Single cell type - PET117 - The Human Protein Atlas

PET117

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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.	PET117
Gene descriptionⁱ Full gene name according to HGNC.	PET117 cytochrome c oxidase chaperone
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes
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 - Basic cellular processes (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.	Low cell type specificity
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.	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.	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 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: Low cell type specificity

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.

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

PET117 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 1
835 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.
CNPY2	Canopy FGF signaling regulator 2	0.5581	4
ENSG00000273155	Novel LIPT1-MRPL30 readthrough	0.5485	64
GTF2H2	General transcription factor IIH subunit 2	0.5457	55
RMND1	Required for meiotic nuclear division 1 homolog	0.5242	22
YDJC	YdjC chitooligosaccharide deacetylase homolog	0.5100	45
HNRNPA1L3	Heterogeneous nuclear ribonucleoprotein A1 like 3	0.5016	64
C2orf15	Chromosome 2 open reading frame 15	0.5000	44
LRRC61	Leucine rich repeat containing 61	0.4916	38
GLOD4	Glyoxalase domain containing 4	0.4851	39
CLN5	CLN5 intracellular trafficking protein	0.4851	4
NMRAL1	NmrA like redox sensor 1	0.4806	4
VPS33B	VPS33B late endosome and lysosome associated	0.4798	24
CLDN2	Claudin 2	0.4782	38
RNASEH1	Ribonuclease H1	0.4745	45
PPAN	Peter pan homolog	0.4724	39

IMMUNE CELLS

PET117 is part of cluster 12 Non-specific - Mitochondrial translation with confidenceⁱ 0.99
566 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.
MRPS24	Mitochondrial ribosomal protein S24	0.9762	12
FAAP100	FA core complex associated protein 100	0.9762	12
TMEM147	Transmembrane protein 147	0.9762	12
MICOS13	Mitochondrial contact site and cristae organizing system subunit 13	0.9762	12
GNL2	G protein nucleolar 2	0.9762	12
MCTS1	MCTS1 re-initiation and release factor	0.9524	12
FAM174C	Family with sequence similarity 174 member C	0.9524	12
TMEM39A	Transmembrane protein 39A	0.9524	8
BANF1	BAF nuclear assembly factor 1	0.9524	12
ZNRD2	Zinc ribbon domain containing 2	0.9524	12
LSS	Lanosterol synthase	0.9524	12
TRIM28	Tripartite motif containing 28	0.9524	12
MRPS12	Mitochondrial ribosomal protein S12	0.9524	12
MRPS34	Mitochondrial ribosomal protein S34	0.9524	12
MRS2	Magnesium transporter MRS2	0.9286	12

Adipocytes	6.7 nTPM
Breast	8.7 nTPM
Adipose tissue	4.7 nTPM

Alveolar cells type 1	11.5 nTPM
Lung	11.5 nTPM

Alveolar cells type 2	10.4 nTPM
Lung	10.4 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	4.3 nTPM
PBMC	15.4 nTPM
Liver	9.7 nTPM
Lung	8.0 nTPM
Salivary gland	5.3 nTPM
Kidney	5.2 nTPM
Skin	5.1 nTPM
Adipose tissue	2.5 nTPM
Thymus	2.2 nTPM
Bone marrow	1.4 nTPM
Spleen	0.4 nTPM
Stomach	0.4 nTPM
Lymph node	0.1 nTPM
Esophagus	0.0 nTPM

Ciliated cells	8.5 nTPM
Fallopian tube	9.4 nTPM
Bronchus	8.7 nTPM
Lung	8.4 nTPM
Endometrium	7.4 nTPM

Club cells	9.3 nTPM
Bronchus	14.8 nTPM
Lung	7.7 nTPM
Prostate	5.5 nTPM

Endothelial cells	5.3 nTPM
Testis	9.8 nTPM
Ovary	9.5 nTPM
Skeletal muscle	8.8 nTPM
Pancreas	7.8 nTPM
Placenta	7.4 nTPM
Skin	6.9 nTPM
Fallopian tube	6.5 nTPM
Lung	6.3 nTPM
Heart muscle	6.2 nTPM
Breast	6.2 nTPM
Prostate	5.8 nTPM
Endometrium	3.3 nTPM
Tongue	3.0 nTPM
Vascular	2.6 nTPM
Thymus	1.9 nTPM
Salivary gland	1.8 nTPM
Liver	1.3 nTPM
Esophagus	0.9 nTPM

Enteroendocrine cells	15.4 nTPM
Small intestine	20.6 nTPM
Colon	18.9 nTPM
Rectum	6.7 nTPM

Fibroblasts	6.1 nTPM
Placenta	16.8 nTPM
Pancreas	16.5 nTPM
Lung	7.9 nTPM
Adipose tissue	7.8 nTPM
Prostate	7.3 nTPM
Skeletal muscle	6.7 nTPM
Breast	6.1 nTPM
Heart muscle	5.8 nTPM
Fallopian tube	5.8 nTPM
Skin	5.6 nTPM
Liver	4.7 nTPM
Salivary gland	3.1 nTPM
Vascular	2.5 nTPM
Thymus	1.7 nTPM
Esophagus	0.1 nTPM
Stomach	0.0 nTPM

Granulocytes	4.3 nTPM
Lung	7.6 nTPM
Fallopian tube	5.4 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	14.5 nTPM
Colon	16.0 nTPM
Rectum	15.9 nTPM
Small intestine	11.5 nTPM

Lymphatic endothelial cells	5.4 nTPM
Ovary	5.5 nTPM
Fallopian tube	5.4 nTPM

Macrophages	5.1 nTPM
Pancreas	22.6 nTPM
Lung	13.2 nTPM
Kidney	11.5 nTPM
Breast	7.0 nTPM
Prostate	6.0 nTPM
Testis	5.6 nTPM
Vascular	4.3 nTPM
Skeletal muscle	4.2 nTPM
Endometrium	3.7 nTPM
Adipose tissue	3.4 nTPM
Fallopian tube	3.2 nTPM
Salivary gland	2.9 nTPM
Thymus	2.9 nTPM
Tongue	2.8 nTPM
Skin	2.2 nTPM
Bone marrow	1.0 nTPM
Esophagus	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	8.5 nTPM
Rectum	14.8 nTPM
Colon	7.2 nTPM
Small intestine	3.5 nTPM

Basal prostatic cells	10.8 nTPM
Prostate	10.8 nTPM

Basal respiratory cells	15.0 nTPM
Bronchus	15.0 nTPM

Basal squamous epithelial cells	0.2 nTPM
Esophagus	0.2 nTPM

Bipolar cells	13.3 nTPM
Eye	13.3 nTPM

Plasma cells	3.4 nTPM
Liver	13.0 nTPM
Fallopian tube	5.8 nTPM
Salivary gland	4.0 nTPM
Thymus	3.4 nTPM
Spleen	0.5 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	6.3 nTPM
Esophagus	12.0 nTPM
Adipose tissue	4.3 nTPM
Vascular	2.6 nTPM

Serous glandular cells	2.7 nTPM
Salivary gland	5.5 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	6.5 nTPM
Fallopian tube	12.5 nTPM
Ovary	12.4 nTPM
Placenta	11.5 nTPM
Skeletal muscle	10.6 nTPM
Liver	9.3 nTPM
Prostate	9.1 nTPM
Breast	8.0 nTPM
Salivary gland	6.7 nTPM
Adipose tissue	5.3 nTPM
Skin	5.1 nTPM
Vascular	4.2 nTPM
Endometrium	3.3 nTPM
Lung	2.4 nTPM
Thymus	2.2 nTPM
Tongue	2.1 nTPM
Esophagus	0.0 nTPM

T-cells	5.9 nTPM
Kidney	19.5 nTPM
PBMC	14.2 nTPM
Prostate	12.1 nTPM
Liver	10.2 nTPM
Lung	9.4 nTPM
Fallopian tube	7.4 nTPM
Breast	6.9 nTPM
Salivary gland	5.9 nTPM
Colon	5.8 nTPM
Skin	5.6 nTPM
Adipose tissue	4.8 nTPM
Vascular	4.8 nTPM
Thymus	4.5 nTPM
Skeletal muscle	4.2 nTPM
Endometrium	4.0 nTPM
Tongue	3.6 nTPM
Bone marrow	0.7 nTPM
Lymph node	0.4 nTPM
Spleen	0.2 nTPM
Stomach	0.1 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	21.7 nTPM
Small intestine	23.2 nTPM
Colon	22.8 nTPM
Rectum	19.1 nTPM