Single cell type - SCARB2 - 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.	SCARB2
Gene descriptionⁱ Full gene name according to HGNC.	Scavenger receptor class B member 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes Potential drug targets 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.	10

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	Glandular cells - Unknown function (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	Group enriched (plasmacytoid DC, intermediate monocyte, non-classical monocyte, classical monocyte, basophil, myeloid DC)
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 diff)
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: 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

SCARB2 is part of cluster 35 Glandular cells - Unknown function with confidenceⁱ 1
101 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
LAMP2	Lysosomal associated membrane protein 2	0.5196	26
MSMB	Microseminoprotein beta	0.4769	35
GLMP	Glycosylated lysosomal membrane protein	0.4765	4
YIPF3	Yip1 domain family member 3	0.4608	55
KLK3	Kallikrein related peptidase 3	0.4515	35
KLK2	Kallikrein related peptidase 2	0.4459	35
KLK4	Kallikrein related peptidase 4	0.4404	35
MAGT1	Magnesium transporter 1	0.4402	55
NKX3-1	NK3 homeobox 1	0.4367	35
CREB3L2	CAMP responsive element binding protein 3 like 2	0.4297	65
ATP6AP2	ATPase H+ transporting accessory protein 2	0.4241	4
LMAN1	Lectin, mannose binding 1	0.4227	55
IFNAR1	Interferon alpha and beta receptor subunit 1	0.4207	55
BMF	Bcl2 modifying factor	0.4198	1
TMED10	Transmembrane p24 trafficking protein 10	0.4167	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	89.0 nTPM
Adipose tissue	96.4 nTPM
Breast	81.6 nTPM

Alveolar cells type 1	176.3 nTPM
Lung	176.3 nTPM

Alveolar cells type 2	52.4 nTPM
Lung	52.4 nTPM

Astrocytes	47.3 nTPM
Brain	47.3 nTPM

B-cells	20.1 nTPM
Breast	50.9 nTPM
Liver	43.5 nTPM
Kidney	19.0 nTPM
Adipose tissue	17.6 nTPM
Colon	16.0 nTPM
Spleen	15.6 nTPM
Bone marrow	10.6 nTPM
Lymph node	10.1 nTPM
Stomach	9.6 nTPM
PBMC	8.5 nTPM

Dendritic cells	43.6 nTPM
PBMC	91.6 nTPM
Adipose tissue	23.1 nTPM
Breast	16.0 nTPM

Endothelial cells	69.9 nTPM
Endometrium	95.6 nTPM
Heart muscle	93.6 nTPM
Lung	81.1 nTPM
Eye	79.3 nTPM
Ovary	78.6 nTPM
Placenta	78.4 nTPM
Testis	73.1 nTPM
Prostate	72.2 nTPM
Skeletal muscle	68.6 nTPM
Breast	67.8 nTPM
Esophagus	58.0 nTPM
Skin	55.7 nTPM
Liver	49.5 nTPM
Pancreas	27.0 nTPM

Enteroendocrine cells	102.4 nTPM
Colon	110.1 nTPM
Rectum	94.7 nTPM

Fibroblasts	108.3 nTPM
Prostate	198.8 nTPM
Stomach	164.9 nTPM
Esophagus	163.6 nTPM
Adipose tissue	117.3 nTPM
Heart muscle	101.1 nTPM
Breast	92.7 nTPM
Skeletal muscle	91.6 nTPM
Skin	75.4 nTPM
Ovary	75.0 nTPM
Placenta	65.1 nTPM
Lung	45.8 nTPM

Intestinal goblet cells	77.1 nTPM
Rectum	93.9 nTPM
Small intestine	73.7 nTPM
Colon	63.7 nTPM

Macrophages	76.2 nTPM
Ovary	159.9 nTPM
Spleen	136.9 nTPM
Bone marrow	127.5 nTPM
Prostate	95.2 nTPM
Pancreas	94.4 nTPM
Kidney	76.3 nTPM
Adipose tissue	65.9 nTPM
Esophagus	62.9 nTPM
Lung	60.0 nTPM
Stomach	55.7 nTPM
Endometrium	53.3 nTPM
Testis	52.9 nTPM
Breast	51.9 nTPM
Skeletal muscle	50.9 nTPM
PBMC	0.0 nTPM

Paneth cells	68.3 nTPM
Colon	75.8 nTPM
Rectum	73.0 nTPM
Small intestine	56.3 nTPM

Plasma cells	82.2 nTPM
Stomach	114.0 nTPM
Esophagus	86.2 nTPM
Spleen	82.5 nTPM
Bone marrow	77.4 nTPM
Adipose tissue	51.0 nTPM

Respiratory ciliated cells	54.4 nTPM
Bronchus	59.3 nTPM
Lung	49.5 nTPM

Smooth muscle cells	68.1 nTPM
Pancreas	125.3 nTPM
Adipose tissue	104.8 nTPM
Ovary	99.8 nTPM
Heart muscle	88.3 nTPM
Endometrium	63.1 nTPM
Prostate	61.6 nTPM
Breast	58.1 nTPM
Skeletal muscle	53.1 nTPM
Esophagus	38.8 nTPM
Skin	37.7 nTPM
Bronchus	18.9 nTPM

Basal keratinocytes	24.0 nTPM
Skin	24.0 nTPM

Basal prostatic cells	90.5 nTPM
Prostate	90.5 nTPM

Basal respiratory cells	64.8 nTPM
Bronchus	64.8 nTPM

Basal squamous epithelial cells	34.1 nTPM
Esophagus	34.1 nTPM

T-cells	16.3 nTPM
Prostate	42.6 nTPM
Endometrium	29.8 nTPM
Adipose tissue	25.9 nTPM
Skin	24.4 nTPM
Ovary	20.1 nTPM
Breast	18.4 nTPM
Lung	16.7 nTPM
Kidney	13.1 nTPM
Skeletal muscle	12.2 nTPM
Colon	11.4 nTPM
Lymph node	10.5 nTPM
Stomach	10.4 nTPM
Liver	10.1 nTPM
Spleen	9.3 nTPM
Bone marrow	8.8 nTPM
PBMC	7.6 nTPM
Esophagus	6.6 nTPM

Undifferentiated cells	55.3 nTPM
Rectum	67.7 nTPM
Small intestine	51.8 nTPM
Colon	46.4 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