Single cell type - PYDC5 - 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.	PYDC5
Gene descriptionⁱ Full gene name according to HGNC.	Pyrin domain containing 5
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.	NK-cells & T-cells - Naive homeostasis & antigen recognition (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 (Bone marrow MSCs, Basophils)
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.	0.94
Brain cell type 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.	Not detected in immune cells
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 summary (DVP)

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
Single cell type groups RNA single cell type group specificity: Cell type enhanced (Stromal cells, Basophils)

DVP - RNA AND PROTEIN ABUNDANCE COMPARISON

RNA cell type specificity:	Group enriched (Granulosa cells, T-cells)	Agreement detection:	N/A
Protein cell type specificity:	Not detected	Agreement expression:	N/A
RNA tau score:	0.89	Overlap:	Not detected - Protein
Protein tau score:	Not detected

EXPRESSION CLUSTERING & CORRELATIONⁱ

PYDC5 is part of cluster 100 NK-cells & T-cells - Naive homeostasis & antigen recognition with confidenceⁱ 1
533 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.
PYHIN1	Pyrin and HIN domain family member 1	0.5404	100
MYBL1	MYB proto-oncogene like 1	0.5399	100
KIR3DL1	Killer cell immunoglobulin like receptor, three Ig domains and long cytoplasmic tail 1	0.5360	100
SLFN12L	Schlafen family member 12 like	0.5076	100
TRGV1	T cell receptor gamma variable 1 (non-functional)	0.5071	42
IFI16	Interferon gamma inducible protein 16	0.5053	98
KIR2DL1	Killer cell immunoglobulin like receptor, two Ig domains and long cytoplasmic tail 1	0.5040	100
KIR2DL3	Killer cell immunoglobulin like receptor, two Ig domains and long cytoplasmic tail 3	0.4932	100
SLAMF6	SLAM family member 6	0.4924	100
KIR3DL2	Killer cell immunoglobulin like receptor, three Ig domains and long cytoplasmic tail 2	0.4900	100
PTGDR	Prostaglandin D2 receptor	0.4857	100
NCR1	Natural cytotoxicity triggering receptor 1	0.4842	105
ENSG00000260914	Novel protein	0.4700	29
KIR2DS4	Killer cell immunoglobulin like receptor, two Ig domains and short cytoplasmic tail 4	0.4625	100
RINL	Ras and Rab interactor like	0.4564	100