Single cell type - AP3S1 - 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.	AP3S1
Gene descriptionⁱ Full gene name according to HGNC.	Adaptor related protein complex 3 subunit sigma 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.	1

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	Respiratory epithelial cells - Mucosal defense (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 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: 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

AP3S1 is part of cluster 26 Respiratory epithelial cells - Mucosal defense with confidenceⁱ 1
293 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
LDHA	Lactate dehydrogenase A	0.5950	16
LAPTM4A	Lysosomal protein transmembrane 4 alpha	0.5832	26
LOX	Lysyl oxidase	0.5709	33
ALDOA	Aldolase, fructose-bisphosphate A	0.5478	26
INSIG2	Insulin induced gene 2	0.5105	26
ANGPTL4	Angiopoietin like 4	0.4848	26
ZNF706	Zinc finger protein 706	0.4843	25
MRGPRX3	MAS related GPR family member X3	0.4736	26
NDFIP2	Nedd4 family interacting protein 2	0.4680	28
MICA	MHC class I polypeptide-related sequence A	0.4668	16
PNLIPRP3	Pancreatic lipase related protein 3	0.4667	26
MMP13	Matrix metallopeptidase 13	0.4609	26
MRGPRX4	MAS related GPR family member X4	0.4552	26
FBXW5	F-box and WD repeat domain containing 5	0.4543	25
COX16	Cytochrome c oxidase assembly factor COX16	0.4543	26

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	75.6 nTPM
Adipose tissue	82.6 nTPM
Breast	68.7 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	21.9 nTPM
Lung	21.9 nTPM

Astrocytes	31.3 nTPM
Brain	31.3 nTPM

B-cells	90.1 nTPM
Stomach	148.5 nTPM
Colon	118.2 nTPM
Adipose tissue	89.3 nTPM
Spleen	87.9 nTPM
Liver	85.8 nTPM
Lymph node	84.6 nTPM
Breast	83.0 nTPM
Kidney	76.1 nTPM
PBMC	65.7 nTPM
Bone marrow	62.1 nTPM

Dendritic cells	95.0 nTPM
PBMC	147.4 nTPM
Adipose tissue	71.8 nTPM
Breast	66.0 nTPM

Endothelial cells	73.9 nTPM
Skin	147.4 nTPM
Prostate	123.8 nTPM
Breast	90.7 nTPM
Placenta	76.7 nTPM
Testis	75.3 nTPM
Eye	70.4 nTPM
Ovary	68.5 nTPM
Pancreas	65.6 nTPM
Esophagus	64.8 nTPM
Skeletal muscle	62.9 nTPM
Liver	60.5 nTPM
Lung	56.1 nTPM
Endometrium	39.4 nTPM
Heart muscle	32.4 nTPM

Fibroblasts	158.3 nTPM
Skin	307.2 nTPM
Adipose tissue	240.7 nTPM
Lung	239.1 nTPM
Placenta	172.9 nTPM
Breast	148.6 nTPM
Skeletal muscle	144.9 nTPM
Prostate	117.7 nTPM
Esophagus	113.6 nTPM
Stomach	111.4 nTPM
Ovary	98.1 nTPM
Heart muscle	47.7 nTPM

Intestinal goblet cells	131.5 nTPM
Colon	165.9 nTPM
Rectum	120.5 nTPM
Small intestine	108.2 nTPM

Macrophages	88.4 nTPM
Pancreas	155.7 nTPM
Kidney	145.2 nTPM
Stomach	123.1 nTPM
Prostate	110.0 nTPM
Bone marrow	108.7 nTPM
Spleen	105.7 nTPM
Ovary	93.6 nTPM
Testis	89.5 nTPM
Adipose tissue	82.5 nTPM
Skeletal muscle	63.9 nTPM
Esophagus	61.4 nTPM
Breast	54.4 nTPM
Endometrium	52.9 nTPM
Lung	51.4 nTPM
PBMC	27.3 nTPM

Paneth cells	105.5 nTPM
Colon	138.3 nTPM
Small intestine	105.1 nTPM
Rectum	73.0 nTPM

Plasma cells	103.6 nTPM
Stomach	143.3 nTPM
Adipose tissue	123.8 nTPM
Spleen	109.3 nTPM
Esophagus	74.0 nTPM
Bone marrow	67.6 nTPM

Respiratory ciliated cells	59.8 nTPM
Bronchus	99.3 nTPM
Lung	20.4 nTPM

Smooth muscle cells	118.0 nTPM
Bronchus	271.2 nTPM
Pancreas	180.5 nTPM
Prostate	166.6 nTPM
Skin	161.4 nTPM
Breast	100.1 nTPM
Esophagus	93.1 nTPM
Adipose tissue	80.4 nTPM
Skeletal muscle	71.5 nTPM
Ovary	68.0 nTPM
Endometrium	58.3 nTPM
Heart muscle	47.4 nTPM

T-cells	79.0 nTPM
Skin	143.3 nTPM
Prostate	118.3 nTPM
Liver	110.7 nTPM
Colon	106.9 nTPM
Ovary	95.6 nTPM
Spleen	87.7 nTPM
Kidney	81.4 nTPM
Stomach	79.6 nTPM
Adipose tissue	75.3 nTPM
PBMC	70.4 nTPM
Breast	69.4 nTPM
Bone marrow	66.5 nTPM
Lymph node	57.4 nTPM
Skeletal muscle	53.0 nTPM
Esophagus	45.9 nTPM
Lung	44.0 nTPM
Endometrium	37.9 nTPM

Basal keratinocytes	203.0 nTPM
Skin	203.0 nTPM

Basal prostatic cells	92.8 nTPM
Prostate	92.8 nTPM

Basal respiratory cells	308.5 nTPM
Bronchus	308.5 nTPM

Cholangiocytes	67.2 nTPM
Liver	67.2 nTPM

Undifferentiated cells	74.9 nTPM
Small intestine	104.4 nTPM
Rectum	68.1 nTPM
Colon	52.4 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