Single cell type - CASP3 - 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.	CASP3
Gene descriptionⁱ Full gene name according to HGNC.	Caspase 3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Enzymes FDA approved drug targets 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.	6

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	Plasma cells - Humoral 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	Cell type enhanced (Plasma 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	Group enriched (basophil, eosinophil)
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 (Karpas-707)
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 (Plasma 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

CASP3 is part of cluster 55 Plasma cells - Humoral immune response with confidenceⁱ 1
379 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
PRDM1	PR/SET domain 1	0.5981	55
TPST2	Tyrosylprotein sulfotransferase 2	0.5899	55
EMD	Emerin	0.5749	24
TM9SF1	Transmembrane 9 superfamily member 1	0.5590	55
RAB43	RAB43, member RAS oncogene family	0.5547	59
TVP23B	Trans-golgi network vesicle protein 23 homolog B	0.5370	26
IGHV3-43	Immunoglobulin heavy variable 3-43	0.5315	55
IGHV1-69	Immunoglobulin heavy variable 1-69	0.5289	55
MEF2B	Myocyte enhancer factor 2B	0.5266	55
VPS37B	VPS37B subunit of ESCRT-I	0.5251	24
IGKV2D-24	Immunoglobulin kappa variable 2D-24 (non-functional)	0.5218	55
IGKV2D-30	Immunoglobulin kappa variable 2D-30	0.5191	55
BHLHA15	Basic helix-loop-helix family member a15	0.5166	55
ZBP1	Z-DNA binding protein 1	0.5154	55
IGLV9-49	Immunoglobulin lambda variable 9-49	0.5142	55

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	28.6 nTPM
Adipose tissue	34.0 nTPM
Breast	23.1 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	15.8 nTPM
Lung	15.8 nTPM

Astrocytes	26.4 nTPM
Brain	26.4 nTPM

B-cells	32.3 nTPM
Liver	73.4 nTPM
Adipose tissue	51.2 nTPM
Lymph node	41.3 nTPM
Breast	36.0 nTPM
Spleen	29.0 nTPM
Colon	25.5 nTPM
Stomach	20.4 nTPM
PBMC	17.1 nTPM
Bone marrow	14.7 nTPM
Kidney	14.3 nTPM

Dendritic cells	54.8 nTPM
Adipose tissue	101.4 nTPM
Breast	59.1 nTPM
PBMC	4.0 nTPM

Endothelial cells	26.6 nTPM
Prostate	50.7 nTPM
Pancreas	38.6 nTPM
Esophagus	36.6 nTPM
Placenta	30.1 nTPM
Ovary	29.9 nTPM
Skin	26.9 nTPM
Eye	25.1 nTPM
Lung	24.9 nTPM
Endometrium	23.6 nTPM
Skeletal muscle	21.6 nTPM
Breast	20.3 nTPM
Heart muscle	17.6 nTPM
Testis	13.6 nTPM
Liver	12.8 nTPM

Fibroblasts	19.5 nTPM
Adipose tissue	28.8 nTPM
Stomach	28.2 nTPM
Placenta	24.8 nTPM
Prostate	22.0 nTPM
Ovary	21.1 nTPM
Skeletal muscle	19.5 nTPM
Skin	16.0 nTPM
Esophagus	16.0 nTPM
Lung	14.5 nTPM
Heart muscle	13.4 nTPM
Breast	10.1 nTPM

Intestinal goblet cells	37.6 nTPM
Rectum	44.7 nTPM
Colon	43.6 nTPM
Small intestine	24.6 nTPM

Macrophages	33.3 nTPM
PBMC	122.7 nTPM
Ovary	52.7 nTPM
Adipose tissue	45.3 nTPM
Stomach	35.1 nTPM
Breast	32.5 nTPM
Spleen	27.0 nTPM
Kidney	24.2 nTPM
Skeletal muscle	24.1 nTPM
Lung	24.0 nTPM
Endometrium	22.2 nTPM
Pancreas	20.4 nTPM
Bone marrow	20.0 nTPM
Prostate	18.4 nTPM
Testis	16.3 nTPM
Esophagus	14.2 nTPM

Paneth cells	18.8 nTPM
Colon	23.1 nTPM
Rectum	22.0 nTPM
Small intestine	11.3 nTPM

Plasma cells	118.6 nTPM
Stomach	181.6 nTPM
Spleen	125.9 nTPM
Esophagus	110.8 nTPM
Bone marrow	97.2 nTPM
Adipose tissue	77.4 nTPM

Respiratory ciliated cells	30.4 nTPM
Bronchus	33.2 nTPM
Lung	27.7 nTPM

Smooth muscle cells	20.8 nTPM
Pancreas	26.7 nTPM
Esophagus	26.4 nTPM
Adipose tissue	25.5 nTPM
Ovary	23.6 nTPM
Skeletal muscle	22.4 nTPM
Endometrium	21.4 nTPM
Breast	20.2 nTPM
Skin	19.2 nTPM
Prostate	16.2 nTPM
Heart muscle	14.5 nTPM
Bronchus	13.0 nTPM

T-cells	43.8 nTPM
Adipose tissue	93.4 nTPM
Esophagus	72.0 nTPM
Colon	62.2 nTPM
Breast	57.9 nTPM
Spleen	55.5 nTPM
Stomach	51.2 nTPM
Lymph node	46.1 nTPM
Prostate	42.6 nTPM
Skin	40.6 nTPM
Endometrium	39.9 nTPM
Skeletal muscle	38.8 nTPM
Bone marrow	30.6 nTPM
Liver	29.4 nTPM
Kidney	27.4 nTPM
Lung	19.7 nTPM
PBMC	19.5 nTPM
Ovary	17.8 nTPM

Basal keratinocytes	48.7 nTPM
Skin	48.7 nTPM

Basal respiratory cells	34.1 nTPM
Bronchus	34.1 nTPM

Basal squamous epithelial cells	35.9 nTPM
Esophagus	35.9 nTPM

Cholangiocytes	5.7 nTPM
Liver	5.7 nTPM

Undifferentiated cells	24.4 nTPM
Colon	26.7 nTPM
Rectum	26.7 nTPM
Small intestine	19.8 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