Single cell type - RRP8 - The Human Protein Atlas

RRP8

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Pathway

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.	RRP8
Gene descriptionⁱ Full gene name according to HGNC.	Ribosomal RNA processing 8
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.	2

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.	Neurons - Neuronal 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.	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.	0.26
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.	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.

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: 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

RRP8 is part of cluster 34 Neurons - Neuronal signaling with confidenceⁱ 1
518 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.
PUS7	Pseudouridine synthase 7	0.5360	39
FAM47E-STBD1	FAM47E-STBD1 readthrough	0.4773	34
MED27	Mediator complex subunit 27	0.4761	34
RNF103-CHMP3	RNF103-CHMP3 readthrough	0.4722	34
BTRC	Beta-transducin repeat containing E3 ubiquitin protein ligase	0.4556	76
C8orf44-SGK3	C8orf44-SGK3 readthrough	0.4543	34
LINGO1	Leucine rich repeat and Ig domain containing 1	0.4541	76
CACNA1E	Calcium voltage-gated channel subunit alpha1 E	0.4541	34
CACNB2	Calcium voltage-gated channel auxiliary subunit beta 2	0.4536	34
DDX18	DEAD-box helicase 18	0.4535	39
COA4	Cytochrome c oxidase assembly factor 4 homolog	0.4532	39
TAC4	Tachykinin precursor 4	0.4505	34
PTK2	Protein tyrosine kinase 2	0.4485	34
PPFIA2	PTPRF interacting protein alpha 2	0.4472	34
RPS6KC1	Ribosomal protein S6 kinase C1	0.4471	34

IMMUNE CELLS

RRP8 is part of cluster 36 Eosinophils - Protein ubiquitination with confidenceⁱ 0.56
179 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.
GRPEL1	GrpE like 1, mitochondrial	1.0000	36
CTSA	Cathepsin A	0.9762	36
C19orf25	Chromosome 19 open reading frame 25	0.9762	36
UQCR11	Ubiquinol-cytochrome c reductase, complex III subunit XI	0.9762	36
VKORC1	Vitamin K epoxide reductase complex subunit 1	0.9762	29
HP	Haptoglobin	0.9524	36
PDCD6	Programmed cell death 6	0.9524	36
UBL5	Ubiquitin like 5	0.9524	36
MRPL41	Mitochondrial ribosomal protein L41	0.9524	29
CHST13	Carbohydrate sulfotransferase 13	0.9524	36
AURKAIP1	Aurora kinase A interacting protein 1	0.9524	36
RNASE3	Ribonuclease A family member 3	0.9524	29
SMIM12	Small integral membrane protein 12	0.9524	36
NEDD8	NEDD8 ubiquitin like modifier	0.9524	29
ZNF516	Zinc finger protein 516	0.9286	36

Adipocytes	16.3 nTPM
Adipose tissue	17.6 nTPM
Breast	15.0 nTPM

Alveolar cells type 1	19.4 nTPM
Lung	19.4 nTPM

Alveolar cells type 2	16.4 nTPM
Lung	16.4 nTPM

Astrocytes	35.3 nTPM
Brain	35.3 nTPM

B-cells	18.5 nTPM
Esophagus	29.5 nTPM
Adipose tissue	25.1 nTPM
PBMC	24.6 nTPM
Stomach	22.8 nTPM
Salivary gland	22.1 nTPM
Lung	18.8 nTPM
Thymus	18.6 nTPM
Bone marrow	18.5 nTPM
Spleen	16.6 nTPM
Kidney	15.6 nTPM
Lymph node	13.8 nTPM
Skin	10.2 nTPM
Liver	4.8 nTPM

Ciliated cells	11.6 nTPM
Lung	13.7 nTPM
Endometrium	13.5 nTPM
Fallopian tube	11.1 nTPM
Bronchus	7.9 nTPM

Club cells	13.0 nTPM
Prostate	14.2 nTPM
Lung	13.3 nTPM
Bronchus	11.5 nTPM

Dendritic cells	15.3 nTPM
Adipose tissue	16.2 nTPM
PBMC	14.4 nTPM

Endothelial cells	15.9 nTPM
Fallopian tube	26.9 nTPM
Heart muscle	23.5 nTPM
Placenta	20.4 nTPM
Skin	19.8 nTPM
Lung	19.4 nTPM
Endometrium	17.2 nTPM
Ovary	16.9 nTPM
Testis	16.8 nTPM
Vascular	15.8 nTPM
Thymus	15.4 nTPM
Esophagus	15.1 nTPM
Skeletal muscle	14.2 nTPM
Breast	13.2 nTPM
Prostate	12.8 nTPM
Tongue	12.6 nTPM
Salivary gland	11.1 nTPM
Pancreas	7.8 nTPM
Liver	6.3 nTPM

Enteroendocrine cells	13.6 nTPM
Colon	20.5 nTPM
Small intestine	10.3 nTPM
Rectum	10.1 nTPM

Fibroblasts	15.3 nTPM
Pancreas	23.9 nTPM
Adipose tissue	19.6 nTPM
Prostate	17.8 nTPM
Fallopian tube	17.8 nTPM
Stomach	17.3 nTPM
Vascular	16.1 nTPM
Lung	15.8 nTPM
Thymus	15.4 nTPM
Placenta	15.2 nTPM
Skin	15.1 nTPM
Breast	15.0 nTPM
Salivary gland	14.7 nTPM
Skeletal muscle	14.2 nTPM
Heart muscle	12.3 nTPM
Esophagus	8.9 nTPM
Liver	5.9 nTPM

Granulocytes	17.8 nTPM
Fallopian tube	27.1 nTPM
Lung	16.6 nTPM
Tongue	9.7 nTPM

Intestinal goblet cells	13.7 nTPM
Colon	17.2 nTPM
Rectum	12.1 nTPM
Small intestine	11.8 nTPM

Lymphatic endothelial cells	14.9 nTPM
Fallopian tube	24.3 nTPM
Ovary	5.5 nTPM

Macrophages	13.4 nTPM
Testis	19.8 nTPM
Lung	19.4 nTPM
Prostate	16.2 nTPM
Stomach	15.4 nTPM
Thymus	15.4 nTPM
Breast	14.4 nTPM
Adipose tissue	14.3 nTPM
Endometrium	14.1 nTPM
Salivary gland	13.6 nTPM
Skin	13.4 nTPM
Skeletal muscle	13.3 nTPM
Vascular	13.1 nTPM
Pancreas	12.3 nTPM
Fallopian tube	12.2 nTPM
Esophagus	11.6 nTPM
Tongue	11.4 nTPM
Kidney	10.6 nTPM
Bone marrow	8.1 nTPM
Spleen	6.0 nTPM

Basal squamous epithelial cells	14.0 nTPM
Esophagus	14.0 nTPM

Bipolar cells	17.4 nTPM
Eye	17.4 nTPM

Cholangiocytes	9.5 nTPM
Liver	9.5 nTPM

Cone photoreceptor cells	11.9 nTPM
Eye	11.9 nTPM

Paneth cells	14.8 nTPM
Small intestine	27.6 nTPM
Rectum	13.1 nTPM
Colon	3.6 nTPM

Plasma cells	14.4 nTPM
Thymus	21.3 nTPM
Spleen	20.7 nTPM
Stomach	15.9 nTPM
Liver	15.0 nTPM
Salivary gland	14.8 nTPM
Bone marrow	12.1 nTPM
Fallopian tube	10.0 nTPM
Esophagus	5.2 nTPM

Schwann cells	11.5 nTPM
Adipose tissue	18.3 nTPM
Vascular	16.2 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	8.2 nTPM
Salivary gland	12.1 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	18.7 nTPM
Ovary	25.2 nTPM
Adipose tissue	23.4 nTPM
Esophagus	21.6 nTPM
Vascular	21.2 nTPM
Skin	20.9 nTPM
Lung	20.0 nTPM
Salivary gland	19.6 nTPM
Fallopian tube	18.5 nTPM
Breast	18.0 nTPM
Skeletal muscle	17.6 nTPM
Placenta	17.4 nTPM
Thymus	16.6 nTPM
Prostate	16.4 nTPM
Endometrium	16.1 nTPM
Liver	13.6 nTPM
Tongue	12.9 nTPM

Suprabasal keratinocytes	23.2 nTPM
Skin	28.2 nTPM
Tongue	18.2 nTPM

T-cells	18.3 nTPM
Kidney	29.3 nTPM
Adipose tissue	25.3 nTPM
Fallopian tube	24.9 nTPM
Prostate	23.1 nTPM
Liver	21.3 nTPM
PBMC	20.6 nTPM
Bone marrow	20.4 nTPM
Thymus	19.3 nTPM
Vascular	19.3 nTPM
Endometrium	18.9 nTPM
Stomach	18.7 nTPM
Lung	18.3 nTPM
Salivary gland	16.7 nTPM
Skeletal muscle	16.3 nTPM
Breast	16.1 nTPM
Spleen	15.0 nTPM
Skin	13.7 nTPM
Colon	13.6 nTPM
Tongue	13.4 nTPM
Lymph node	11.2 nTPM
Esophagus	9.7 nTPM

Undifferentiated cells	16.4 nTPM
Colon	19.2 nTPM
Small intestine	14.9 nTPM
Rectum	14.9 nTPM

Amygdala excitatory	6.9 nTPM
Thalamus	8.2 nTPM
Basal ganglia	8.0 nTPM
Cerebral cortex	7.3 nTPM
Hippocampus	6.8 nTPM
Amygdala	6.1 nTPM
Hypothalamus	5.2 nTPM

Astrocyte	14.5 nTPM
Cerebral cortex	17.7 nTPM
Thalamus	17.4 nTPM
Amygdala	17.2 nTPM
Pons	15.8 nTPM
Basal ganglia	15.4 nTPM
Midbrain	14.3 nTPM
Medulla oblongata	13.4 nTPM
Hypothalamus	13.3 nTPM
Hippocampus	12.3 nTPM
Spinal cord	12.2 nTPM
Cerebellum	9.8 nTPM

Bergmann glia	10.4 nTPM
Cerebellum	14.1 nTPM
Pons	8.6 nTPM
Medulla oblongata	8.5 nTPM

Central nervous system macrophage	11.4 nTPM
Hypothalamus	14.0 nTPM
Amygdala	13.3 nTPM
Medulla oblongata	13.1 nTPM
Basal ganglia	12.9 nTPM
Midbrain	11.1 nTPM
Thalamus	11.0 nTPM
Cerebellum	10.7 nTPM
Pons	10.6 nTPM
Cerebral cortex	10.1 nTPM
Spinal cord	9.1 nTPM
Hippocampus	9.0 nTPM

Cerebellar inhibitory	8.3 nTPM
Midbrain	10.6 nTPM
Cerebellum	9.1 nTPM
Medulla oblongata	9.0 nTPM
Pons	7.3 nTPM
Spinal cord	5.5 nTPM

Cge interneuron	9.5 nTPM
Thalamus	12.7 nTPM
Amygdala	10.4 nTPM
Cerebral cortex	10.0 nTPM
Basal ganglia	9.6 nTPM
Hippocampus	9.1 nTPM
Hypothalamus	7.3 nTPM
Midbrain	7.2 nTPM

Choroid plexus epithelial cell	8.9 nTPM
Hippocampus	11.1 nTPM
Basal ganglia	9.0 nTPM
Thalamus	8.2 nTPM
Medulla oblongata	7.1 nTPM

Committed oligodendrocyte precursor	6.5 nTPM
Medulla oblongata	11.6 nTPM
Hippocampus	9.1 nTPM
Midbrain	8.4 nTPM
Cerebellum	7.9 nTPM
Thalamus	7.7 nTPM
Hypothalamus	6.1 nTPM
Pons	5.3 nTPM
Amygdala	5.1 nTPM
Cerebral cortex	3.8 nTPM
Spinal cord	3.7 nTPM
Basal ganglia	3.3 nTPM

Deep-layer corticothalamic and 6b	6.2 nTPM
Basal ganglia	7.2 nTPM
Amygdala	7.1 nTPM
Cerebral cortex	7.0 nTPM
Hippocampus	6.1 nTPM
Hypothalamus	5.4 nTPM
Midbrain	4.4 nTPM

Deep-layer intratelencephalic	6.7 nTPM
Amygdala	7.7 nTPM
Basal ganglia	6.7 nTPM
Hippocampus	6.7 nTPM
Cerebral cortex	6.5 nTPM
Hypothalamus	5.7 nTPM

Deep-layer near-projecting	7.7 nTPM
Hippocampus	11.7 nTPM
Cerebral cortex	7.2 nTPM
Basal ganglia	6.9 nTPM
Amygdala	6.4 nTPM
Hypothalamus	6.2 nTPM

Eccentric medium spiny neuron	7.7 nTPM
Cerebral cortex	8.6 nTPM
Basal ganglia	8.5 nTPM
Thalamus	7.8 nTPM
Amygdala	7.5 nTPM
Hypothalamus	7.4 nTPM
Hippocampus	6.2 nTPM