Single cell type - CASP1 - 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.	CASP1
Gene descriptionⁱ Full gene name according to HGNC.	Caspase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Enzymes
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.	12

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	Monocytes & Neutrophils - Innate 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 (monocytes, Macrophages, Kupffer cells, Langerhans cells, Proximal enterocytes)
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 (BJ hTERT+, HBEC3-KT, HHSteC, U-937)
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 (monocytes, Macrophages, Kupffer cells, Langerhans cells, Proximal enterocytes)

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

CASP1 is part of cluster 19 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 1
175 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
AIF1	Allograft inflammatory factor 1	0.7897	19
MNDA	Myeloid cell nuclear differentiation antigen	0.7685	19
PRAM1	PML-RARA regulated adaptor molecule 1	0.7567	19
LST1	Leukocyte specific transcript 1	0.7534	19
LTA4H	Leukotriene A4 hydrolase	0.7474	19
OSCAR	Osteoclast associated Ig-like receptor	0.7393	19
LILRA2	Leukocyte immunoglobulin like receptor A2	0.7332	19
CLEC4A	C-type lectin domain family 4 member A	0.7322	19
CLEC4D	C-type lectin domain family 4 member D	0.7301	19
TLR8	Toll like receptor 8	0.7296	19
CLEC12A	C-type lectin domain family 12 member A	0.7259	19
NCF2	Neutrophil cytosolic factor 2	0.7236	19
FCN1	Ficolin 1	0.7234	19
SIRPB1	Signal regulatory protein beta 1	0.7213	19
S100Z	S100 calcium binding protein Z	0.7189	19

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	26.3 nTPM
Breast	35.2 nTPM
Adipose tissue	17.3 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	30.0 nTPM
Lung	30.0 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	27.2 nTPM
Bone marrow	45.8 nTPM
Colon	44.8 nTPM
PBMC	40.0 nTPM
Spleen	28.3 nTPM
Liver	25.4 nTPM
Kidney	23.8 nTPM
Breast	20.0 nTPM
Lymph node	18.4 nTPM
Stomach	15.5 nTPM
Adipose tissue	9.6 nTPM

Dendritic cells	34.1 nTPM
Breast	58.3 nTPM
Adipose tissue	40.1 nTPM
PBMC	4.0 nTPM

Endothelial cells	24.0 nTPM
Heart muscle	51.4 nTPM
Lung	34.3 nTPM
Prostate	33.3 nTPM
Esophagus	28.4 nTPM
Testis	26.4 nTPM
Eye	25.9 nTPM
Skeletal muscle	24.7 nTPM
Liver	22.0 nTPM
Skin	21.6 nTPM
Breast	20.8 nTPM
Pancreas	15.5 nTPM
Endometrium	13.2 nTPM
Placenta	11.3 nTPM
Ovary	7.8 nTPM

Fibroblasts	17.8 nTPM
Lung	48.0 nTPM
Esophagus	22.8 nTPM
Breast	22.0 nTPM
Skin	20.6 nTPM
Placenta	19.3 nTPM
Stomach	14.9 nTPM
Heart muscle	13.9 nTPM
Skeletal muscle	13.7 nTPM
Adipose tissue	9.9 nTPM
Ovary	5.6 nTPM
Prostate	5.0 nTPM

Intestinal goblet cells	50.6 nTPM
Small intestine	84.4 nTPM
Colon	42.2 nTPM
Rectum	25.3 nTPM

Macrophages	136.6 nTPM
Kidney	260.9 nTPM
Spleen	227.0 nTPM
Bone marrow	206.1 nTPM
Prostate	189.1 nTPM
Lung	179.3 nTPM
Stomach	152.3 nTPM
Testis	136.5 nTPM
Esophagus	116.4 nTPM
Adipose tissue	113.7 nTPM
Skeletal muscle	107.4 nTPM
Breast	101.0 nTPM
Pancreas	99.5 nTPM
Endometrium	75.5 nTPM
Ovary	70.3 nTPM
PBMC	13.6 nTPM

Paneth cells	73.4 nTPM
Small intestine	142.7 nTPM
Rectum	54.3 nTPM
Colon	23.1 nTPM

Plasma cells	20.0 nTPM
Bone marrow	31.3 nTPM
Spleen	25.3 nTPM
Stomach	20.6 nTPM
Esophagus	12.3 nTPM
Adipose tissue	10.3 nTPM

Respiratory ciliated cells	28.4 nTPM
Bronchus	43.7 nTPM
Lung	13.1 nTPM

Smooth muscle cells	8.1 nTPM
Bronchus	29.8 nTPM
Heart muscle	21.9 nTPM
Breast	8.5 nTPM
Pancreas	6.2 nTPM
Skin	5.6 nTPM
Prostate	5.3 nTPM
Esophagus	4.6 nTPM
Adipose tissue	3.3 nTPM
Skeletal muscle	2.4 nTPM
Ovary	1.1 nTPM
Endometrium	0.9 nTPM

T-cells	58.4 nTPM
Kidney	125.2 nTPM
Ovary	113.5 nTPM
Bone marrow	82.0 nTPM
Liver	77.6 nTPM
Lung	75.9 nTPM
PBMC	68.0 nTPM
Spleen	66.5 nTPM
Prostate	61.6 nTPM
Colon	49.0 nTPM
Breast	47.7 nTPM
Stomach	39.8 nTPM
Adipose tissue	37.0 nTPM
Skeletal muscle	35.0 nTPM
Esophagus	32.8 nTPM
Skin	32.3 nTPM
Lymph node	30.1 nTPM
Endometrium	18.5 nTPM

Basal keratinocytes	26.0 nTPM
Skin	26.0 nTPM

Basal prostatic cells	42.5 nTPM
Prostate	42.5 nTPM

Basal respiratory cells	91.5 nTPM
Bronchus	91.5 nTPM

Basal squamous epithelial cells	14.2 nTPM
Esophagus	14.2 nTPM

Undifferentiated cells	90.5 nTPM
Small intestine	162.7 nTPM
Colon	86.4 nTPM
Rectum	22.5 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