Single cell type - PGPEP1 - The Human Protein Atlas

PGPEP1

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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.	PGPEP1
Gene descriptionⁱ Full gene name according to HGNC.	Pyroglutamyl-peptidase I
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes
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.	7

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.	Proximal tubular cells - Transmembrane transport (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 (Proximal tubular cells, Proximal enterocytes, Distal enterocytes)
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.	0.41
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.	Immune cell enhanced (basophil)
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 TYPESⁱ A summary of normalized single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types RNA single cell type specificity: Cell type enhanced (Proximal tubular cells, Proximal enterocytes, Distal enterocytes)

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: Immune cell enhanced (basophil)
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

PGPEP1 is part of cluster 38 Proximal tubular cells - Transmembrane transport with confidenceⁱ 1
131 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.
ABCC6	ATP binding cassette subfamily C member 6	0.5470	38
UNC5CL	Unc-5 family C-terminal like	0.5083	38
CLDN2	Claudin 2	0.5065	38
PDZK1IP1	PDZK1 interacting protein 1	0.5027	38
TINAG	Tubulointerstitial nephritis antigen	0.4968	38
UGT1A9	UDP glucuronosyltransferase family 1 member A9	0.4933	38
HDHD3	Haloacid dehalogenase like hydrolase domain containing 3	0.4884	5
KLHDC7A	Kelch domain containing 7A	0.4807	38
CUBN	Cubilin	0.4751	38
ABHD14A-ACY1	ABHD14A-ACY1 readthrough	0.4671	38
RENBP	Renin binding protein	0.4665	56
SLC13A1	Solute carrier family 13 member 1	0.4619	38
AP1M2	Adaptor related protein complex 1 subunit mu 2	0.4607	38
SLC23A3	Solute carrier family 23 member 3	0.4606	22
SLC47A2	Solute carrier family 47 member 2	0.4600	38

IMMUNE CELLS

PGPEP1 is part of cluster 42 Non-specific - Vesicular transport with confidenceⁱ 0.84
519 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.
PIGV	Phosphatidylinositol glycan anchor biosynthesis class V	0.9762	42
VTA1	Vesicle trafficking 1	0.9762	42
MBOAT1	Membrane bound O-acyltransferase domain containing 1	0.9762	42
TRIP12	Thyroid hormone receptor interactor 12	0.9762	42
SNX14	Sorting nexin 14	0.9762	42
EML2	EMAP like 2	0.9762	42
SRSF10	Serine and arginine rich splicing factor 10	0.9524	42
ZNF25	Zinc finger protein 25	0.9524	42
ZNF410	Zinc finger protein 410	0.9524	42
SRI	Sorcin	0.9524	42
RHEB	Ras homolog, mTORC1 binding	0.9286	42
PTPN12	Protein tyrosine phosphatase non-receptor type 12	0.9286	42
TAOK3	TAO kinase 3	0.9286	42
ACAD8	Acyl-CoA dehydrogenase family member 8	0.9286	42
TAX1BP1	Tax1 binding protein 1	0.9048	42

Adipocytes	7.2 nTPM
Breast	10.3 nTPM
Adipose tissue	4.2 nTPM

Alveolar cells type 1	10.3 nTPM
Lung	10.3 nTPM

Alveolar cells type 2	18.3 nTPM
Lung	18.3 nTPM

Astrocytes	9.9 nTPM
Brain	9.9 nTPM

B-cells	11.2 nTPM
Salivary gland	20.0 nTPM
Skin	15.2 nTPM
Liver	14.5 nTPM
Spleen	11.9 nTPM
Esophagus	11.8 nTPM
Thymus	11.3 nTPM
Adipose tissue	10.7 nTPM
Kidney	10.4 nTPM
Lymph node	10.0 nTPM
Stomach	8.4 nTPM
PBMC	7.7 nTPM
Bone marrow	7.2 nTPM
Lung	6.7 nTPM

Ciliated cells	15.3 nTPM
Bronchus	22.5 nTPM
Endometrium	14.9 nTPM
Lung	13.6 nTPM
Fallopian tube	10.4 nTPM

Club cells	21.5 nTPM
Prostate	25.4 nTPM
Bronchus	20.7 nTPM
Lung	18.3 nTPM

Endothelial cells	8.7 nTPM
Prostate	13.7 nTPM
Liver	12.6 nTPM
Vascular	12.3 nTPM
Salivary gland	12.1 nTPM
Tongue	10.3 nTPM
Placenta	10.2 nTPM
Endometrium	9.4 nTPM
Skeletal muscle	9.4 nTPM
Thymus	9.2 nTPM
Testis	8.9 nTPM
Heart muscle	8.8 nTPM
Ovary	8.8 nTPM
Lung	7.7 nTPM
Fallopian tube	7.2 nTPM
Esophagus	6.9 nTPM
Breast	6.2 nTPM
Skin	3.1 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	33.0 nTPM
Small intestine	37.8 nTPM
Rectum	36.9 nTPM
Colon	24.2 nTPM

Fibroblasts	9.9 nTPM
Esophagus	17.7 nTPM
Prostate	16.5 nTPM
Stomach	13.0 nTPM
Fallopian tube	10.9 nTPM
Liver	10.7 nTPM
Vascular	10.2 nTPM
Skeletal muscle	10.1 nTPM
Salivary gland	10.1 nTPM
Breast	9.8 nTPM
Lung	9.6 nTPM
Heart muscle	9.0 nTPM
Skin	8.8 nTPM
Adipose tissue	7.0 nTPM
Pancreas	6.3 nTPM
Thymus	5.4 nTPM
Placenta	3.6 nTPM

Granulocytes	38.9 nTPM
Tongue	43.7 nTPM
Lung	42.9 nTPM
Fallopian tube	30.2 nTPM

Intestinal goblet cells	21.1 nTPM
Rectum	27.6 nTPM
Small intestine	21.9 nTPM
Colon	13.8 nTPM

Lymphatic endothelial cells	8.6 nTPM
Ovary	10.9 nTPM
Fallopian tube	6.3 nTPM

Macrophages	20.7 nTPM
Pancreas	37.0 nTPM
Spleen	33.1 nTPM
Salivary gland	32.9 nTPM
Lung	28.1 nTPM
Prostate	28.0 nTPM
Thymus	25.1 nTPM
Vascular	25.1 nTPM
Kidney	23.9 nTPM
Stomach	20.6 nTPM
Fallopian tube	18.2 nTPM
Skeletal muscle	17.3 nTPM
Esophagus	16.7 nTPM
Bone marrow	16.2 nTPM
Endometrium	16.0 nTPM
Testis	13.0 nTPM
Skin	12.3 nTPM
Breast	12.2 nTPM
Tongue	9.8 nTPM
Adipose tissue	7.6 nTPM

Paneth cells	34.7 nTPM
Rectum	51.2 nTPM
Small intestine	31.1 nTPM
Colon	21.7 nTPM

Basal keratinocytes	1.7 nTPM
Tongue	2.1 nTPM
Skin	1.2 nTPM

Basal prostatic cells	24.7 nTPM
Prostate	24.7 nTPM

Bipolar cells	2.9 nTPM
Eye	2.9 nTPM

Cholangiocytes	38.2 nTPM
Liver	38.2 nTPM

Plasma cells	27.2 nTPM
Stomach	38.1 nTPM
Salivary gland	33.6 nTPM
Fallopian tube	30.2 nTPM
Liver	29.5 nTPM
Spleen	27.4 nTPM
Esophagus	26.0 nTPM
Thymus	20.5 nTPM
Bone marrow	12.1 nTPM

Schwann cells	10.7 nTPM
Esophagus	12.0 nTPM
Vascular	10.4 nTPM
Adipose tissue	9.8 nTPM

Serous glandular cells	26.4 nTPM
Salivary gland	44.0 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	11.7 nTPM
Salivary gland	25.1 nTPM
Vascular	18.2 nTPM
Prostate	17.0 nTPM
Liver	16.1 nTPM
Breast	11.3 nTPM
Fallopian tube	11.2 nTPM
Skin	11.1 nTPM
Ovary	11.1 nTPM
Skeletal muscle	11.0 nTPM
Endometrium	10.5 nTPM
Thymus	10.1 nTPM
Adipose tissue	9.1 nTPM
Esophagus	8.4 nTPM
Tongue	7.2 nTPM
Lung	5.9 nTPM
Placenta	4.3 nTPM

T-cells	16.7 nTPM
Salivary gland	28.2 nTPM
Liver	24.0 nTPM
Colon	22.4 nTPM
Vascular	22.1 nTPM
Prostate	21.3 nTPM
Thymus	20.4 nTPM
Tongue	20.0 nTPM
PBMC	19.2 nTPM
Lung	18.7 nTPM
Skeletal muscle	16.6 nTPM
Kidney	16.0 nTPM
Stomach	15.9 nTPM
Bone marrow	13.4 nTPM
Endometrium	13.3 nTPM
Fallopian tube	13.1 nTPM
Lymph node	12.4 nTPM
Spleen	12.3 nTPM
Breast	12.0 nTPM
Skin	10.9 nTPM
Adipose tissue	10.6 nTPM
Esophagus	7.3 nTPM

Undifferentiated cells	24.5 nTPM
Rectum	32.1 nTPM
Small intestine	28.2 nTPM
Colon	13.3 nTPM

Amygdala excitatory	24.1 nTPM
Hypothalamus	36.6 nTPM
Basal ganglia	24.0 nTPM
Cerebral cortex	23.7 nTPM
Hippocampus	23.5 nTPM
Amygdala	22.4 nTPM
Thalamus	14.5 nTPM

Astrocyte	21.0 nTPM
Spinal cord	27.0 nTPM
Cerebellum	26.6 nTPM
Pons	22.2 nTPM
Midbrain	22.1 nTPM
Hippocampus	19.9 nTPM
Thalamus	19.6 nTPM
Amygdala	19.4 nTPM
Cerebral cortex	19.4 nTPM
Medulla oblongata	19.0 nTPM
Hypothalamus	18.2 nTPM
Basal ganglia	17.8 nTPM

Bergmann glia	12.8 nTPM
Cerebellum	14.9 nTPM
Medulla oblongata	14.9 nTPM
Pons	8.6 nTPM

Central nervous system macrophage	42.5 nTPM
Cerebral cortex	52.5 nTPM
Hippocampus	50.9 nTPM
Cerebellum	47.0 nTPM
Amygdala	46.2 nTPM
Midbrain	44.5 nTPM
Pons	43.4 nTPM
Thalamus	41.6 nTPM
Basal ganglia	39.9 nTPM
Medulla oblongata	36.4 nTPM
Hypothalamus	36.2 nTPM
Spinal cord	28.6 nTPM

Cerebellar inhibitory	13.7 nTPM
Spinal cord	24.7 nTPM
Medulla oblongata	12.2 nTPM
Cerebellum	11.4 nTPM
Midbrain	10.3 nTPM
Pons	9.7 nTPM

Cge interneuron	14.5 nTPM
Hypothalamus	23.8 nTPM
Amygdala	16.1 nTPM
Hippocampus	15.5 nTPM
Cerebral cortex	14.7 nTPM
Basal ganglia	12.5 nTPM
Midbrain	11.1 nTPM
Thalamus	7.9 nTPM

Choroid plexus epithelial cell	36.0 nTPM
Basal ganglia	47.6 nTPM
Medulla oblongata	35.9 nTPM
Hippocampus	30.5 nTPM
Thalamus	30.1 nTPM

Committed oligodendrocyte precursor	10.6 nTPM
Basal ganglia	14.2 nTPM
Hippocampus	12.4 nTPM
Pons	12.4 nTPM
Hypothalamus	11.6 nTPM
Medulla oblongata	11.6 nTPM
Midbrain	10.9 nTPM
Thalamus	10.4 nTPM
Amygdala	9.0 nTPM
Cerebral cortex	8.9 nTPM
Cerebellum	7.9 nTPM
Spinal cord	7.4 nTPM

Deep-layer corticothalamic and 6b	25.0 nTPM
Hypothalamus	42.1 nTPM
Hippocampus	27.9 nTPM
Amygdala	25.1 nTPM
Cerebral cortex	22.5 nTPM
Basal ganglia	16.7 nTPM
Midbrain	15.5 nTPM

Deep-layer intratelencephalic	20.1 nTPM
Hypothalamus	33.6 nTPM
Amygdala	19.1 nTPM
Cerebral cortex	17.1 nTPM
Hippocampus	16.6 nTPM
Basal ganglia	14.3 nTPM

Deep-layer near-projecting	30.7 nTPM
Hypothalamus	45.2 nTPM
Amygdala	35.9 nTPM
Cerebral cortex	25.4 nTPM
Hippocampus	23.7 nTPM
Basal ganglia	23.1 nTPM

Eccentric medium spiny neuron	14.0 nTPM
Hypothalamus	15.7 nTPM
Thalamus	15.7 nTPM
Basal ganglia	14.4 nTPM
Cerebral cortex	14.4 nTPM
Amygdala	13.0 nTPM
Hippocampus	10.8 nTPM

Endothelial cell	14.4 nTPM
Midbrain	19.8 nTPM
Hippocampus	19.2 nTPM
Hypothalamus	18.6 nTPM
Basal ganglia	16.8 nTPM
Amygdala	15.6 nTPM
Cerebral cortex	14.7 nTPM
Pons	12.5 nTPM
Spinal cord	12.1 nTPM
Thalamus	11.9 nTPM
Cerebellum	9.3 nTPM
Medulla oblongata	8.2 nTPM

Ependymal cell	14.8 nTPM
Hypothalamus	19.6 nTPM
Basal ganglia	18.8 nTPM
Amygdala	15.9 nTPM
Hippocampus	14.6 nTPM
Midbrain	14.0 nTPM
Pons	13.7 nTPM
Spinal cord	13.4 nTPM
Thalamus	12.1 nTPM
Medulla oblongata	11.2 nTPM