Single cell type - TNFSF12-TNFSF13 - 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.	TNFSF12-TNFSF13
Gene descriptionⁱ Full gene name according to HGNC.	TNFSF12-TNFSF13 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.	Non-specific - Cardiac endocrine signaling & maintenanc (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 (Gastric chief 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.	0.96
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 (eosinophil)
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

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 enhanced (Gastric glandular 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: Immune cell enhanced (eosinophil)
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

TNFSF12-TNFSF13 is part of cluster 71 Non-specific - Cardiac endocrine signaling & maintenanc with confidenceⁱ 1
353 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.
ZNF740	Zinc finger protein 740	0.6520	89
REPIN1	Replication initiator 1	0.6442	89
ENSG00000267318	Novel protein	0.6183	89
MIP	Major intrinsic protein of lens fiber	0.6002	71
RBM7	RNA binding motif protein 7	0.5984	60
ENSG00000258728	Novel protein (GALT-IL11RA readthrough)	0.5980	89
COPG2	COPI coat complex subunit gamma 2	0.5952	89
LRRC10	Leucine rich repeat containing 10	0.5951	60
NDUFC2-KCTD14	NDUFC2-KCTD14 readthrough	0.5843	89
ENSG00000285938	BCL6 antisense 1	0.5811	71
DNAJC14	DnaJ heat shock protein family (Hsp40) member C14	0.5776	89
LBHD1	LBH domain containing 1	0.5771	71
DLAT	Dihydrolipoamide S-acetyltransferase	0.5641	89
ENSG00000131152	Novel protein	0.5527	71
ENSG00000173867	Novel transcript	0.5460	71

IMMUNE CELLS

TNFSF12-TNFSF13 is part of cluster 19 Eosinophils - Unknown function with confidenceⁱ 1
83 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.
GADD45A	Growth arrest and DNA damage inducible alpha	1.0000	19
PPP1R1B	Protein phosphatase 1 regulatory inhibitor subunit 1B	1.0000	19
F12	Coagulation factor XII	1.0000	19
NECTIN2	Nectin cell adhesion molecule 2	1.0000	19
PPDPF	Pancreatic progenitor cell differentiation and proliferation factor	1.0000	19
SEMG1	Semenogelin 1	1.0000	19
GPSM2	G protein signaling modulator 2	1.0000	19
TMIGD3	Transmembrane and immunoglobulin domain containing 3	1.0000	19
ARAP3	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3	1.0000	19
RXYLT1	Ribitol xylosyltransferase 1	1.0000	19
WAS	WASP actin nucleation promoting factor	1.0000	19
FKBP8	FKBP prolyl isomerase 8	1.0000	19
PRSS33	Serine protease 33	1.0000	19
RENBP	Renin binding protein	1.0000	19
CEBPE	CCAAT enhancer binding protein epsilon	1.0000	19