Single cell type - XNDC1N - 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.	XNDC1N
Gene descriptionⁱ Full gene name according to HGNC.	XRCC1 N-terminal domain containing 1, N-terminal like
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.	9

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 - Mixed function (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 (Renal connecting tubule cells, Loop of henle epithelial cells, Renal collecting duct intercalated cells, Renal collecting duct principal cells, Proximal tubule cells, Distal convoluted tubule cells, Papillary tip epithelial cells, Oligodendrocytes, Podocytes, Choroid plexus epithelial cells, Bergmann glia, Ependymal cells, Astrocytes, Oligodendrocyte progenitor cells, Microglia)
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.	0.85
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.	Low cell type specificity
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

Cell type enrichment

Single nuclei - Brain

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: Group enriched (Ductal cells, Renal nephron cells, Glial cells, Ciliated cells, Neuronal cells)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

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

XNDC1N is part of cluster 102 Non-specific - Mixed function with confidenceⁱ 1
284 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.
GTF2IRD2	GTF2I repeat domain containing 2	0.7958	105
INO80D	INO80 complex subunit D	0.7071	102
DET1	DET1 partner of COP1 E3 ubiquitin ligase	0.6896	105
UMAD1	UBAP1-MVB12-associated (UMA) domain containing 1	0.6602	105
ZNF844	Zinc finger protein 844	0.6583	50
RDH13	Retinol dehydrogenase 13	0.6561	50
HERC2	HECT and RLD domain containing E3 ubiquitin protein ligase 2	0.6530	102
BORCS8-MEF2B	BORCS8-MEF2B readthrough	0.6497	105
SGPP1	Sphingosine-1-phosphate phosphatase 1	0.6465	102
AGAP5	ArfGAP with GTPase domain, ankyrin repeat and PH domain 5	0.6440	102
GCGR	Glucagon receptor	0.6399	50
WDR27	WD repeat domain 27	0.6390	105
ITCH	Itchy E3 ubiquitin protein ligase	0.6329	102
KAT6B	Lysine acetyltransferase 6B	0.6298	102
PARN	Poly(A)-specific ribonuclease	0.6291	102

IMMUNE CELLS

XNDC1N is part of cluster 5 Non-specific - Cell proliferation with confidenceⁱ 1
689 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.
TSACC	TSSK6 activating cochaperone	0.9524	5
ATF2	Activating transcription factor 2	0.9048	43
C12orf76	Chromosome 12 open reading frame 76	0.9048	5
MTRF1	Mitochondrial translation release factor 1	0.9048	5
TASOR	Transcription activation suppressor	0.9048	24
AKAP1	A-kinase anchoring protein 1	0.8810	5
ARMH2	Armadillo like helical domain containing 2	0.8810	20
SMIM18	Small integral membrane protein 18	0.8810	20
ZNF273	Zinc finger protein 273	0.8810	5
IBA57	Iron-sulfur cluster assembly factor IBA57	0.8810	5
TRMT10B	TRNA methyltransferase 10B	0.8810	32
TTLL5	Tubulin tyrosine ligase like 5	0.8810	5
WASL	WASP like actin nucleation promoting factor	0.8810	5
SLC25A15	Solute carrier family 25 member 15	0.8810	20
TP53BP1	Tumor protein p53 binding protein 1	0.8571	5