Single cell type - PEDS1-UBE2V1 - 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.	PEDS1-UBE2V1
Gene descriptionⁱ Full gene name according to HGNC.	PEDS1-UBE2V1 readthrough
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.	Membrane
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.	Late spermatids - 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.	Cell type enhanced (Late spermatids, Oligodendrocytes, Excitatory neurons, Inhibitory neurons, Microglial cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.95
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Not available
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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

Single cell type

Immune cells

Expression clustering

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Cell type enhanced (Late spermatids, Oligodendrocytes, Excitatory neurons, Inhibitory neurons, Microglial cells)

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

PEDS1-UBE2V1 is part of cluster 63 Late spermatids - Spermatogenesis with confidenceⁱ 1
383 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
WFDC9	WAP four-disulfide core domain 9	0.6566	63
CSTL1	Cystatin like 1	0.6112	11
MIPOL1	Mirror-image polydactyly 1	0.6099	69
GARIN6	Golgi associated RAB2 interactor family member 6	0.6084	11
C20orf144	Chromosome 20 open reading frame 144	0.5854	11
C3orf49	Chromosome 3 open reading frame 49	0.5683	11
IPO5	Importin 5	0.5669	63
PRKCE	Protein kinase C epsilon	0.5641	65
PAGE3	PAGE family member 3	0.5554	63
LMNTD2	Lamin tail domain containing 2	0.5488	63
GPR135	G protein-coupled receptor 135	0.5486	63
FTO	FTO alpha-ketoglutarate dependent dioxygenase	0.5423	69
PFN3	Profilin 3	0.5411	63
VTI1A	Vesicle transport through interaction with t-SNAREs 1A	0.5403	51
ABHD16B	Abhydrolase domain containing 16B	0.5374	63

IMMUNE CELLS

PEDS1-UBE2V1 is part of cluster 25 Non-specific - Unknown function with confidenceⁱ 0.89
355 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
NECAB3	N-terminal EF-hand calcium binding protein 3	1.0000	25
FNDC10	Fibronectin type III domain containing 10	1.0000	25
RAB11B	RAB11B, member RAS oncogene family	1.0000	25
RMDN1	Regulator of microtubule dynamics 1	1.0000	25
GXYLT1	Glucoside xylosyltransferase 1	1.0000	25
INSIG2	Insulin induced gene 2	1.0000	25
BCL7B	BAF chromatin remodeling complex subunit BCL7B	1.0000	25
SNX21	Sorting nexin family member 21	0.9762	25
SNAPC2	Small nuclear RNA activating complex polypeptide 2	0.9762	25
RNASET2	Ribonuclease T2	0.9762	25
ACAP3	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	0.9762	25
MTCH1	Mitochondrial carrier 1	0.9762	25
TRPC6	Transient receptor potential cation channel subfamily C member 6	0.9762	25
ARHGDIA	Rho GDP dissociation inhibitor alpha	0.9762	25
RNPEPL1	Arginyl aminopeptidase like 1	0.9762	25