Single cell type - RPUSD2 - 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.	RPUSD2
Gene descriptionⁱ Full gene name according to HGNC.	RNA pseudouridine synthase domain containing 2
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	Non-specific - Basic cellular processes (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 many
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

RPUSD2 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 1
586 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
PRMT6	Protein arginine methyltransferase 6	0.5551	39
MAGEF1	MAGE family member F1	0.5485	39
TMEM177	Transmembrane protein 177	0.5435	39
COX11	Cytochrome c oxidase copper chaperone COX11	0.5200	39
HDDC2	HD domain containing 2	0.4972	39
NOB1	NIN1 (RPN12) binding protein 1 homolog	0.4972	32
NEIL2	Nei like DNA glycosylase 2	0.4954	20
MRPS18B	Mitochondrial ribosomal protein S18B	0.4805	39
TAL2	TAL bHLH transcription factor 2	0.4804	39
NPM3	Nucleophosmin/nucleoplasmin 3	0.4802	32
ZNF256	Zinc finger protein 256	0.4747	52
CHCHD4	Coiled-coil-helix-coiled-coil-helix domain containing 4	0.4721	39
ENOPH1	Enolase-phosphatase 1	0.4713	39
TYW3	TRNA-yW synthesizing protein 3 homolog	0.4708	39
C19orf73	Chromosome 19 open reading frame 73	0.4701	22

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	5.7 nTPM
Breast	6.9 nTPM
Adipose tissue	4.5 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	2.6 nTPM
Lung	2.6 nTPM

Astrocytes	2.3 nTPM
Brain	2.3 nTPM

B-cells	10.4 nTPM
PBMC	24.3 nTPM
Kidney	23.8 nTPM
Bone marrow	13.1 nTPM
Spleen	7.6 nTPM
Lymph node	7.5 nTPM
Stomach	6.8 nTPM
Colon	6.4 nTPM
Liver	6.4 nTPM
Adipose tissue	5.0 nTPM
Breast	2.6 nTPM

Dendritic cells	9.3 nTPM
PBMC	12.0 nTPM
Adipose tissue	9.1 nTPM
Breast	6.9 nTPM

Endothelial cells	5.7 nTPM
Pancreas	11.6 nTPM
Placenta	8.6 nTPM
Esophagus	7.7 nTPM
Heart muscle	6.8 nTPM
Liver	6.4 nTPM
Prostate	6.1 nTPM
Ovary	5.7 nTPM
Testis	5.1 nTPM
Endometrium	4.9 nTPM
Breast	4.8 nTPM
Skeletal muscle	4.6 nTPM
Skin	4.0 nTPM
Eye	3.3 nTPM
Lung	0.0 nTPM

Fibroblasts	7.6 nTPM
Ovary	11.2 nTPM
Stomach	10.4 nTPM
Placenta	10.2 nTPM
Prostate	9.8 nTPM
Heart muscle	7.7 nTPM
Esophagus	7.4 nTPM
Breast	7.3 nTPM
Skin	6.4 nTPM
Skeletal muscle	6.4 nTPM
Adipose tissue	5.5 nTPM
Lung	1.2 nTPM

Intestinal goblet cells	6.2 nTPM
Colon	8.5 nTPM
Rectum	6.1 nTPM
Small intestine	3.9 nTPM

Macrophages	2.6 nTPM
Prostate	5.7 nTPM
Kidney	5.3 nTPM
Pancreas	5.1 nTPM
Ovary	4.3 nTPM
Bone marrow	3.7 nTPM
Breast	3.5 nTPM
Endometrium	3.0 nTPM
Testis	1.7 nTPM
Esophagus	1.6 nTPM
Adipose tissue	1.5 nTPM
Lung	1.3 nTPM
Skeletal muscle	1.2 nTPM
Spleen	1.0 nTPM
PBMC	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	5.0 nTPM
Rectum	11.3 nTPM
Small intestine	3.7 nTPM
Colon	0.0 nTPM

Plasma cells	8.9 nTPM
Esophagus	12.3 nTPM
Spleen	10.7 nTPM
Adipose tissue	7.8 nTPM
Stomach	6.9 nTPM
Bone marrow	6.6 nTPM

Respiratory ciliated cells	9.9 nTPM
Lung	11.7 nTPM
Bronchus	8.0 nTPM

Smooth muscle cells	8.1 nTPM
Skin	10.5 nTPM
Skeletal muscle	9.9 nTPM
Ovary	9.6 nTPM
Bronchus	9.5 nTPM
Adipose tissue	8.9 nTPM
Pancreas	8.7 nTPM
Breast	8.0 nTPM
Esophagus	7.8 nTPM
Prostate	7.2 nTPM
Endometrium	5.2 nTPM
Heart muscle	3.8 nTPM

T-cells	7.3 nTPM
PBMC	14.8 nTPM
Liver	13.0 nTPM
Kidney	10.2 nTPM
Skin	9.2 nTPM
Ovary	8.9 nTPM
Stomach	8.0 nTPM
Bone marrow	7.3 nTPM
Lymph node	7.2 nTPM
Breast	7.0 nTPM
Colon	6.6 nTPM
Esophagus	6.6 nTPM
Endometrium	5.8 nTPM
Adipose tissue	5.2 nTPM
Prostate	4.7 nTPM
Spleen	4.2 nTPM
Lung	3.0 nTPM
Skeletal muscle	2.5 nTPM

Basal keratinocytes	10.6 nTPM
Skin	10.6 nTPM

Basal prostatic cells	16.4 nTPM
Prostate	16.4 nTPM

Basal respiratory cells	11.5 nTPM
Bronchus	11.5 nTPM

Basal squamous epithelial cells	10.8 nTPM
Esophagus	10.8 nTPM

Undifferentiated cells	8.5 nTPM
Rectum	10.0 nTPM
Small intestine	9.1 nTPM
Colon	6.5 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