Single cell type - TYMP - 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.	TYMP
Gene descriptionⁱ Full gene name according to HGNC.	Thymidine phosphorylase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Enzymes FDA approved drug targets Human disease related genes Metabolic proteins Plasma 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.	11

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.	Monocytes & Neutrophils - Inflammatory signaling (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 (Monocytes, Neutrophils, Extravillous trophoblasts, CDC, Macrophages, Esophageal suprabasal cells, Esophageal apical 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.	0.53
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.	Group enriched (Leukocyte, Ependymal cell, Central nervous system macrophage)
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.	Group enriched (classical monocyte, neutrophil, intermediate monocyte, non-classical monocyte, eosinophil, myeloid DC)
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: Cell type enhanced (Mononuclear phagocytes, Neutrophils, Trophoblast 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: Group enriched (Leukocyte, Ependymal cell, Central nervous system macrophage)

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: Group enriched (classical monocyte, neutrophil, intermediate monocyte, non-classical monocyte, eosinophil, myeloid DC)
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

TYMP is part of cluster 40 Monocytes & Neutrophils - Inflammatory signaling with confidenceⁱ 1
283 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.
AIF1	Allograft inflammatory factor 1	0.7348	40
CD300C	CD300c molecule	0.7029	40
LST1	Leukocyte specific transcript 1	0.6947	40
COTL1	Coactosin like F-actin binding protein 1	0.6677	40
CASP1	Caspase 1	0.6580	40
CD300E	CD300e molecule	0.6140	40
TYROBP	Transmembrane immune signaling adaptor TYROBP	0.6139	40
NOD2	Nucleotide binding oligomerization domain containing 2	0.6106	40
CD300H	CD300H molecule (gene/pseudogene)	0.6087	40
TCIRG1	T cell immune regulator 1, ATPase H+ transporting V0 subunit a3	0.5953	40
C1orf162	Chromosome 1 open reading frame 162	0.5904	40
CD1D	CD1d molecule	0.5742	40
TNFRSF1B	TNF receptor superfamily member 1B	0.5726	40
LRRC25	Leucine rich repeat containing 25	0.5714	40
MYD88	MYD88 innate immune signal transduction adaptor	0.5677	40

IMMUNE CELLS

TYMP is part of cluster 25 Non-specific - Unknown function with confidenceⁱ 0.89
355 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.
KDM1B	Lysine demethylase 1B	1.0000	25
PNPLA6	Patatin like phospholipase domain containing 6	1.0000	25
VIPAS39	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog	1.0000	25
SIGLEC10	Sialic acid binding Ig like lectin 10	1.0000	25
ZMAT5	Zinc finger matrin-type 5	1.0000	25
FAM32A	Family with sequence similarity 32 member A	1.0000	25
NUP93	Nucleoporin 93	0.9762	25
LPCAT3	Lysophosphatidylcholine acyltransferase 3	0.9762	25
EIF2B1	Eukaryotic translation initiation factor 2B subunit alpha	0.9762	25
PPM1H	Protein phosphatase, Mg2+/Mn2+ dependent 1H	0.9762	25
SNX15	Sorting nexin 15	0.9762	25
SNAPC2	Small nuclear RNA activating complex polypeptide 2	0.9762	25
ALDH3B1	Aldehyde dehydrogenase 3 family member B1	0.9762	25
TESC	Tescalcin	0.9762	25
JMJD6	Jumonji domain containing 6, arginine demethylase and lysine hydroxylase	0.9762	25