Single cell type - RPS29 - The Human Protein Atlas

RPS29

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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.	RPS29
Gene descriptionⁱ Full gene name according to HGNC.	Ribosomal protein S29
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes Ribosomal 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.	6

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 - Ribosome (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.	0.20
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

RPS29 is part of cluster 64 Non-specific - Ribosome with confidenceⁱ 1
168 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.
RPS27	Ribosomal protein S27	0.9125	64
RPLP2	Ribosomal protein lateral stalk subunit P2	0.8713	64
RPL38	Ribosomal protein L38	0.8633	64
RPL21	Ribosomal protein L21	0.8597	64
RPL23A	Ribosomal protein L23a	0.8269	64
RPS28	Ribosomal protein S28	0.7932	64
RPL27A	Ribosomal protein L27a	0.7892	64
RPL34	Ribosomal protein L34	0.7863	64
RPS25	Ribosomal protein S25	0.7800	64
RPS15A	Ribosomal protein S15a	0.7753	64
RPL41	Ribosomal protein L41	0.7715	64
RPL27	Ribosomal protein L27	0.7670	64
RPL26	Ribosomal protein L26	0.7628	64
RPL9	Ribosomal protein L9	0.7586	64
RPL31	Ribosomal protein L31	0.7561	64

IMMUNE CELLS

RPS29 is part of cluster 43 Non-specific - Transcription & Translation with confidenceⁱ 0.99
433 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.
ZNF563	Zinc finger protein 563	1.0000	43
TMEM121	Transmembrane protein 121	1.0000	43
PHGDH	Phosphoglycerate dehydrogenase	1.0000	43
RPL34	Ribosomal protein L34	1.0000	43
RPS27	Ribosomal protein S27	1.0000	43
EIF4A2	Eukaryotic translation initiation factor 4A2	1.0000	43
SFXN2	Sideroflexin 2	1.0000	43
RPS10	Ribosomal protein S10	0.9762	43
RPS15A	Ribosomal protein S15a	0.9762	43
GGT7	Gamma-glutamyltransferase 7	0.9762	43
CRB3	Crumbs cell polarity complex component 3	0.9762	43
RPL36	Ribosomal protein L36	0.9762	43
PLEKHB1	Pleckstrin homology domain containing B1	0.9762	43
OCM	Oncomodulin	0.9762	43
CTH	Cystathionine gamma-lyase	0.9762	43

Adipocytes	1564.9 nTPM
Adipose tissue	1948.9 nTPM
Breast	1180.9 nTPM

Alveolar cells type 1	1283.9 nTPM
Lung	1283.9 nTPM

Alveolar cells type 2	1905.7 nTPM
Lung	1905.7 nTPM

Astrocytes	7.4 nTPM
Brain	7.4 nTPM

B-cells	5658.2 nTPM
Liver	12785.6 nTPM
PBMC	11412.6 nTPM
Skin	11257.7 nTPM
Adipose tissue	10227.9 nTPM
Kidney	7331.7 nTPM
Salivary gland	3256.5 nTPM
Thymus	3122.1 nTPM
Lung	2931.0 nTPM
Spleen	2894.9 nTPM
Lymph node	2667.8 nTPM
Bone marrow	2414.7 nTPM
Stomach	2097.7 nTPM
Esophagus	1156.4 nTPM

Basal keratinocytes	4595.6 nTPM
Skin	6013.9 nTPM
Tongue	3177.4 nTPM

Basal squamous epithelial cells	895.3 nTPM
Esophagus	895.3 nTPM

Ciliated cells	890.3 nTPM
Fallopian tube	1275.0 nTPM
Endometrium	1142.2 nTPM
Bronchus	636.8 nTPM
Lung	507.3 nTPM

Club cells	1266.8 nTPM
Bronchus	1440.0 nTPM
Lung	1187.8 nTPM
Prostate	1172.8 nTPM

Dendritic cells	4979.8 nTPM
Adipose tissue	5013.2 nTPM
PBMC	4946.4 nTPM

Distal enterocytes	4309.7 nTPM
Rectum	5583.1 nTPM
Colon	3036.3 nTPM

Endothelial cells	1786.9 nTPM
Skin	4109.4 nTPM
Liver	3952.8 nTPM
Ovary	3076.4 nTPM
Testis	2878.6 nTPM
Tongue	2371.1 nTPM
Placenta	2006.3 nTPM
Fallopian tube	1932.8 nTPM
Vascular	1925.2 nTPM
Pancreas	1595.1 nTPM
Breast	1454.4 nTPM
Endometrium	1365.8 nTPM
Lung	1219.9 nTPM
Salivary gland	1076.9 nTPM
Thymus	1068.1 nTPM
Prostate	941.5 nTPM
Skeletal muscle	555.5 nTPM
Esophagus	403.0 nTPM
Heart muscle	230.6 nTPM

Enteroendocrine cells	3760.0 nTPM
Rectum	4028.7 nTPM
Colon	3807.9 nTPM
Small intestine	3443.4 nTPM

Erythroid cells	3584.9 nTPM
Liver	5775.6 nTPM
Bone marrow	1394.2 nTPM

Fibroblasts	1640.6 nTPM
Placenta	3907.4 nTPM
Skin	3105.9 nTPM
Liver	3046.6 nTPM
Pancreas	2230.9 nTPM
Adipose tissue	2219.5 nTPM
Fallopian tube	2195.8 nTPM
Vascular	2124.2 nTPM
Breast	1821.2 nTPM
Lung	1241.0 nTPM
Salivary gland	1093.8 nTPM
Prostate	941.2 nTPM
Thymus	919.5 nTPM
Skeletal muscle	403.3 nTPM
Stomach	386.2 nTPM
Esophagus	350.0 nTPM
Heart muscle	262.4 nTPM

Bipolar cells	242.8 nTPM
Eye	242.8 nTPM

Cholangiocytes	2772.1 nTPM
Liver	2772.1 nTPM

Collecting duct cells	1141.6 nTPM
Kidney	1141.6 nTPM

Cone photoreceptor cells	373.8 nTPM
Eye	373.8 nTPM

Glandular and luminal cells	2183.5 nTPM
Endometrium	2183.5 nTPM

Granulocytes	2988.7 nTPM
Fallopian tube	4385.0 nTPM
Tongue	2837.6 nTPM
Lung	1743.5 nTPM

Intestinal goblet cells	6317.1 nTPM
Rectum	11021.3 nTPM
Colon	4728.1 nTPM
Small intestine	3202.0 nTPM

Lymphatic endothelial cells	2248.4 nTPM
Fallopian tube	2287.4 nTPM
Ovary	2209.5 nTPM

Macrophages	2325.5 nTPM
Adipose tissue	5681.1 nTPM
Testis	5241.0 nTPM
Kidney	4642.8 nTPM
Skin	4535.1 nTPM
Fallopian tube	3216.7 nTPM
Endometrium	2820.9 nTPM
Tongue	2535.0 nTPM
Pancreas	2427.6 nTPM
Salivary gland	2043.3 nTPM
Prostate	1763.4 nTPM
Vascular	1518.8 nTPM
Breast	1517.2 nTPM
Lung	1182.3 nTPM
Thymus	1068.6 nTPM
Bone marrow	1014.5 nTPM
Spleen	918.3 nTPM
Skeletal muscle	789.8 nTPM
Stomach	704.8 nTPM
Esophagus	562.6 nTPM

Paneth cells	5955.3 nTPM
Rectum	8794.9 nTPM
Small intestine	5101.3 nTPM
Colon	3969.7 nTPM

Plasma cells	2303.9 nTPM
Liver	6914.1 nTPM
Fallopian tube	3293.9 nTPM
Salivary gland	1946.5 nTPM
Spleen	1687.3 nTPM
Thymus	1368.0 nTPM
Bone marrow	1334.9 nTPM
Stomach	1153.4 nTPM
Esophagus	732.9 nTPM

Schwann cells	3424.7 nTPM
Adipose tissue	9694.4 nTPM
Vascular	495.7 nTPM
Esophagus	83.9 nTPM

Serous glandular cells	1797.0 nTPM
Salivary gland	2374.4 nTPM
Tongue	1219.7 nTPM

Smooth muscle cells	1632.0 nTPM
Liver	4657.9 nTPM
Skin	3228.2 nTPM
Ovary	3111.4 nTPM
Placenta	2535.4 nTPM
Adipose tissue	2111.5 nTPM
Fallopian tube	1454.0 nTPM
Salivary gland	1391.5 nTPM
Tongue	1367.6 nTPM
Vascular	1337.2 nTPM
Endometrium	1159.9 nTPM
Prostate	879.5 nTPM
Breast	871.1 nTPM
Thymus	716.3 nTPM
Lung	512.6 nTPM
Skeletal muscle	457.8 nTPM
Esophagus	320.7 nTPM

Suprabasal keratinocytes	6531.4 nTPM
Skin	9566.8 nTPM
Tongue	3496.0 nTPM

T-cells	4926.1 nTPM
PBMC	15510.3 nTPM
Adipose tissue	9906.6 nTPM
Skin	9609.1 nTPM
Liver	9255.5 nTPM
Kidney	7250.5 nTPM
Fallopian tube	6362.3 nTPM
Thymus	5152.9 nTPM
Vascular	4636.7 nTPM
Tongue	3918.8 nTPM
Colon	3691.2 nTPM
Prostate	3535.9 nTPM
Salivary gland	3445.2 nTPM
Breast	3243.8 nTPM
Lymph node	2987.5 nTPM
Endometrium	2965.3 nTPM
Lung	2731.9 nTPM
Spleen	2659.7 nTPM
Bone marrow	2278.2 nTPM
Stomach	1827.0 nTPM
Skeletal muscle	1263.9 nTPM
Esophagus	1216.8 nTPM

Undifferentiated cells	6909.9 nTPM
Rectum	9574.3 nTPM
Small intestine	8073.3 nTPM
Colon	3082.2 nTPM

Amygdala excitatory	40.4 nTPM
Thalamus	48.1 nTPM
Hippocampus	42.1 nTPM
Basal ganglia	40.1 nTPM
Cerebral cortex	39.3 nTPM
Hypothalamus	36.6 nTPM
Amygdala	36.5 nTPM

Astrocyte	48.8 nTPM
Hippocampus	55.8 nTPM
Cerebellum	55.3 nTPM
Basal ganglia	53.1 nTPM
Amygdala	51.6 nTPM
Medulla oblongata	50.5 nTPM
Midbrain	50.0 nTPM
Thalamus	47.3 nTPM
Cerebral cortex	47.0 nTPM
Pons	45.6 nTPM
Spinal cord	41.7 nTPM
Hypothalamus	39.3 nTPM

Bergmann glia	55.3 nTPM
Medulla oblongata	63.9 nTPM
Pons	54.7 nTPM
Cerebellum	47.2 nTPM

Central nervous system macrophage	85.0 nTPM
Spinal cord	109.8 nTPM
Medulla oblongata	105.0 nTPM
Cerebellum	97.5 nTPM
Basal ganglia	95.5 nTPM
Midbrain	90.8 nTPM
Pons	87.3 nTPM
Thalamus	82.0 nTPM
Hippocampus	77.7 nTPM
Cerebral cortex	74.6 nTPM
Amygdala	58.4 nTPM
Hypothalamus	56.4 nTPM

Cerebellar inhibitory	59.8 nTPM
Spinal cord	85.2 nTPM
Medulla oblongata	62.6 nTPM
Cerebellum	56.5 nTPM
Pons	52.1 nTPM
Midbrain	42.6 nTPM

Cge interneuron	68.0 nTPM
Midbrain	81.2 nTPM
Basal ganglia	79.8 nTPM
Thalamus	75.7 nTPM
Hippocampus	66.6 nTPM
Cerebral cortex	66.1 nTPM
Amygdala	62.7 nTPM
Hypothalamus	43.7 nTPM

Choroid plexus epithelial cell	88.7 nTPM
Medulla oblongata	119.9 nTPM
Hippocampus	102.6 nTPM
Thalamus	90.4 nTPM
Basal ganglia	41.7 nTPM