Single cell type - SCARB1 - 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.	SCARB1
Gene descriptionⁱ Full gene name according to HGNC.	Scavenger receptor class B member 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Metabolic proteins 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	Intracellular,Membrane
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	Granulosa 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	Cell type enhanced (Hepatocytes, Adipocytes, Granulosa 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 (plasmacytoid DC, myeloid DC, classical monocyte)
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 some
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 (RPMI-8226)
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 (Hepatocytes, Adipocytes, Granulosa 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

SCARB1 is part of cluster 40 Granulosa cells - Unknown function with confidenceⁱ 1
316 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
TM7SF2	Transmembrane 7 superfamily member 2	0.6642	40
TMEM97	Transmembrane protein 97	0.6084	40
PHKA2	Phosphorylase kinase regulatory subunit alpha 2	0.6074	40
SIGLEC11	Sialic acid binding Ig like lectin 11	0.6002	40
JCAD	Junctional cadherin 5 associated	0.5997	40
DHCR7	7-dehydrocholesterol reductase	0.5962	15
RHBG	Rh family B glycoprotein	0.5954	40
PNMA8B	PNMA family member 8B	0.5888	52
CRHBP	Corticotropin releasing hormone binding protein	0.5883	40
ADAMTS18	ADAM metallopeptidase with thrombospondin type 1 motif 18	0.5829	42
BST2	Bone marrow stromal cell antigen 2	0.5682	14
NR5A2	Nuclear receptor subfamily 5 group A member 2	0.5632	40
GRB14	Growth factor receptor bound protein 14	0.5574	40
SLC4A2	Solute carrier family 4 member 2	0.5571	40
ARMH4	Armadillo like helical domain containing 4	0.5517	52

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

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	2.7 nTPM
Lung	2.7 nTPM

Astrocytes	25.8 nTPM
Brain	25.8 nTPM

B-cells	8.6 nTPM
Liver	25.9 nTPM
Bone marrow	11.5 nTPM
Breast	10.7 nTPM
Kidney	9.5 nTPM
Spleen	9.3 nTPM
Lymph node	7.9 nTPM
Colon	4.8 nTPM
Stomach	3.7 nTPM
Adipose tissue	3.0 nTPM
PBMC	0.0 nTPM

Basal keratinocytes	5.6 nTPM
Skin	5.6 nTPM

Adipocytes	133.9 nTPM
Adipose tissue	157.0 nTPM
Breast	110.9 nTPM

Dendritic cells	10.5 nTPM
PBMC	27.9 nTPM
Breast	2.5 nTPM
Adipose tissue	1.0 nTPM

Endothelial cells	44.2 nTPM
Breast	168.3 nTPM
Placenta	94.9 nTPM
Testis	63.1 nTPM
Esophagus	54.3 nTPM
Eye	53.4 nTPM
Skin	46.7 nTPM
Ovary	41.8 nTPM
Liver	22.0 nTPM
Skeletal muscle	21.8 nTPM
Endometrium	18.3 nTPM
Prostate	13.0 nTPM
Lung	9.3 nTPM
Heart muscle	8.5 nTPM
Pancreas	3.9 nTPM

Fibroblasts	7.9 nTPM
Ovary	25.4 nTPM
Stomach	13.4 nTPM
Placenta	10.0 nTPM
Esophagus	8.7 nTPM
Heart muscle	6.8 nTPM
Lung	5.6 nTPM
Skin	5.1 nTPM
Breast	5.0 nTPM
Prostate	2.6 nTPM
Adipose tissue	2.3 nTPM
Skeletal muscle	1.8 nTPM

Intestinal goblet cells	13.1 nTPM
Rectum	18.3 nTPM
Colon	15.7 nTPM
Small intestine	5.3 nTPM

Macrophages	16.7 nTPM
Ovary	76.2 nTPM
Esophagus	26.8 nTPM
Pancreas	20.4 nTPM
Adipose tissue	17.6 nTPM
Endometrium	16.4 nTPM
Breast	16.2 nTPM
Spleen	13.5 nTPM
Prostate	12.6 nTPM
Skeletal muscle	11.8 nTPM
Testis	11.1 nTPM
Kidney	9.9 nTPM
Lung	6.8 nTPM
Stomach	5.9 nTPM
Bone marrow	5.0 nTPM
PBMC	0.0 nTPM

Paneth cells	12.9 nTPM
Colon	23.1 nTPM
Rectum	15.7 nTPM
Small intestine	0.0 nTPM

Plasma cells	8.0 nTPM
Bone marrow	13.2 nTPM
Spleen	12.7 nTPM
Stomach	11.6 nTPM
Adipose tissue	2.7 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	4.7 nTPM
Bronchus	5.1 nTPM
Lung	4.4 nTPM

Smooth muscle cells	5.0 nTPM
Ovary	20.0 nTPM
Breast	7.2 nTPM
Bronchus	5.7 nTPM
Pancreas	4.9 nTPM
Esophagus	4.6 nTPM
Endometrium	3.4 nTPM
Skin	3.2 nTPM
Skeletal muscle	2.5 nTPM
Adipose tissue	2.0 nTPM
Prostate	1.5 nTPM
Heart muscle	0.4 nTPM

Cone photoreceptor cells	29.2 nTPM
Eye	29.2 nTPM

Early spermatids	18.1 nTPM
Testis	18.1 nTPM

Excitatory neurons	21.0 nTPM
Brain	21.0 nTPM

Exocrine glandular cells	7.4 nTPM
Pancreas	7.4 nTPM

T-cells	1.8 nTPM
Liver	4.8 nTPM
Lymph node	4.2 nTPM
Colon	3.3 nTPM
Lung	3.0 nTPM
Breast	3.0 nTPM
Stomach	2.6 nTPM
Skin	2.3 nTPM
Spleen	1.7 nTPM
Kidney	1.4 nTPM
Endometrium	1.2 nTPM
PBMC	0.9 nTPM
Bone marrow	0.9 nTPM
Skeletal muscle	0.5 nTPM
Adipose tissue	0.5 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	9.4 nTPM
Rectum	13.8 nTPM
Colon	8.6 nTPM
Small intestine	5.9 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