Single cell type - PAPSS1 - 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.	PAPSS1
Gene descriptionⁱ Full gene name according to HGNC.	3'-phosphoadenosine 5'-phosphosulfate synthase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic proteins
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	Endometrium - Transcription (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 (Glandular and luminal cells)
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	Group enriched (eosinophil, basophil)
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 (Glandular and luminal cells)

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

PAPSS1 is part of cluster 44 Endometrium - Transcription with confidenceⁱ 1
491 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
ELP3	Elongator acetyltransferase complex subunit 3	0.8732	44
AC005551.1	Novel protein	0.8511	44
CRISP3	Cysteine rich secretory protein 3	0.8461	44
C2CD4A	C2 calcium dependent domain containing 4A	0.8457	44
SCGB2A1	Secretoglobin family 2A member 1	0.8435	44
TMEM101	Transmembrane protein 101	0.8424	44
ZNF888	Zinc finger protein 888	0.8405	44
ENPP3	Ectonucleotide pyrophosphatase/phosphodiesterase 3	0.8347	44
GAST	Gastrin	0.8330	44
HAP1	Huntingtin associated protein 1	0.8322	44
RIPK4	Receptor interacting serine/threonine kinase 4	0.8313	44
GABRP	Gamma-aminobutyric acid type A receptor subunit pi	0.8277	44
SCGB1D2	Secretoglobin family 1D member 2	0.8233	44
PAX2	Paired box 2	0.8163	44
CDSN	Corneodesmosin	0.8159	44

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	19.7 nTPM
Breast	21.5 nTPM
Adipose tissue	17.8 nTPM

Alveolar cells type 1	96.1 nTPM
Lung	96.1 nTPM

Alveolar cells type 2	20.2 nTPM
Lung	20.2 nTPM

Astrocytes	41.4 nTPM
Brain	41.4 nTPM

B-cells	25.4 nTPM
Liver	42.3 nTPM
Lymph node	36.0 nTPM
Spleen	32.2 nTPM
Bone marrow	29.4 nTPM
Breast	28.1 nTPM
Stomach	23.1 nTPM
PBMC	21.4 nTPM
Adipose tissue	16.1 nTPM
Colon	16.0 nTPM
Kidney	9.5 nTPM

Dendritic cells	7.0 nTPM
Breast	11.7 nTPM
Adipose tissue	9.4 nTPM
PBMC	0.0 nTPM

Endothelial cells	25.1 nTPM
Pancreas	50.2 nTPM
Ovary	49.4 nTPM
Esophagus	42.3 nTPM
Endometrium	38.1 nTPM
Breast	23.6 nTPM
Testis	23.4 nTPM
Skin	23.2 nTPM
Liver	22.9 nTPM
Placenta	18.8 nTPM
Skeletal muscle	17.5 nTPM
Prostate	14.1 nTPM
Eye	13.7 nTPM
Heart muscle	8.2 nTPM
Lung	6.2 nTPM

Fibroblasts	35.2 nTPM
Placenta	57.3 nTPM
Skin	48.3 nTPM
Esophagus	43.0 nTPM
Ovary	42.6 nTPM
Breast	40.8 nTPM
Lung	40.2 nTPM
Stomach	28.2 nTPM
Skeletal muscle	27.7 nTPM
Adipose tissue	27.2 nTPM
Prostate	18.4 nTPM
Heart muscle	12.9 nTPM

Intestinal goblet cells	17.5 nTPM
Rectum	21.8 nTPM
Small intestine	18.5 nTPM
Colon	12.1 nTPM

Macrophages	53.5 nTPM
Pancreas	140.4 nTPM
Bone marrow	67.5 nTPM
Spleen	67.4 nTPM
Endometrium	60.5 nTPM
Stomach	58.6 nTPM
Lung	57.6 nTPM
Kidney	57.5 nTPM
Esophagus	53.5 nTPM
Testis	52.3 nTPM
Adipose tissue	38.0 nTPM
Ovary	34.5 nTPM
Skeletal muscle	33.7 nTPM
Prostate	29.8 nTPM
PBMC	27.3 nTPM
Breast	23.7 nTPM

Paneth cells	9.1 nTPM
Rectum	13.2 nTPM
Small intestine	7.5 nTPM
Colon	6.5 nTPM

Plasma cells	86.4 nTPM
Stomach	118.4 nTPM
Bone marrow	105.4 nTPM
Esophagus	98.5 nTPM
Spleen	89.7 nTPM
Adipose tissue	20.0 nTPM

Respiratory ciliated cells	110.0 nTPM
Lung	123.9 nTPM
Bronchus	96.1 nTPM

Smooth muscle cells	29.1 nTPM
Esophagus	49.6 nTPM
Endometrium	40.9 nTPM
Bronchus	38.7 nTPM
Pancreas	38.3 nTPM
Ovary	34.9 nTPM
Breast	25.8 nTPM
Skin	25.4 nTPM
Adipose tissue	23.5 nTPM
Prostate	22.2 nTPM
Skeletal muscle	15.1 nTPM
Heart muscle	5.2 nTPM

T-cells	22.2 nTPM
Endometrium	58.4 nTPM
Prostate	33.1 nTPM
Esophagus	32.8 nTPM
Lymph node	30.1 nTPM
Spleen	27.7 nTPM
Lung	25.8 nTPM
Stomach	24.6 nTPM
Skin	21.6 nTPM
Bone marrow	21.1 nTPM
Breast	18.2 nTPM
Kidney	17.1 nTPM
Skeletal muscle	15.2 nTPM
Adipose tissue	13.4 nTPM
Colon	12.8 nTPM
PBMC	10.5 nTPM
Liver	8.9 nTPM
Ovary	6.7 nTPM

Basal keratinocytes	32.0 nTPM
Skin	32.0 nTPM

Basal prostatic cells	36.3 nTPM
Prostate	36.3 nTPM

Basal respiratory cells	73.2 nTPM
Bronchus	73.2 nTPM

Basal squamous epithelial cells	33.6 nTPM
Esophagus	33.6 nTPM

Undifferentiated cells	14.8 nTPM
Rectum	17.4 nTPM
Small intestine	17.1 nTPM
Colon	10.0 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