Single cell type - RBM15 - The Human Protein Atlas

RBM15

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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.	RBM15
Gene descriptionⁱ Full gene name according to HGNC.	RNA binding motif protein 15
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Disease related genes Plasma 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.	9

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 - Transcription (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.	0.40
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

RBM15 is part of cluster 55 Non-specific - Transcription with confidenceⁱ 0.99
709 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.
DHX15	DEAH-box helicase 15	0.5701	15
UBR5	Ubiquitin protein ligase E3 component n-recognin 5	0.5405	55
NUP153	Nucleoporin 153	0.5188	37
RPS6KB1	Ribosomal protein S6 kinase B1	0.4603	15
NAA50	N-alpha-acetyltransferase 50, NatE catalytic subunit	0.4594	78
RBM26	RNA binding motif protein 26	0.4562	55
FBXO33	F-box protein 33	0.4522	78
TSC22D2	TSC22 domain family member 2	0.4476	37
AFTPH	Aftiphilin	0.4432	55
UBXN7	UBX domain protein 7	0.4400	55
MED30	Mediator complex subunit 30	0.4290	80
SMG1	SMG1 nonsense mediated mRNA decay associated PI3K related kinase	0.4287	55
LEMD3	LEM domain containing 3	0.4247	55
KHDC4	KH domain containing 4, pre-mRNA splicing factor	0.4238	55
NAA30	N-alpha-acetyltransferase 30, NatC catalytic subunit	0.4238	70

IMMUNE CELLS

RBM15 is part of cluster 35 Neutrophils - Protein binding with confidenceⁱ 0.72
504 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.
MIA3	MIA SH3 domain ER export factor 3	0.9762	35
CDK7	Cyclin dependent kinase 7	0.9286	35
TENT2	Terminal nucleotidyltransferase 2	0.9286	35
CD177	CD177 molecule	0.9048	35
SNX13	Sorting nexin 13	0.9048	35
CREBRF	CREB3 regulatory factor	0.9048	35
IRF2	Interferon regulatory factor 2	0.9048	35
GTDC1	Glycosyltransferase like domain containing 1	0.8810	35
ECD	Ecdysoneless cell cycle regulator	0.8810	28
RAB33B	RAB33B, member RAS oncogene family	0.8810	35
NCOA2	Nuclear receptor coactivator 2	0.8571	35
SPINK8	Serine peptidase inhibitor Kazal type 8 (putative)	0.8571	35
CDC42SE1	CDC42 small effector 1	0.8571	35
INSC	INSC spindle orientation adaptor protein	0.8571	20
SLF1	SMC5-SMC6 complex localization factor 1	0.8571	20

Adipocytes	8.7 nTPM
Adipose tissue	11.3 nTPM
Breast	6.2 nTPM

Alveolar cells type 1	5.2 nTPM
Lung	5.2 nTPM

Alveolar cells type 2	7.2 nTPM
Lung	7.2 nTPM

Astrocytes	20.4 nTPM
Brain	20.4 nTPM

B-cells	18.2 nTPM
Esophagus	29.5 nTPM
Lymph node	27.3 nTPM
Adipose tissue	25.1 nTPM
Spleen	24.2 nTPM
Thymus	21.1 nTPM
Salivary gland	19.8 nTPM
Liver	19.3 nTPM
Stomach	17.3 nTPM
PBMC	15.4 nTPM
Bone marrow	13.7 nTPM
Kidney	10.4 nTPM
Skin	6.8 nTPM
Lung	6.7 nTPM

Ciliated cells	9.0 nTPM
Endometrium	13.7 nTPM
Bronchus	8.8 nTPM
Fallopian tube	8.4 nTPM
Lung	5.1 nTPM

Club cells	5.6 nTPM
Bronchus	6.9 nTPM
Lung	5.6 nTPM
Prostate	4.5 nTPM

Endothelial cells	7.9 nTPM
Endometrium	12.4 nTPM
Salivary gland	11.7 nTPM
Fallopian tube	10.8 nTPM
Heart muscle	10.3 nTPM
Liver	8.8 nTPM
Esophagus	8.7 nTPM
Tongue	8.7 nTPM
Prostate	8.5 nTPM
Skin	8.3 nTPM
Pancreas	7.8 nTPM
Thymus	7.8 nTPM
Placenta	6.8 nTPM
Vascular	6.8 nTPM
Skeletal muscle	6.5 nTPM
Ovary	5.0 nTPM
Breast	4.4 nTPM
Lung	4.2 nTPM
Testis	4.0 nTPM

Enteroendocrine cells	11.1 nTPM
Small intestine	13.7 nTPM
Rectum	10.1 nTPM
Colon	9.5 nTPM

Fibroblasts	6.7 nTPM
Skin	13.6 nTPM
Liver	13.0 nTPM
Heart muscle	10.2 nTPM
Fallopian tube	8.7 nTPM
Skeletal muscle	8.2 nTPM
Thymus	7.5 nTPM
Salivary gland	6.4 nTPM
Placenta	6.3 nTPM
Esophagus	6.1 nTPM
Adipose tissue	5.8 nTPM
Breast	5.3 nTPM
Vascular	4.7 nTPM
Lung	4.4 nTPM
Prostate	4.0 nTPM
Pancreas	3.3 nTPM
Stomach	0.0 nTPM

Granulocytes	5.2 nTPM
Fallopian tube	11.0 nTPM
Lung	4.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	8.4 nTPM
Colon	8.6 nTPM
Small intestine	8.4 nTPM
Rectum	8.2 nTPM

Lymphatic endothelial cells	11.2 nTPM
Fallopian tube	11.6 nTPM
Ovary	10.9 nTPM

Macrophages	8.8 nTPM
Adipose tissue	17.6 nTPM
Fallopian tube	14.6 nTPM
Skin	13.4 nTPM
Bone marrow	13.2 nTPM
Salivary gland	12.6 nTPM
Prostate	12.1 nTPM
Spleen	12.0 nTPM
Lung	10.5 nTPM
Tongue	9.3 nTPM
Kidney	8.0 nTPM
Vascular	7.3 nTPM
Thymus	7.2 nTPM
Skeletal muscle	7.0 nTPM
Breast	6.9 nTPM
Esophagus	6.4 nTPM
Endometrium	5.5 nTPM
Testis	4.3 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	7.7 nTPM
Colon	10.9 nTPM
Rectum	8.7 nTPM
Small intestine	3.5 nTPM

Basal keratinocytes	22.6 nTPM
Skin	35.9 nTPM
Tongue	9.4 nTPM

Bipolar cells	4.9 nTPM
Eye	4.9 nTPM

Cholangiocytes	7.6 nTPM
Liver	7.6 nTPM

Collecting duct cells	3.9 nTPM
Kidney	3.9 nTPM

Plasma cells	12.5 nTPM
Thymus	17.6 nTPM
Bone marrow	16.6 nTPM
Salivary gland	14.8 nTPM
Spleen	14.0 nTPM
Liver	13.0 nTPM
Esophagus	10.4 nTPM
Stomach	9.2 nTPM
Fallopian tube	4.5 nTPM

Schwann cells	13.1 nTPM
Adipose tissue	19.5 nTPM
Esophagus	12.0 nTPM
Vascular	7.8 nTPM

Serous glandular cells	10.4 nTPM
Tongue	13.3 nTPM
Salivary gland	7.6 nTPM

Smooth muscle cells	7.3 nTPM
Skin	13.2 nTPM
Endometrium	12.8 nTPM
Liver	12.3 nTPM
Placenta	7.6 nTPM
Adipose tissue	7.6 nTPM
Thymus	7.6 nTPM
Tongue	7.5 nTPM
Skeletal muscle	6.8 nTPM
Salivary gland	6.7 nTPM
Breast	6.2 nTPM
Lung	5.9 nTPM
Fallopian tube	5.7 nTPM
Vascular	5.6 nTPM
Ovary	4.9 nTPM
Esophagus	4.8 nTPM
Prostate	2.4 nTPM

Suprabasal keratinocytes	21.1 nTPM
Skin	36.6 nTPM
Tongue	5.6 nTPM

T-cells	14.2 nTPM
Adipose tissue	29.2 nTPM
Endometrium	22.1 nTPM
Skin	19.3 nTPM
Vascular	17.7 nTPM
Colon	16.6 nTPM
Tongue	15.2 nTPM
Prostate	15.0 nTPM
Liver	14.8 nTPM
Thymus	14.8 nTPM
Skeletal muscle	14.7 nTPM
Spleen	13.6 nTPM
Lymph node	13.2 nTPM
Breast	12.5 nTPM
Fallopian tube	12.5 nTPM
Stomach	12.4 nTPM
Lung	12.3 nTPM
Bone marrow	9.8 nTPM
PBMC	9.2 nTPM
Salivary gland	8.6 nTPM
Kidney	8.0 nTPM
Esophagus	7.3 nTPM

Undifferentiated cells	10.4 nTPM
Colon	12.8 nTPM
Rectum	10.2 nTPM
Small intestine	8.3 nTPM

Amygdala excitatory	11.4 nTPM
Amygdala	13.2 nTPM
Hippocampus	12.9 nTPM
Cerebral cortex	11.9 nTPM
Hypothalamus	11.8 nTPM
Thalamus	9.5 nTPM
Basal ganglia	9.2 nTPM

Astrocyte	11.2 nTPM
Amygdala	14.1 nTPM
Hypothalamus	13.9 nTPM
Spinal cord	12.8 nTPM
Basal ganglia	12.4 nTPM
Pons	10.9 nTPM
Thalamus	10.9 nTPM
Cerebral cortex	10.3 nTPM
Medulla oblongata	10.2 nTPM
Hippocampus	9.8 nTPM
Midbrain	9.3 nTPM
Cerebellum	9.0 nTPM

Bergmann glia	8.7 nTPM
Cerebellum	10.5 nTPM
Medulla oblongata	8.5 nTPM
Pons	7.2 nTPM

Central nervous system macrophage	18.1 nTPM
Amygdala	23.4 nTPM
Thalamus	20.3 nTPM
Basal ganglia	20.1 nTPM
Cerebellum	19.3 nTPM
Hippocampus	19.0 nTPM
Midbrain	18.8 nTPM
Pons	18.5 nTPM
Hypothalamus	17.3 nTPM
Cerebral cortex	16.8 nTPM
Medulla oblongata	14.1 nTPM
Spinal cord	11.2 nTPM

Cerebellar inhibitory	12.7 nTPM
Midbrain	14.6 nTPM
Cerebellum	13.8 nTPM
Spinal cord	13.7 nTPM
Pons	11.2 nTPM
Medulla oblongata	9.9 nTPM

Cge interneuron	10.0 nTPM
Thalamus	10.9 nTPM
Amygdala	10.7 nTPM
Hypothalamus	10.6 nTPM
Hippocampus	9.7 nTPM
Midbrain	9.6 nTPM
Cerebral cortex	9.5 nTPM
Basal ganglia	9.2 nTPM

Choroid plexus epithelial cell	12.9 nTPM
Basal ganglia	19.2 nTPM
Medulla oblongata	13.2 nTPM
Hippocampus	11.1 nTPM
Thalamus	8.2 nTPM

Committed oligodendrocyte precursor	10.9 nTPM
Cerebellum	19.0 nTPM
Basal ganglia	13.7 nTPM
Medulla oblongata	12.9 nTPM
Hypothalamus	12.3 nTPM
Cerebral cortex	12.0 nTPM
Pons	9.7 nTPM
Hippocampus	9.3 nTPM
Thalamus	9.2 nTPM
Amygdala	7.9 nTPM
Spinal cord	7.4 nTPM
Midbrain	6.7 nTPM

Deep-layer corticothalamic and 6b	9.7 nTPM
Hypothalamus	11.3 nTPM
Midbrain	10.0 nTPM
Cerebral cortex	9.7 nTPM
Hippocampus	9.6 nTPM
Amygdala	9.5 nTPM
Basal ganglia	8.2 nTPM

Deep-layer intratelencephalic	11.0 nTPM
Amygdala	12.7 nTPM
Hypothalamus	11.2 nTPM
Hippocampus	10.6 nTPM
Cerebral cortex	10.5 nTPM
Basal ganglia	9.9 nTPM

Deep-layer near-projecting	7.9 nTPM
Hypothalamus	9.8 nTPM
Cerebral cortex	8.1 nTPM
Basal ganglia	7.9 nTPM
Amygdala	7.7 nTPM
Hippocampus	5.9 nTPM

Eccentric medium spiny neuron	11.2 nTPM
Hypothalamus	13.2 nTPM
Thalamus	11.8 nTPM
Basal ganglia	11.5 nTPM
Amygdala	10.6 nTPM
Cerebral cortex	10.6 nTPM
Hippocampus	9.1 nTPM

Endothelial cell	16.1 nTPM
Cerebellum	21.7 nTPM
Amygdala	21.2 nTPM
Basal ganglia	20.5 nTPM
Pons	19.3 nTPM
Hippocampus	16.7 nTPM
Thalamus	16.4 nTPM
Cerebral cortex	16.0 nTPM
Hypothalamus	14.9 nTPM
Spinal cord	12.1 nTPM
Medulla oblongata	10.3 nTPM
Midbrain	8.5 nTPM