Single cell type - JMJD7-PLA2G4B - 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.	JMJD7-PLA2G4B
Gene descriptionⁱ Full gene name according to HGNC.	JMJD7-PLA2G4B readthrough
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Metabolic proteins RAS pathway related proteins
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.	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.	Non-specific - Transcription (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 (Pancreatic endocrine cells, Basal squamous epithelial cells, Squamous epithelial cells, Melanocytes)
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.	0.82
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.	Immune cell enhanced (gdT-cell)
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 (Pancreatic endocrine cells, Basal squamous epithelial cells, Squamous epithelial cells, Melanocytes)

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: Immune cell enhanced (gdT-cell)
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

JMJD7-PLA2G4B is part of cluster 49 Non-specific - Transcription with confidenceⁱ 1
378 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.
ENSG00000265118	Novel protein	0.7135	7
ENSG00000261717	Novel TMEM170A-CFDP1 readthrough protein	0.6833	49
ADORA2A	Adenosine A2a receptor	0.6688	7
GPR25	G protein-coupled receptor 25	0.6649	7
ENSG00000260836	Novel protein	0.6444	49
NUTM2E	NUT family member 2E	0.6291	49
TEN1	TEN1 subunit of CST complex	0.6231	49
PAGR1	PAXIP1 associated glutamate rich protein 1	0.6027	49
ENSG00000285976	Novel protein	0.6024	49
LIME1	Lck interacting transmembrane adaptor 1	0.5918	7
DPH1	Diphthamide biosynthesis 1	0.5878	49
CDK5RAP3	CDK5 regulatory subunit associated protein 3	0.5877	49
TXNDC12	Thioredoxin domain containing 12	0.5873	49
TRBV7-7	T cell receptor beta variable 7-7	0.5823	7
ENSG00000285043	Novel protein	0.5817	49

IMMUNE CELLS

JMJD7-PLA2G4B is part of cluster 37 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 0.8
275 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.
CLIP4	CAP-Gly domain containing linker protein family member 4	1.0000	37
GCH1	GTP cyclohydrolase 1	1.0000	37
ITGAL	Integrin subunit alpha L	1.0000	37
SLC35E4	Solute carrier family 35 member E4	0.9762	37
ATL3	Atlastin GTPase 3	0.9762	37
PTPN13	Protein tyrosine phosphatase non-receptor type 13	0.9762	37
TBCE	Tubulin folding cofactor E	0.9524	37
NEFH	Neurofilament heavy chain	0.9524	37
NFKB1	Nuclear factor kappa B subunit 1	0.9524	37
GSTA4	Glutathione S-transferase alpha 4	0.9524	37
GYG1	Glycogenin 1	0.9524	37
PLBD2	Phospholipase B domain containing 2	0.9286	37
SPIDR	Scaffold protein involved in DNA repair	0.9286	37
ZNF513	Zinc finger protein 513	0.9286	37
SLC45A1	Solute carrier family 45 member 1	0.9286	33