Single cell type - STRADB - 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.	STRADB
Gene descriptionⁱ Full gene name according to HGNC.	STE20 related adaptor beta
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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.	4

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	Erythroid cells - Oxygen transport (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 (Erythroid cells, Proximal tubular 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 (LHCN-M2)
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 (Erythroid cells, Proximal tubular 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

STRADB is part of cluster 6 Erythroid cells - Oxygen transport with confidenceⁱ 1
151 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
SMIM1	Small integral membrane protein 1 (Vel blood group)	0.8230	6
CAT	Catalase	0.7556	6
HAGH	Hydroxyacylglutathione hydrolase	0.7262	67
GLRX5	Glutaredoxin 5	0.7176	6
TRIM10	Tripartite motif containing 10	0.7103	6
UROD	Uroporphyrinogen decarboxylase	0.6788	6
ABCB10	ATP binding cassette subfamily B member 10	0.6674	6
HMBS	Hydroxymethylbilane synthase	0.6666	6
TSPO2	Translocator protein 2	0.6657	6
PRDX2	Peroxiredoxin 2	0.6616	6
BLVRB	Biliverdin reductase B	0.6573	6
FECH	Ferrochelatase	0.6564	6
HBA1	Hemoglobin subunit alpha 1	0.6506	6
GYPA	Glycophorin A (MNS blood group)	0.6487	6
ALAS2	5'-aminolevulinate synthase 2	0.6487	6

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	5.0 nTPM
Breast	6.5 nTPM
Adipose tissue	3.5 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	4.2 nTPM
Lung	4.2 nTPM

Astrocytes	17.0 nTPM
Brain	17.0 nTPM

B-cells	20.2 nTPM
PBMC	35.7 nTPM
Bone marrow	27.0 nTPM
Spleen	25.3 nTPM
Kidney	23.8 nTPM
Colon	20.8 nTPM
Liver	18.2 nTPM
Lymph node	16.9 nTPM
Stomach	14.5 nTPM
Adipose tissue	11.5 nTPM
Breast	8.1 nTPM

Dendritic cells	6.3 nTPM
Breast	9.1 nTPM
Adipose tissue	5.7 nTPM
PBMC	4.0 nTPM

Endothelial cells	5.6 nTPM
Breast	9.7 nTPM
Esophagus	9.3 nTPM
Pancreas	7.7 nTPM
Heart muscle	6.7 nTPM
Placenta	6.2 nTPM
Eye	5.7 nTPM
Testis	5.4 nTPM
Prostate	5.3 nTPM
Endometrium	5.3 nTPM
Ovary	5.0 nTPM
Skeletal muscle	4.2 nTPM
Lung	3.1 nTPM
Skin	2.9 nTPM
Liver	1.8 nTPM

Erythroid cells	412.8 nTPM
Liver	706.1 nTPM
Bone marrow	119.4 nTPM

Fibroblasts	13.6 nTPM
Esophagus	21.7 nTPM
Lung	21.2 nTPM
Heart muscle	20.6 nTPM
Placenta	15.7 nTPM
Skeletal muscle	14.5 nTPM
Breast	13.9 nTPM
Adipose tissue	12.8 nTPM
Stomach	11.9 nTPM
Ovary	8.1 nTPM
Skin	5.9 nTPM
Prostate	3.8 nTPM

Intestinal goblet cells	22.6 nTPM
Small intestine	28.4 nTPM
Rectum	24.5 nTPM
Colon	15.0 nTPM

Macrophages	13.5 nTPM
PBMC	27.3 nTPM
Kidney	27.2 nTPM
Ovary	24.4 nTPM
Prostate	16.0 nTPM
Pancreas	15.3 nTPM
Bone marrow	13.8 nTPM
Spleen	13.5 nTPM
Testis	12.8 nTPM
Esophagus	12.6 nTPM
Skeletal muscle	11.9 nTPM
Breast	8.1 nTPM
Stomach	5.9 nTPM
Adipose tissue	5.8 nTPM
Endometrium	4.8 nTPM
Lung	3.3 nTPM

Paneth cells	35.2 nTPM
Small intestine	60.1 nTPM
Rectum	29.0 nTPM
Colon	16.5 nTPM

Plasma cells	10.9 nTPM
Bone marrow	14.8 nTPM
Spleen	13.6 nTPM
Esophagus	12.3 nTPM
Stomach	11.7 nTPM
Adipose tissue	1.9 nTPM

Respiratory ciliated cells	5.3 nTPM
Lung	5.8 nTPM
Bronchus	4.8 nTPM

Smooth muscle cells	6.6 nTPM
Pancreas	13.8 nTPM
Ovary	9.5 nTPM
Bronchus	9.4 nTPM
Adipose tissue	7.3 nTPM
Breast	7.2 nTPM
Skeletal muscle	5.7 nTPM
Prostate	5.0 nTPM
Heart muscle	4.4 nTPM
Endometrium	4.2 nTPM
Skin	3.2 nTPM
Esophagus	3.1 nTPM

Basal keratinocytes	2.2 nTPM
Skin	2.2 nTPM

Basal prostatic cells	6.8 nTPM
Prostate	6.8 nTPM

Basal squamous epithelial cells	11.4 nTPM
Esophagus	11.4 nTPM

Cholangiocytes	28.6 nTPM
Liver	28.6 nTPM

T-cells	8.9 nTPM
Ovary	20.1 nTPM
Spleen	16.0 nTPM
Lymph node	15.9 nTPM
Liver	14.5 nTPM
PBMC	14.3 nTPM
Bone marrow	11.5 nTPM
Kidney	10.2 nTPM
Prostate	9.5 nTPM
Stomach	7.1 nTPM
Esophagus	6.6 nTPM
Skeletal muscle	5.9 nTPM
Breast	5.5 nTPM
Adipose tissue	4.3 nTPM
Skin	2.8 nTPM
Endometrium	2.6 nTPM
Colon	2.4 nTPM
Lung	1.5 nTPM

Undifferentiated cells	25.0 nTPM
Small intestine	36.9 nTPM
Rectum	23.7 nTPM
Colon	14.4 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