming growth factor beta 1	0.5448	7
GPR174	G protein-coupled receptor 174	0.5219	7
RUNX3	RUNX family transcription factor 3	0.5167	24
SELENOK	Selenoprotein K	0.5101	7
SHISAL2A	Shisa like 2A	0.5036	7
BICDL1	BICD family like cargo adaptor 1	0.5005	24
CARMIL2	Capping protein regulator and myosin 1 linker 2	0.4989	7
CERK	Ceramide kinase	0.4953	24
TENT5C	Terminal nucleotidyltransferase 5C	0.4922	7
GZMK	Granzyme K	0.4855	24
PTGER4	Prostaglandin E receptor 4	0.4780	24
OR4D1	Olfactory receptor family 4 subfamily D member 1	0.4774	7
CRTAM	Cytotoxic and regulatory T cell molecule	0.4715	24
SLA	Src like adaptor	0.4702	24

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	1812.3 nTPM
Breast	1984.0 nTPM
Adipose tissue	1640.6 nTPM

Alveolar cells type 1	387.8 nTPM
Lung	387.8 nTPM

Alveolar cells type 2	374.4 nTPM
Lung	374.4 nTPM

Astrocytes	119.8 nTPM
Brain	119.8 nTPM

B-cells	573.2 nTPM
Adipose tissue	1242.7 nTPM
Lymph node	913.1 nTPM
Breast	718.3 nTPM
Stomach	568.6 nTPM
Liver	513.5 nTPM
Spleen	464.8 nTPM
Colon	385.0 nTPM
PBMC	322.6 nTPM
Kidney	319.0 nTPM
Bone marrow	284.5 nTPM

Basal squamous epithelial cells	543.5 nTPM
Esophagus	543.5 nTPM

Dendritic cells	1471.8 nTPM
Adipose tissue	2265.0 nTPM
Breast	1839.5 nTPM
PBMC	310.9 nTPM

Endothelial cells	996.0 nTPM
Ovary	2375.8 nTPM
Pancreas	1579.0 nTPM
Heart muscle	1313.3 nTPM
Skeletal muscle	1124.6 nTPM
Breast	1089.1 nTPM
Eye	993.6 nTPM
Placenta	854.4 nTPM
Lung	832.7 nTPM
Skin	781.5 nTPM
Esophagus	757.5 nTPM
Testis	588.1 nTPM
Endometrium	585.3 nTPM
Prostate	559.7 nTPM
Liver	509.0 nTPM

Enteroendocrine cells	599.8 nTPM
Colon	614.7 nTPM
Rectum	584.9 nTPM

Erythroid cells	143.5 nTPM
Liver	155.0 nTPM
Bone marrow	132.0 nTPM

Fibroblasts	521.4 nTPM
Heart muscle	1052.9 nTPM
Lung	688.1 nTPM
Breast	599.0 nTPM
Adipose tissue	592.3 nTPM
Esophagus	541.8 nTPM
Skin	508.7 nTPM
Skeletal muscle	486.5 nTPM
Stomach	408.3 nTPM
Prostate	300.2 nTPM
Ovary	280.8 nTPM
Placenta	276.5 nTPM

Intestinal goblet cells	513.9 nTPM
Colon	683.3 nTPM
Small intestine	463.0 nTPM
Rectum	395.3 nTPM

Macrophages	639.9 nTPM
Lung	1148.2 nTPM
Breast	1105.8 nTPM
Pancreas	857.6 nTPM
PBMC	832.1 nTPM
Adipose tissue	827.0 nTPM
Endometrium	656.7 nTPM
Ovary	632.4 nTPM
Prostate	555.9 nTPM
Esophagus	530.3 nTPM
Skeletal muscle	510.0 nTPM
Kidney	509.7 nTPM
Testis	484.5 nTPM
Stomach	357.5 nTPM
Bone marrow	319.8 nTPM
Spleen	270.6 nTPM

Paneth cells	615.8 nTPM
Colon	816.9 nTPM
Small intestine	578.2 nTPM
Rectum	452.2 nTPM

Plasma cells	591.8 nTPM
Adipose tissue	736.6 nTPM
Esophagus	652.9 nTPM
Spleen	566.0 nTPM
Bone marrow	517.5 nTPM
Stomach	486.1 nTPM

Cholangiocytes	346.0 nTPM
Liver	346.0 nTPM

Collecting duct cells	399.1 nTPM
Kidney	399.1 nTPM

Cone photoreceptor cells	123.0 nTPM
Eye	123.0 nTPM

Cytotrophoblasts	427.7 nTPM
Placenta	427.7 nTPM

Respiratory ciliated cells	1618.4 nTPM
Lung	2136.7 nTPM
Bronchus	1100.1 nTPM

Smooth muscle cells	901.6 nTPM
Bronchus	2749.8 nTPM
Heart muscle	1644.5 nTPM
Breast	860.1 nTPM
Pancreas	756.3 nTPM
Esophagus	741.1 nTPM
Skeletal muscle	619.1 nTPM
Skin	577.6 nTPM
Prostate	560.5 nTPM
Adipose tissue	540.2 nTPM
Endometrium	448.5 nTPM
Ovary	420.1 nTPM

T-cells	1139.3 nTPM
Adipose tissue	2629.5 nTPM
Breast	1872.9 nTPM
Skeletal muscle	1634.7 nTPM
Ovary	1352.4 nTPM
Lung	1146.6 nTPM
Lymph node	1088.3 nTPM
Endometrium	1076.3 nTPM
Esophagus	1074.3 nTPM
Skin	1062.3 nTPM
Stomach	984.3 nTPM
Kidney	954.8 nTPM
Spleen	894.5 nTPM
Prostate	795.3 nTPM
PBMC	761.4 nTPM
Bone marrow	753.6 nTPM
Liver	692.0 nTPM
Colon	595.4 nTPM

Undifferentiated cells	666.6 nTPM
Colon	767.0 nTPM
Small intestine	712.8 nTPM
Rectum	519.9 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