Single cell type - ENSG00000260643 - 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.	ENSG00000260643
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, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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.	Early 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 (Early spermatids, Late spermatids, Ciliated 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.	0.86
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 (Early spermatids, Late spermatids, Ciliated 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

ENSG00000260643 is part of cluster 21 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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.
C5orf49	Chromosome 5 open reading frame 49	0.6346	42
TMCO2	Transmembrane and coiled-coil domains 2	0.5984	21
EFCAB11	EF-hand calcium binding domain 11	0.5808	11
ACTL7B	Actin like 7B	0.5788	21
SERP2	Stress associated endoplasmic reticulum protein family member 2	0.5767	21
DNTT	DNA nucleotidylexotransferase	0.5725	11
CCN6	Cellular communication network factor 6	0.5717	21
CCDC74B	Coiled-coil domain containing 74B	0.5716	21
DXO	Decapping exoribonuclease	0.5664	21
TEX55	Testis expressed 55	0.5626	11
PP2D1	Protein phosphatase 2C like domain containing 1	0.5595	11
BAG5	BAG cochaperone 5	0.5594	11
OR8B2	Olfactory receptor family 8 subfamily B member 2	0.5576	21
CCIN	Calicin	0.5558	21
TEKT2	Tektin 2	0.5551	42

IMMUNE CELLS

ENSG00000260643 is part of cluster 14 Non-specific - Unknown function with confidenceⁱ 0.99
292 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.
EP400	E1A binding protein p400	1.0000	14
PYCR3	Pyrroline-5-carboxylate reductase 3	1.0000	14
ACACA	Acetyl-CoA carboxylase alpha	0.9762	14
HYLS1	HYLS1 centriolar and ciliogenesis associated	0.9762	23
THOP1	Thimet oligopeptidase 1	0.9762	14
TFB2M	Transcription factor B2, mitochondrial	0.9762	14
JADE3	Jade family PHD finger 3	0.9762	14
SQLE	Squalene epoxidase	0.9524	23
ELL3	Elongation factor for RNA polymerase II 3	0.9524	14
KHDRBS2	KH RNA binding domain containing, signal transduction associated 2	0.9524	14
TSPAN13	Tetraspanin 13	0.9524	14
LIN7B	Lin-7 homolog B, crumbs cell polarity complex component	0.9524	14
CD38	CD38 molecule	0.9524	14
CD40	CD40 molecule	0.9524	23
BRMS1L	BRMS1 like transcriptional repressor	0.9524	14