Single cell type - SBNO1 - 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.	SBNO1
Gene descriptionⁱ Full gene name according to HGNC.	Strawberry notch homolog 1
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.	3

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	Spermatogonia & Spermatocytes - Spermatogenesis (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 (Spermatocytes, Spermatogonia)
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 (Spermatocytes, Spermatogonia)

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

SBNO1 is part of cluster 20 Spermatogonia & Spermatocytes - Spermatogenesis with confidenceⁱ 1
181 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
STK31	Serine/threonine kinase 31	0.6761	66
DDX43	DEAD-box helicase 43	0.6556	20
FIP1L1	Factor interacting with PAPOLA and CPSF1	0.6477	10
TDRD1	Tudor domain containing 1	0.6415	20
MAGEB18	MAGE family member B18	0.6168	66
KRT72	Keratin 72	0.6024	66
TSPYL6	TSPY like 6	0.5992	20
DPPA5	Developmental pluripotency associated 5	0.5966	20
PIWIL2	Piwi like RNA-mediated gene silencing 2	0.5960	20
MORC1	MORC family CW-type zinc finger 1	0.5953	20
RBM46	RNA binding motif protein 46	0.5936	20
DMRTB1	DMRT like family B with proline rich C-terminal 1	0.5912	20
FEZF1	FEZ family zinc finger 1	0.5707	66
TUBA3C	Tubulin alpha 3c	0.5599	66
FAM53A	Family with sequence similarity 53 member A	0.5564	20

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	29.8 nTPM
Breast	33.4 nTPM
Adipose tissue	26.3 nTPM

Alveolar cells type 1	28.9 nTPM
Lung	28.9 nTPM

Alveolar cells type 2	25.7 nTPM
Lung	25.7 nTPM

Astrocytes	42.1 nTPM
Brain	42.1 nTPM

B-cells	59.3 nTPM
Adipose tissue	88.2 nTPM
Colon	73.5 nTPM
Stomach	70.0 nTPM
Lymph node	67.9 nTPM
Spleen	64.0 nTPM
PBMC	55.7 nTPM
Kidney	52.4 nTPM
Bone marrow	43.4 nTPM
Liver	40.6 nTPM
Breast	37.5 nTPM

Dendritic cells	54.3 nTPM
Adipose tissue	65.8 nTPM
PBMC	51.8 nTPM
Breast	45.2 nTPM

Endothelial cells	34.7 nTPM
Endometrium	55.5 nTPM
Prostate	47.7 nTPM
Lung	40.6 nTPM
Skeletal muscle	40.2 nTPM
Pancreas	38.6 nTPM
Ovary	38.6 nTPM
Breast	35.9 nTPM
Eye	33.2 nTPM
Placenta	27.8 nTPM
Skin	27.8 nTPM
Esophagus	26.8 nTPM
Liver	24.7 nTPM
Heart muscle	24.3 nTPM
Testis	24.0 nTPM

Fibroblasts	36.5 nTPM
Prostate	52.6 nTPM
Lung	52.5 nTPM
Skin	42.0 nTPM
Skeletal muscle	41.9 nTPM
Heart muscle	35.9 nTPM
Ovary	35.0 nTPM
Placenta	34.4 nTPM
Breast	32.7 nTPM
Esophagus	30.2 nTPM
Adipose tissue	24.0 nTPM
Stomach	20.8 nTPM

Intestinal goblet cells	25.1 nTPM
Small intestine	31.9 nTPM
Rectum	23.4 nTPM
Colon	20.1 nTPM

Macrophages	41.2 nTPM
Adipose tissue	67.2 nTPM
Spleen	59.1 nTPM
Skeletal muscle	47.8 nTPM
Esophagus	45.6 nTPM
Lung	45.0 nTPM
Breast	44.6 nTPM
Stomach	43.9 nTPM
Endometrium	39.3 nTPM
Bone marrow	38.8 nTPM
Ovary	37.4 nTPM
Prostate	35.5 nTPM
Testis	33.7 nTPM
Kidney	33.3 nTPM
Pancreas	33.2 nTPM
PBMC	13.6 nTPM

Paneth cells	21.2 nTPM
Rectum	38.4 nTPM
Small intestine	18.8 nTPM
Colon	6.5 nTPM

Plasma cells	33.0 nTPM
Adipose tissue	49.7 nTPM
Spleen	38.7 nTPM
Esophagus	30.7 nTPM
Bone marrow	24.7 nTPM
Stomach	21.3 nTPM

Respiratory ciliated cells	36.4 nTPM
Lung	40.8 nTPM
Bronchus	32.0 nTPM

Smooth muscle cells	58.1 nTPM
Bronchus	207.5 nTPM
Heart muscle	55.8 nTPM
Ovary	54.7 nTPM
Prostate	49.7 nTPM
Endometrium	48.9 nTPM
Skeletal muscle	42.8 nTPM
Skin	41.8 nTPM
Adipose tissue	39.4 nTPM
Esophagus	35.7 nTPM
Pancreas	33.0 nTPM
Breast	29.6 nTPM

T-cells	53.3 nTPM
Adipose tissue	75.6 nTPM
Skeletal muscle	74.4 nTPM
PBMC	69.6 nTPM
Skin	60.8 nTPM
Colon	59.4 nTPM
Lymph node	57.6 nTPM
Breast	55.4 nTPM
Stomach	50.5 nTPM
Spleen	49.1 nTPM
Endometrium	47.5 nTPM
Prostate	47.3 nTPM
Esophagus	45.9 nTPM
Kidney	45.8 nTPM
Lung	42.6 nTPM
Ovary	42.2 nTPM
Liver	41.8 nTPM
Bone marrow	40.9 nTPM

Basal keratinocytes	63.3 nTPM
Skin	63.3 nTPM

Basal prostatic cells	48.1 nTPM
Prostate	48.1 nTPM

Basal respiratory cells	40.4 nTPM
Bronchus	40.4 nTPM

Basal squamous epithelial cells	37.0 nTPM
Esophagus	37.0 nTPM

Undifferentiated cells	38.9 nTPM
Small intestine	43.4 nTPM
Rectum	40.4 nTPM
Colon	32.8 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