Single cell type - RPL38 - The Human Protein Atlas

RPL38

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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.	RPL38
Gene descriptionⁱ Full gene name according to HGNC.	Ribosomal protein L38
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	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.	0.21
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

RPL38 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.
RPS29	Ribosomal protein S29	0.8633	64
RPLP2	Ribosomal protein lateral stalk subunit P2	0.8399	64
RPS27	Ribosomal protein S27	0.8337	64
RPL21	Ribosomal protein L21	0.8194	64
RPL31	Ribosomal protein L31	0.8111	64
RPL23A	Ribosomal protein L23a	0.8076	64
RPS25	Ribosomal protein S25	0.7977	64
RPS20	Ribosomal protein S20	0.7876	64
RPL37A	Ribosomal protein L37a	0.7735	64
RPL9	Ribosomal protein L9	0.7614	64
RPL27	Ribosomal protein L27	0.7609	64
RPL35A	Ribosomal protein L35a	0.7551	64
RPL34	Ribosomal protein L34	0.7473	64
RPS15A	Ribosomal protein S15a	0.7436	64
RPL27A	Ribosomal protein L27a	0.7430	64

IMMUNE CELLS

RPL38 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.
RPL13A	Ribosomal protein L13a	1.0000	43
RPL39	Ribosomal protein L39	1.0000	43
RPL32	Ribosomal protein L32	1.0000	43
RPS10	Ribosomal protein S10	1.0000	43
OCM	Oncomodulin	1.0000	43
DARS1	Aspartyl-tRNA synthetase 1	0.9762	43
RPL34	Ribosomal protein L34	0.9762	43
ZNF780B	Zinc finger protein 780B	0.9762	43
RPS6	Ribosomal protein S6	0.9762	43
RPL31	Ribosomal protein L31	0.9762	43
CHAC2	ChaC glutathione specific gamma-glutamylcyclotransferase 2	0.9762	43
KAT2A	Lysine acetyltransferase 2A	0.9762	43
SFXN2	Sideroflexin 2	0.9762	43
EIF4A2	Eukaryotic translation initiation factor 4A2	0.9762	43
RPL27A	Ribosomal protein L27a	0.9762	43

Adipocytes	1017.0 nTPM
Adipose tissue	1203.7 nTPM
Breast	830.3 nTPM

Alveolar cells type 1	949.7 nTPM
Lung	949.7 nTPM

Alveolar cells type 2	1107.7 nTPM
Lung	1107.7 nTPM

Astrocytes	12.1 nTPM
Brain	12.1 nTPM

B-cells	2113.6 nTPM
PBMC	5141.4 nTPM
Liver	4269.9 nTPM
Adipose tissue	3487.2 nTPM
Skin	2576.4 nTPM
Kidney	2230.7 nTPM
Salivary gland	1605.0 nTPM
Thymus	1569.2 nTPM
Lymph node	1297.0 nTPM
Lung	1269.0 nTPM
Spleen	1261.3 nTPM
Stomach	1093.8 nTPM
Bone marrow	1027.0 nTPM
Esophagus	649.0 nTPM

Basal keratinocytes	2249.1 nTPM
Skin	2683.1 nTPM
Tongue	1815.0 nTPM

Basal squamous epithelial cells	992.6 nTPM
Esophagus	992.6 nTPM

Ciliated cells	663.2 nTPM
Endometrium	955.4 nTPM
Fallopian tube	926.4 nTPM
Lung	438.4 nTPM
Bronchus	332.7 nTPM

Club cells	652.6 nTPM
Prostate	731.6 nTPM
Lung	720.5 nTPM
Bronchus	505.6 nTPM

Dendritic cells	1912.5 nTPM
PBMC	2126.0 nTPM
Adipose tissue	1698.9 nTPM

Distal enterocytes	1621.4 nTPM
Rectum	1754.3 nTPM
Colon	1488.6 nTPM

Endothelial cells	1207.9 nTPM
Ovary	2249.6 nTPM
Liver	2131.3 nTPM
Testis	1981.2 nTPM
Skin	1886.1 nTPM
Tongue	1440.8 nTPM
Fallopian tube	1431.9 nTPM
Vascular	1341.0 nTPM
Placenta	1149.6 nTPM
Breast	1073.9 nTPM
Skeletal muscle	996.4 nTPM
Pancreas	951.4 nTPM
Lung	926.2 nTPM
Endometrium	897.1 nTPM
Thymus	851.1 nTPM
Prostate	753.5 nTPM
Salivary gland	740.5 nTPM
Esophagus	590.6 nTPM
Heart muscle	350.3 nTPM

Enteroendocrine cells	1791.6 nTPM
Small intestine	1994.6 nTPM
Rectum	1896.9 nTPM
Colon	1483.4 nTPM

Erythroid cells	1610.8 nTPM
Liver	2398.4 nTPM
Bone marrow	823.2 nTPM

Fibroblasts	1015.5 nTPM
Placenta	1666.1 nTPM
Liver	1494.2 nTPM
Pancreas	1487.4 nTPM
Skin	1422.8 nTPM
Vascular	1393.5 nTPM
Adipose tissue	1363.3 nTPM
Fallopian tube	1175.8 nTPM
Breast	1080.8 nTPM
Lung	960.2 nTPM
Prostate	846.8 nTPM
Skeletal muscle	790.6 nTPM
Salivary gland	704.3 nTPM
Thymus	695.4 nTPM
Stomach	426.5 nTPM
Esophagus	391.4 nTPM
Heart muscle	349.7 nTPM

Bipolar cells	183.5 nTPM
Eye	183.5 nTPM

Cholangiocytes	1417.5 nTPM
Liver	1417.5 nTPM

Collecting duct cells	678.8 nTPM
Kidney	678.8 nTPM

Cone photoreceptor cells	207.3 nTPM
Eye	207.3 nTPM

Glandular and luminal cells	1337.7 nTPM
Endometrium	1337.7 nTPM

Granulocytes	1518.2 nTPM
Fallopian tube	1943.5 nTPM
Tongue	1484.3 nTPM
Lung	1126.9 nTPM

Intestinal goblet cells	2786.3 nTPM
Rectum	4380.7 nTPM
Small intestine	1999.2 nTPM
Colon	1979.0 nTPM

Lymphatic endothelial cells	1491.4 nTPM
Ovary	1794.8 nTPM
Fallopian tube	1188.0 nTPM

Macrophages	1371.6 nTPM
Testis	3623.0 nTPM
Adipose tissue	2821.7 nTPM
Kidney	2143.5 nTPM
Skin	2077.0 nTPM
Fallopian tube	1532.8 nTPM
Endometrium	1456.2 nTPM
Tongue	1425.4 nTPM
Skeletal muscle	1408.4 nTPM
Prostate	1316.7 nTPM
Vascular	1196.5 nTPM
Pancreas	1101.8 nTPM
Salivary gland	1100.4 nTPM
Lung	893.4 nTPM
Thymus	856.5 nTPM
Breast	853.4 nTPM
Esophagus	626.8 nTPM
Bone marrow	620.2 nTPM
Spleen	543.4 nTPM
Stomach	463.0 nTPM

Paneth cells	2101.5 nTPM
Rectum	2814.0 nTPM
Small intestine	1927.2 nTPM
Colon	1563.3 nTPM

Plasma cells	974.0 nTPM
Liver	2601.1 nTPM
Fallopian tube	991.0 nTPM
Salivary gland	888.6 nTPM
Spleen	825.1 nTPM
Bone marrow	723.3 nTPM
Thymus	713.6 nTPM
Stomach	633.2 nTPM
Esophagus	415.8 nTPM

Schwann cells	1210.1 nTPM
Adipose tissue	2943.9 nTPM
Vascular	530.7 nTPM
Esophagus	155.8 nTPM

Serous glandular cells	1237.2 nTPM
Salivary gland	1696.6 nTPM
Tongue	777.8 nTPM

Smooth muscle cells	1190.4 nTPM
Ovary	2632.2 nTPM
Liver	2440.6 nTPM
Skin	1878.6 nTPM
Placenta	1520.9 nTPM
Adipose tissue	1407.4 nTPM
Fallopian tube	1211.5 nTPM
Tongue	1102.0 nTPM
Vascular	1094.9 nTPM
Salivary gland	1021.4 nTPM
Skeletal muscle	898.0 nTPM
Endometrium	841.8 nTPM
Prostate	752.3 nTPM
Breast	666.8 nTPM
Thymus	663.8 nTPM
Esophagus	468.5 nTPM
Lung	445.6 nTPM

Suprabasal keratinocytes	2623.5 nTPM
Skin	3139.8 nTPM
Tongue	2107.1 nTPM

T-cells	1917.1 nTPM
PBMC	6465.1 nTPM
Adipose tissue	3223.9 nTPM
Skin	2721.8 nTPM
Liver	2700.5 nTPM
Thymus	2414.7 nTPM
Kidney	2175.1 nTPM
Fallopian tube	1951.7 nTPM
Colon	1909.9 nTPM
Vascular	1803.8 nTPM
Salivary gland	1774.9 nTPM
Prostate	1542.8 nTPM
Lymph node	1510.7 nTPM
Tongue	1431.1 nTPM
Skeletal muscle	1327.7 nTPM
Endometrium	1284.2 nTPM
Breast	1174.1 nTPM
Lung	1148.3 nTPM
Spleen	1083.5 nTPM
Stomach	924.1 nTPM
Bone marrow	913.0 nTPM
Esophagus	778.7 nTPM

Undifferentiated cells	2696.5 nTPM
Rectum	3666.6 nTPM
Small intestine	2787.2 nTPM
Colon	1635.7 nTPM

Amygdala excitatory	48.4 nTPM
Basal ganglia	76.8 nTPM
Hippocampus	55.5 nTPM
Cerebral cortex	54.5 nTPM
Thalamus	48.1 nTPM
Amygdala	41.0 nTPM
Hypothalamus	14.5 nTPM

Astrocyte	55.3 nTPM
Hippocampus	74.2 nTPM
Medulla oblongata	64.7 nTPM
Cerebellum	64.4 nTPM
Basal ganglia	60.6 nTPM
Midbrain	55.1 nTPM
Cerebral cortex	53.5 nTPM
Amygdala	51.8 nTPM
Pons	49.9 nTPM
Thalamus	48.8 nTPM
Spinal cord	46.8 nTPM
Hypothalamus	38.9 nTPM

Bergmann glia	40.8 nTPM
Medulla oblongata	53.3 nTPM
Pons	47.5 nTPM
Cerebellum	21.6 nTPM

Central nervous system macrophage	94.7 nTPM
Spinal cord	141.3 nTPM
Medulla oblongata	116.2 nTPM
Cerebellum	108.1 nTPM
Pons	101.8 nTPM
Midbrain	99.3 nTPM
Cerebral cortex	96.5 nTPM
Basal ganglia	92.1 nTPM
Thalamus	84.4 nTPM
Hippocampus	84.2 nTPM
Hypothalamus	66.2 nTPM
Amygdala	51.3 nTPM

Cerebellar inhibitory	57.9 nTPM
Medulla oblongata	70.0 nTPM
Pons	69.5 nTPM
Spinal cord	60.5 nTPM
Midbrain	48.8 nTPM
Cerebellum	40.8 nTPM

Cge interneuron	70.9 nTPM
Midbrain	112.8 nTPM
Thalamus	93.6 nTPM
Basal ganglia	86.2 nTPM
Hippocampus	66.2 nTPM
Cerebral cortex	57.8 nTPM
Amygdala	55.4 nTPM
Hypothalamus	24.3 nTPM

Choroid plexus epithelial cell	66.4 nTPM
Hippocampus	105.4 nTPM
Thalamus	76.7 nTPM
Medulla oblongata	67.4 nTPM
Basal ganglia	16.2 nTPM