Single cell type - ATP5MF-PTCD1 - 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.	ATP5MF-PTCD1
Gene descriptionⁱ Full gene name according to HGNC.	ATP5MF-PTCD1 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.	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.	Oocytes - Oogenesis (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 enriched (Oocytes)
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 (nCPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. * Single nuclei Read more
Single cell type groups RNA single cell type group specificity: Cell type enriched (Oocytes)

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

ATP5MF-PTCD1 is part of cluster 41 Oocytes - Oogenesis with confidenceⁱ 1
74 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.
KRT36	Keratin 36	0.5495	85
FAM25G	Family with sequence similarity 25 member G	0.5121	85
HOXC13	Homeobox C13	0.4764	26
ALOXE3	Arachidonate lipoxygenase 3	0.4457	41
TLE7	TLE family member 7	0.4389	41
ACTL8	Actin like 8	0.4387	41
NLRP5	NLR family pyrin domain containing 5	0.4326	41
MAGEB2	MAGE family member B2	0.4324	106
RPP40	Ribonuclease P/MRP subunit p40	0.4273	17
PDCD5	Programmed cell death 5	0.4262	41
LRRC8E	Leucine rich repeat containing 8 VRAC subunit E	0.4246	85
PRDM13	PR/SET domain 13	0.4209	41
PFDN2	Prefoldin subunit 2	0.4140	17
LIPM	Lipase family member M	0.4113	49
LHX8	LIM homeobox 8	0.4022	41

IMMUNE CELLS

ATP5MF-PTCD1 is part of cluster 13 Non-specific - Mitochondria with confidenceⁱ 0.94
458 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.
COX5A	Cytochrome c oxidase subunit 5A	0.9762	13
HSD17B10	Hydroxysteroid 17-beta dehydrogenase 10	0.9762	13
DUS3L	Dihydrouridine synthase 3 like	0.9762	13
ENSG00000255639	Novel protein	0.9524	33
ARMC6	Armadillo repeat containing 6	0.9524	33
MPV17	Mitochondrial inner membrane protein MPV17	0.9524	13
CPSF3	Cleavage and polyadenylation specific factor 3	0.9524	13
ITPA	Inosine triphosphatase	0.9524	13
ERAL1	Era like 12S mitochondrial rRNA chaperone 1	0.9524	13
ATG4B	Autophagy related 4B cysteine peptidase	0.9524	13
MDH2	Malate dehydrogenase 2	0.9524	13
PIGF	Phosphatidylinositol glycan anchor biosynthesis class F	0.9524	13
NDUFA9	NADH:ubiquinone oxidoreductase subunit A9	0.9286	13
HDAC3	Histone deacetylase 3	0.9286	12
TRAPPC2L	Trafficking protein particle complex subunit 2L	0.9286	13