Single cell type - RXRB - 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.	RXRB
Gene descriptionⁱ Full gene name according to HGNC.	Retinoid X receptor beta
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes FDA approved drug targets Nuclear receptors Transcription factors
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.	2

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 many
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 (GAMG, RH-30, RT4, T-47d, U-266/70, U-266/84)
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 some
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

RXRB 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
C7orf26	Chromosome 7 open reading frame 26	0.6049	63
INTS6	Integrator complex subunit 6	0.5593	7
HDAC10	Histone deacetylase 10	0.5458	63
C12orf65	Chromosome 12 open reading frame 65	0.5406	7
PPP1R10	Protein phosphatase 1 regulatory subunit 10	0.5391	7
TNFSF12	TNF superfamily member 12	0.5296	7
SRSF3	Serine and arginine rich splicing factor 3	0.5169	7
HEXIM1	HEXIM P-TEFb complex subunit 1	0.5115	7
IQCN	IQ motif containing N	0.5085	7
RSRP1	Arginine and serine rich protein 1	0.5043	7
PTBP1	Polypyrimidine tract binding protein 1	0.4949	7
SAMD1	Sterile alpha motif domain containing 1	0.4935	7
TRARG1	Trafficking regulator of GLUT4 (SLC2A4) 1	0.4896	14
STPG3	Sperm-tail PG-rich repeat containing 3	0.4837	7
IER2	Immediate early response 2	0.4797	7

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	21.2 nTPM
Breast	23.4 nTPM
Adipose tissue	18.8 nTPM

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	13.3 nTPM
Lung	13.3 nTPM

Astrocytes	14.4 nTPM
Brain	14.4 nTPM

B-cells	19.2 nTPM
Lymph node	28.5 nTPM
PBMC	27.1 nTPM
Kidney	23.8 nTPM
Spleen	19.4 nTPM
Bone marrow	18.0 nTPM
Breast	17.3 nTPM
Liver	15.6 nTPM
Stomach	15.5 nTPM
Adipose tissue	13.5 nTPM
Colon	12.8 nTPM

Dendritic cells	26.3 nTPM
Breast	35.3 nTPM
PBMC	23.9 nTPM
Adipose tissue	19.7 nTPM

Endothelial cells	18.2 nTPM
Esophagus	25.8 nTPM
Testis	25.2 nTPM
Breast	23.8 nTPM
Placenta	19.4 nTPM
Endometrium	19.1 nTPM
Skeletal muscle	18.6 nTPM
Liver	18.3 nTPM
Ovary	17.6 nTPM
Heart muscle	17.2 nTPM
Prostate	16.4 nTPM
Skin	15.8 nTPM
Pancreas	15.5 nTPM
Eye	12.2 nTPM
Lung	9.3 nTPM

Fibroblasts	18.3 nTPM
Breast	27.9 nTPM
Esophagus	23.8 nTPM
Stomach	19.3 nTPM
Placenta	19.2 nTPM
Adipose tissue	19.1 nTPM
Ovary	18.6 nTPM
Skeletal muscle	17.9 nTPM
Skin	17.8 nTPM
Prostate	15.0 nTPM
Lung	12.3 nTPM
Heart muscle	10.6 nTPM

Intestinal goblet cells	21.8 nTPM
Colon	23.5 nTPM
Rectum	23.2 nTPM
Small intestine	18.7 nTPM

Macrophages	12.2 nTPM
Breast	23.0 nTPM
Ovary	20.2 nTPM
Adipose tissue	15.0 nTPM
Esophagus	14.2 nTPM
PBMC	13.6 nTPM
Lung	13.1 nTPM
Bone marrow	12.5 nTPM
Skeletal muscle	11.6 nTPM
Testis	11.1 nTPM
Endometrium	10.6 nTPM
Prostate	10.3 nTPM
Kidney	8.3 nTPM
Spleen	8.3 nTPM
Pancreas	7.7 nTPM
Stomach	2.9 nTPM

Paneth cells	20.2 nTPM
Rectum	26.0 nTPM
Colon	19.7 nTPM
Small intestine	15.0 nTPM

Plasma cells	12.0 nTPM
Adipose tissue	21.9 nTPM
Stomach	14.3 nTPM
Spleen	12.6 nTPM
Esophagus	6.1 nTPM
Bone marrow	5.0 nTPM

Respiratory ciliated cells	10.8 nTPM
Bronchus	11.4 nTPM
Lung	10.2 nTPM

Smooth muscle cells	20.0 nTPM
Breast	27.3 nTPM
Adipose tissue	26.5 nTPM
Esophagus	23.3 nTPM
Skin	22.7 nTPM
Ovary	21.9 nTPM
Pancreas	21.3 nTPM
Skeletal muscle	20.3 nTPM
Prostate	19.4 nTPM
Endometrium	19.3 nTPM
Heart muscle	15.7 nTPM
Bronchus	1.9 nTPM

T-cells	19.4 nTPM
Lymph node	33.9 nTPM
Breast	30.0 nTPM
Liver	27.7 nTPM
PBMC	24.5 nTPM
Stomach	20.6 nTPM
Bone marrow	19.9 nTPM
Skin	19.8 nTPM
Spleen	18.2 nTPM
Colon	18.1 nTPM
Kidney	17.8 nTPM
Skeletal muscle	17.7 nTPM
Adipose tissue	15.9 nTPM
Lung	15.2 nTPM
Endometrium	14.6 nTPM
Ovary	13.4 nTPM
Esophagus	13.1 nTPM
Prostate	9.5 nTPM

Basal prostatic cells	14.9 nTPM
Prostate	14.9 nTPM

Basal respiratory cells	8.9 nTPM
Bronchus	8.9 nTPM

Collecting duct cells	5.5 nTPM
Kidney	5.5 nTPM

Cone photoreceptor cells	20.9 nTPM
Eye	20.9 nTPM

Undifferentiated cells	24.5 nTPM
Colon	25.0 nTPM
Rectum	24.9 nTPM
Small intestine	23.4 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