Single cell type - RBPMS - The Human Protein Atlas

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.	RBPMS
Gene descriptionⁱ Full gene name according to HGNC.	RNA binding protein, mRNA processing factor
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. Read more	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. Read more	Smooth muscle cells - ECM organization (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. Read more	Cell type enhanced (Proximal tubular cells)
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. Read more	Immune cell enriched (plasmacytoid DC)
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in single
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Cell line enhanced (ASC diff, RPTEC TERT1)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in many
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Proximal tubular cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

RBPMS is part of cluster 48 Smooth muscle cells - ECM organization with confidenceⁱ 0.99
270 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
RNF152	Ring finger protein 152	0.6038	67
TRABD2B	TraB domain containing 2B	0.5895	67
CLIC4	Chloride intracellular channel 4	0.5868	48
C5orf24	Chromosome 5 open reading frame 24	0.5707	67
DSTN	Destrin, actin depolymerizing factor	0.5679	48
TMEM200B	Transmembrane protein 200B	0.5568	48
TNS1	Tensin 1	0.5537	48
LDOC1	LDOC1 regulator of NFKB signaling	0.5444	48
HCFC1R1	Host cell factor C1 regulator 1	0.5325	67
CRYAB	Crystallin alpha B	0.5255	67
GUCY1B1	Guanylate cyclase 1 soluble subunit beta 1	0.5226	48
FERMT2	Fermitin family member 2	0.5183	48
GJA4	Gap junction protein alpha 4	0.5161	48
SLC16A12	Solute carrier family 16 member 12	0.5151	67
DMPK	DM1 protein kinase	0.5081	48

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	104.0 nTPM
Breast	107.0 nTPM
Adipose tissue	100.9 nTPM

Alveolar cells type 1	54.5 nTPM
Lung	54.5 nTPM

Alveolar cells type 2	98.9 nTPM
Lung	98.9 nTPM

Astrocytes	36.6 nTPM
Brain	36.6 nTPM

B-cells	4.5 nTPM
Kidney	33.4 nTPM
Breast	4.0 nTPM
Adipose tissue	3.0 nTPM
Colon	1.6 nTPM
PBMC	1.4 nTPM
Liver	1.3 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Dendritic cells	4.1 nTPM
PBMC	8.0 nTPM
Breast	3.6 nTPM
Adipose tissue	0.6 nTPM

Endothelial cells	69.7 nTPM
Esophagus	101.0 nTPM
Breast	97.8 nTPM
Skin	89.7 nTPM
Prostate	86.9 nTPM
Ovary	83.5 nTPM
Placenta	82.4 nTPM
Skeletal muscle	80.7 nTPM
Eye	64.7 nTPM
Testis	64.0 nTPM
Endometrium	57.8 nTPM
Heart muscle	54.1 nTPM
Pancreas	42.5 nTPM
Liver	35.7 nTPM
Lung	34.3 nTPM

Fibroblasts	66.7 nTPM
Adipose tissue	111.1 nTPM
Stomach	109.9 nTPM
Prostate	102.1 nTPM
Esophagus	95.5 nTPM
Placenta	73.3 nTPM
Breast	68.1 nTPM
Heart muscle	37.4 nTPM
Ovary	36.2 nTPM
Skin	35.8 nTPM
Skeletal muscle	34.9 nTPM
Lung	29.0 nTPM

Intestinal goblet cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Macrophages	4.3 nTPM
Kidney	17.5 nTPM
Prostate	10.3 nTPM
Testis	6.9 nTPM
Lung	6.7 nTPM
Endometrium	5.8 nTPM
Skeletal muscle	5.0 nTPM
Esophagus	4.8 nTPM
Breast	3.1 nTPM
Pancreas	2.5 nTPM
Spleen	1.0 nTPM
Ovary	0.8 nTPM
Adipose tissue	0.8 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	0.5 nTPM
Stomach	2.1 nTPM
Adipose tissue	0.6 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Respiratory ciliated cells	30.9 nTPM
Bronchus	42.8 nTPM
Lung	19.0 nTPM

Smooth muscle cells	149.9 nTPM
Esophagus	254.3 nTPM
Adipose tissue	237.9 nTPM
Prostate	221.3 nTPM
Skeletal muscle	181.5 nTPM
Breast	177.2 nTPM
Skin	146.9 nTPM
Heart muscle	134.4 nTPM
Endometrium	114.3 nTPM
Pancreas	77.2 nTPM
Ovary	59.7 nTPM
Bronchus	44.1 nTPM

T-cells	4.4 nTPM
Kidney	24.0 nTPM
Prostate	14.2 nTPM
Endometrium	10.6 nTPM
Lung	9.1 nTPM
Skin	6.0 nTPM
Breast	4.1 nTPM
Liver	2.9 nTPM
Skeletal muscle	2.3 nTPM
PBMC	1.2 nTPM
Stomach	0.3 nTPM
Adipose tissue	0.2 nTPM
Spleen	0.2 nTPM
Colon	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM

Basal keratinocytes	9.3 nTPM
Skin	9.3 nTPM

Basal prostatic cells	61.8 nTPM
Prostate	61.8 nTPM

Basal respiratory cells	22.7 nTPM
Bronchus	22.7 nTPM

Cholangiocytes	75.8 nTPM
Liver	75.8 nTPM

Undifferentiated cells	1.0 nTPM
Colon	2.7 nTPM
Small intestine	0.4 nTPM
Rectum	0.1 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC