Single cell type - ARID1B - 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.	ARID1B
Gene descriptionⁱ Full gene name according to HGNC.	AT-rich interaction domain 1B
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes Transcription factors
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.	21

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	Oligodendrocytes - Myelin sheath 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 (Oligodendrocytes, Inhibitory neurons, Oligodendrocyte precursor cells, Excitatory neurons, Microglial 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	Low immune cell specificity
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 all
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	Low cell line specificity
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 all
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 (Oligodendrocytes, Inhibitory neurons, Oligodendrocyte precursor cells, Excitatory neurons, Microglial 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

ARID1B is part of cluster 42 Oligodendrocytes - Myelin sheath organization with confidenceⁱ 1
385 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
BRAF	B-Raf proto-oncogene, serine/threonine kinase	0.6876	52
KANTR	KDM5C adjacent transcript	0.6305	7
KANSL1	KAT8 regulatory NSL complex subunit 1	0.5924	52
SCAF8	SR-related CTD associated factor 8	0.5874	42
CDK13	Cyclin dependent kinase 13	0.5754	52
TRA2A	Transformer 2 alpha homolog	0.5557	52
STRADA	STE20 related adaptor alpha	0.5491	42
INO80D	INO80 complex subunit D	0.5411	44
PAN3	Poly(A) specific ribonuclease subunit PAN3	0.5395	44
PTH	Parathyroid hormone	0.5393	42
OGA	O-GlcNAcase	0.5322	7
DOCK10	Dedicator of cytokinesis 10	0.5267	42
MTMR7	Myotubularin related protein 7	0.5214	8
AKAP6	A-kinase anchoring protein 6	0.5205	42
MAGEC3	MAGE family member C3	0.5190	42

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	85.7 nTPM
Adipose tissue	115.4 nTPM
Breast	56.0 nTPM

Alveolar cells type 1	48.1 nTPM
Lung	48.1 nTPM

Alveolar cells type 2	51.8 nTPM
Lung	51.8 nTPM

Astrocytes	282.7 nTPM
Brain	282.7 nTPM

B-cells	83.3 nTPM
Adipose tissue	242.6 nTPM
Breast	120.3 nTPM
Kidney	104.8 nTPM
Lymph node	72.1 nTPM
Spleen	67.2 nTPM
Bone marrow	54.8 nTPM
Colon	52.7 nTPM
Stomach	49.9 nTPM
PBMC	42.8 nTPM
Liver	25.8 nTPM

Dendritic cells	103.7 nTPM
Adipose tissue	189.6 nTPM
Breast	77.6 nTPM
PBMC	43.8 nTPM

Endothelial cells	43.9 nTPM
Ovary	96.8 nTPM
Endometrium	91.1 nTPM
Breast	67.4 nTPM
Skeletal muscle	40.6 nTPM
Liver	39.4 nTPM
Skin	37.8 nTPM
Esophagus	37.7 nTPM
Lung	37.4 nTPM
Eye	36.4 nTPM
Prostate	31.9 nTPM
Testis	30.2 nTPM
Heart muscle	28.2 nTPM
Placenta	24.5 nTPM
Pancreas	15.5 nTPM

Fibroblasts	49.9 nTPM
Adipose tissue	102.6 nTPM
Ovary	87.0 nTPM
Breast	67.3 nTPM
Heart muscle	53.8 nTPM
Esophagus	42.1 nTPM
Lung	41.3 nTPM
Skeletal muscle	41.1 nTPM
Skin	39.0 nTPM
Stomach	32.7 nTPM
Prostate	25.3 nTPM
Placenta	16.6 nTPM

Intestinal goblet cells	33.7 nTPM
Rectum	46.4 nTPM
Small intestine	38.2 nTPM
Colon	16.5 nTPM

Macrophages	49.1 nTPM
Adipose tissue	156.2 nTPM
Ovary	109.8 nTPM
Endometrium	75.9 nTPM
Breast	63.8 nTPM
Kidney	59.0 nTPM
Skeletal muscle	36.9 nTPM
Esophagus	34.6 nTPM
Pancreas	33.2 nTPM
Lung	33.0 nTPM
Bone marrow	32.4 nTPM
Stomach	32.2 nTPM
Spleen	32.1 nTPM
Testis	26.1 nTPM
Prostate	11.5 nTPM
PBMC	0.0 nTPM

Paneth cells	26.9 nTPM
Rectum	38.5 nTPM
Small intestine	22.5 nTPM
Colon	19.7 nTPM

Plasma cells	70.2 nTPM
Adipose tissue	241.9 nTPM
Bone marrow	41.2 nTPM
Spleen	28.3 nTPM
Stomach	21.3 nTPM
Esophagus	18.4 nTPM

Respiratory ciliated cells	29.5 nTPM
Lung	30.6 nTPM
Bronchus	28.4 nTPM

Smooth muscle cells	56.7 nTPM
Adipose tissue	124.3 nTPM
Endometrium	102.3 nTPM
Ovary	90.5 nTPM
Breast	67.6 nTPM
Esophagus	51.2 nTPM
Skeletal muscle	42.2 nTPM
Skin	41.4 nTPM
Heart muscle	31.0 nTPM
Prostate	28.8 nTPM
Pancreas	22.8 nTPM
Bronchus	21.0 nTPM

T-cells	51.9 nTPM
Adipose tissue	164.5 nTPM
Endometrium	114.5 nTPM
Ovary	102.3 nTPM
Breast	95.8 nTPM
Kidney	58.2 nTPM
Skeletal muscle	42.3 nTPM
Lymph node	38.5 nTPM
Spleen	37.2 nTPM
Esophagus	32.8 nTPM
Bone marrow	30.8 nTPM
Liver	30.5 nTPM
PBMC	26.7 nTPM
Stomach	26.1 nTPM
Colon	25.2 nTPM
Skin	24.9 nTPM
Lung	18.2 nTPM
Prostate	14.2 nTPM

Basal keratinocytes	47.5 nTPM
Skin	47.5 nTPM

Basal prostatic cells	22.3 nTPM
Prostate	22.3 nTPM

Basal respiratory cells	22.3 nTPM
Bronchus	22.3 nTPM

Basal squamous epithelial cells	41.5 nTPM
Esophagus	41.5 nTPM

Undifferentiated cells	36.3 nTPM
Rectum	43.0 nTPM
Small intestine	41.8 nTPM
Colon	24.1 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