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
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Essential 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.	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 enriched (Epicardial 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.	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

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 (Barrier epithelial cells)

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ

HPA datasetⁱ

Lineage

Expression

Alphabetical

Immune cell type specificity: Not detected in immune cells

Monaco datasetⁱ

Lineage

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

PYDC5 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.
KDM4E	Lysine demethylase 4E	0.8814	71
ACSM1	Acyl-CoA synthetase medium chain family member 1	0.8795	71
ENSG00000268361	Novel protein	0.8645	71
LDLRAD2	Low density lipoprotein receptor class A domain containing 2	0.8385	71
OR13C7	Olfactory receptor family 13 subfamily C member 7 (gene/pseudogene)	0.8351	71
MYH13	Myosin heavy chain 13	0.8330	71
C12orf60	Chromosome 12 open reading frame 60	0.8286	71
OR52B6	Olfactory receptor family 52 subfamily B member 6	0.8105	71
THUMPD1	THUMP domain containing 1	0.8040	71
FRS3	Fibroblast growth factor receptor substrate 3	0.8034	71
ANGPTL6	Angiopoietin like 6	0.8026	71
OR10G7	Olfactory receptor family 10 subfamily G member 7	0.7891	71
OR4D5	Olfactory receptor family 4 subfamily D member 5	0.7664	71
OR1L4	Olfactory receptor family 1 subfamily L member 4	0.7638	71
ENSG00000272104	Novel protein	0.7586	71

IMMUNE CELLS

PYDC5 is part of cluster 15 NK-cells - Unknown function with confidenceⁱ 0.69
158 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.
KIR3DL1	Killer cell immunoglobulin like receptor, three Ig domains and long cytoplasmic tail 1	1.0000	15
TRGC1	T cell receptor gamma constant 1	1.0000	15
TRGJP2	T cell receptor gamma joining P2	1.0000	15
COLGALT2	Collagen beta(1-O)galactosyltransferase 2	1.0000	15
DTHD1	Death domain containing 1	1.0000	15
ZNF600	Zinc finger protein 600	1.0000	15
CTSW	Cathepsin W	1.0000	15
EPHX4	Epoxide hydrolase 4	1.0000	15
ELOVL6	ELOVL fatty acid elongase 6	1.0000	15
PTGDR	Prostaglandin D2 receptor	1.0000	15
MATK	Megakaryocyte-associated tyrosine kinase	1.0000	15
EOMES	Eomesodermin	1.0000	15
LEXM	Lymphocyte expansion molecule	1.0000	15
DUSP2	Dual specificity phosphatase 2	1.0000	15
PRSS23	Serine protease 23	1.0000	15