Single cell type - ENSG00000258674 - 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.	ENSG00000258674
Gene descriptionⁱ Full gene name according to HGNC.	Novel protein
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.	Group enriched (Late spermatids, Cardiomyocytes)
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.	0.97
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 detected
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 transcript level

ASSAYSⁱ

Single cell type

Single nuclei - Brain

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: Group enriched (Late spermatids, Cardiomyocytes)

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Not detected

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

ENSG00000258674 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.
LSMEM2	Leucine rich single-pass membrane protein 2	0.7716	36
SPEM1	Spermatid maturation 1	0.7454	63
LIN28A	Lin-28 homolog A	0.7452	63
ENSG00000187186	Novel protein	0.7365	36
TMCO5A	Transmembrane and coiled-coil domains 5A	0.7364	63
ACP4	Acid phosphatase 4	0.7341	63
NDUFV3	NADH:ubiquinone oxidoreductase subunit V3	0.7328	63
LRRC74A	Leucine rich repeat containing 74A	0.7323	63
ADO	2-aminoethanethiol dioxygenase	0.7281	63
TEX53	Testis expressed 53	0.7239	63
MORN3	MORN repeat containing 3	0.7237	36
ENSG00000261341	Novel protein	0.7228	63
TEX46	Testis expressed 46	0.7183	63
DHRS7C	Dehydrogenase/reductase 7C	0.7178	68
IQCF3	IQ motif containing F3	0.7098	63

IMMUNE CELLS

ENSG00000258674 is part of cluster 36 Eosinophils - Protein ubiquitination with confidenceⁱ 0.42
179 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.
PNKD	PNKD metallo-beta-lactamase domain containing	0.9762	25
UQCR10	Ubiquinol-cytochrome c reductase, complex III subunit X	0.9524	22
LIPE	Lipase E, hormone sensitive type	0.9524	22
NDUFA13	NADH:ubiquinone oxidoreductase subunit A13	0.9286	36
SLC24A3	Solute carrier family 24 member 3	0.9286	22
CLN5	CLN5 intracellular trafficking protein	0.9286	25
COMMD5	COMM domain containing 5	0.9286	25
TTC9C	Tetratricopeptide repeat domain 9C	0.9286	29
ARL8A	ADP ribosylation factor like GTPase 8A	0.9286	22
ISCU	Iron-sulfur cluster assembly enzyme	0.9286	22
STX6	Syntaxin 6	0.9048	22
C1orf131	Chromosome 1 open reading frame 131	0.9048	22
ATP6V1G1	ATPase H+ transporting V1 subunit G1	0.9048	22
RBM42	RNA binding motif protein 42	0.9048	36
TENT5A	Terminal nucleotidyltransferase 5A	0.9048	29