Single cell type - RDH11 - 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.	RDH11
Gene descriptionⁱ Full gene name according to HGNC.	Retinol dehydrogenase 11
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes Human disease related genes Metabolic proteins Potential drug targets
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	Muller glia cells - Visual perception (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 (Muller glia cells, Prostatic glandular cells, Hepatocytes)
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	Low cell line specificity
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 (Muller glia cells, Prostatic glandular cells, Hepatocytes)

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

RDH11 is part of cluster 5 Muller glia cells - Visual perception with confidenceⁱ 1
155 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
TF	Transferrin	0.6932	5
AZGP1	Alpha-2-glycoprotein 1, zinc-binding	0.6696	35
CLU	Clusterin	0.6686	5
CERS4	Ceramide synthase 4	0.6616	5
CP	Ceruloplasmin	0.6546	15
TRPM8	Transient receptor potential cation channel subfamily M member 8	0.6215	2
FGFRL1	Fibroblast growth factor receptor like 1	0.6167	5
KLK2	Kallikrein related peptidase 2	0.6038	35
KLK3	Kallikrein related peptidase 3	0.6031	35
MSMB	Microseminoprotein beta	0.6001	35
CRABP1	Cellular retinoic acid binding protein 1	0.5972	5
NPVF	Neuropeptide VF precursor	0.5957	5
LIX1	Limb and CNS expressed 1	0.5952	5
CLRN1	Clarin 1	0.5935	5
STAC2	SH3 and cysteine rich domain 2	0.5914	5

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	27.0 nTPM
Breast	28.0 nTPM
Adipose tissue	26.1 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	66.0 nTPM
Lung	66.0 nTPM

Astrocytes	38.2 nTPM
Brain	38.2 nTPM

B-cells	29.2 nTPM
Liver	67.9 nTPM
Kidney	52.4 nTPM
Colon	35.1 nTPM
PBMC	34.3 nTPM
Adipose tissue	25.1 nTPM
Spleen	20.1 nTPM
Stomach	20.0 nTPM
Breast	16.0 nTPM
Bone marrow	11.5 nTPM
Lymph node	9.8 nTPM

Dendritic cells	32.4 nTPM
Adipose tissue	36.0 nTPM
PBMC	35.8 nTPM
Breast	25.5 nTPM

Endothelial cells	39.3 nTPM
Pancreas	61.8 nTPM
Ovary	50.6 nTPM
Lung	49.9 nTPM
Eye	47.7 nTPM
Liver	44.9 nTPM
Prostate	44.5 nTPM
Heart muscle	41.2 nTPM
Endometrium	40.9 nTPM
Testis	37.7 nTPM
Placenta	32.4 nTPM
Skeletal muscle	29.2 nTPM
Breast	28.5 nTPM
Esophagus	21.4 nTPM
Skin	18.9 nTPM

Fibroblasts	37.5 nTPM
Ovary	53.7 nTPM
Prostate	53.1 nTPM
Heart muscle	52.9 nTPM
Skeletal muscle	39.9 nTPM
Breast	39.8 nTPM
Adipose tissue	37.5 nTPM
Placenta	37.2 nTPM
Lung	26.8 nTPM
Stomach	25.3 nTPM
Esophagus	23.7 nTPM
Skin	22.1 nTPM

Intestinal goblet cells	28.9 nTPM
Colon	41.4 nTPM
Small intestine	22.9 nTPM
Rectum	22.5 nTPM

Macrophages	35.9 nTPM
PBMC	109.1 nTPM
Pancreas	56.2 nTPM
Ovary	44.1 nTPM
Testis	43.0 nTPM
Lung	37.6 nTPM
Prostate	36.7 nTPM
Kidney	34.0 nTPM
Breast	30.0 nTPM
Skeletal muscle	25.8 nTPM
Bone marrow	22.5 nTPM
Spleen	21.8 nTPM
Endometrium	21.2 nTPM
Adipose tissue	21.1 nTPM
Stomach	17.6 nTPM
Esophagus	17.3 nTPM

Paneth cells	36.7 nTPM
Small intestine	52.6 nTPM
Colon	39.6 nTPM
Rectum	18.0 nTPM

Plasma cells	27.3 nTPM
Spleen	33.1 nTPM
Adipose tissue	29.7 nTPM
Bone marrow	29.7 nTPM
Esophagus	24.6 nTPM
Stomach	19.7 nTPM

Respiratory ciliated cells	23.9 nTPM
Lung	24.8 nTPM
Bronchus	23.0 nTPM

Smooth muscle cells	38.7 nTPM
Pancreas	93.6 nTPM
Ovary	66.7 nTPM
Prostate	48.5 nTPM
Skeletal muscle	39.2 nTPM
Adipose tissue	33.6 nTPM
Endometrium	32.4 nTPM
Heart muscle	31.8 nTPM
Breast	27.1 nTPM
Skin	21.3 nTPM
Bronchus	19.7 nTPM
Esophagus	12.4 nTPM

T-cells	29.8 nTPM
PBMC	47.4 nTPM
Kidney	44.5 nTPM
Prostate	42.6 nTPM
Ovary	37.8 nTPM
Colon	36.1 nTPM
Skin	34.0 nTPM
Liver	32.6 nTPM
Breast	31.8 nTPM
Adipose tissue	31.3 nTPM
Skeletal muscle	28.8 nTPM
Endometrium	25.3 nTPM
Spleen	24.7 nTPM
Lung	24.3 nTPM
Stomach	22.7 nTPM
Bone marrow	21.8 nTPM
Lymph node	14.9 nTPM
Esophagus	6.6 nTPM

Basal prostatic cells	40.0 nTPM
Prostate	40.0 nTPM

Basal respiratory cells	77.9 nTPM
Bronchus	77.9 nTPM

Basal squamous epithelial cells	16.5 nTPM
Esophagus	16.5 nTPM

Cholangiocytes	68.6 nTPM
Liver	68.6 nTPM

Undifferentiated cells	25.3 nTPM
Colon	39.7 nTPM
Small intestine	18.2 nTPM
Rectum	17.9 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