Single cell type - ARID4B - 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.	ARID4B
Gene descriptionⁱ Full gene name according to HGNC.	AT-rich interaction domain 4B
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Metabolic proteins 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.	5

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	Spermatids - Spermatogenesis (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 (Late spermatids)
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 (Late spermatids)

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

ARID4B is part of cluster 31 Spermatids - Spermatogenesis with confidenceⁱ 1
413 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
HERPUD2	HERPUD family member 2	0.6052	31
CUL3	Cullin 3	0.5730	25
EIF4H	Eukaryotic translation initiation factor 4H	0.5539	31
CSNK1D	Casein kinase 1 delta	0.5432	25
FOXK1	Forkhead box K1	0.5204	25
PABPC1L2A	Poly(A) binding protein cytoplasmic 1 like 2A	0.5183	31
KANSL1	KAT8 regulatory NSL complex subunit 1	0.5160	52
RNF19A	Ring finger protein 19A, RBR E3 ubiquitin protein ligase	0.5103	24
FAM161B	FAM161 centrosomal protein B	0.5038	31
CCSER2	Coiled-coil serine rich protein 2	0.4990	31
RAB33B	RAB33B, member RAS oncogene family	0.4947	31
ABHD16B	Abhydrolase domain containing 16B	0.4907	31
USP37	Ubiquitin specific peptidase 37	0.4865	25
STRIP1	Striatin interacting protein 1	0.4854	31
SAMD4A	Sterile alpha motif domain containing 4A	0.4811	34

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	156.8 nTPM
Adipose tissue	176.9 nTPM
Breast	136.8 nTPM

Alveolar cells type 1	102.5 nTPM
Lung	102.5 nTPM

Alveolar cells type 2	106.8 nTPM
Lung	106.8 nTPM

Astrocytes	107.7 nTPM
Brain	107.7 nTPM

B-cells	150.1 nTPM
Adipose tissue	265.7 nTPM
Lymph node	207.7 nTPM
Colon	196.5 nTPM
PBMC	171.3 nTPM
Spleen	160.6 nTPM
Breast	139.2 nTPM
Stomach	135.8 nTPM
Bone marrow	115.3 nTPM
Kidney	57.1 nTPM
Liver	52.3 nTPM

Basal squamous epithelial cells	103.0 nTPM
Esophagus	103.0 nTPM

Dendritic cells	218.9 nTPM
Adipose tissue	352.3 nTPM
Breast	180.7 nTPM
PBMC	123.5 nTPM

Endothelial cells	128.9 nTPM
Lung	196.5 nTPM
Endometrium	196.0 nTPM
Prostate	191.8 nTPM
Skin	159.5 nTPM
Skeletal muscle	154.5 nTPM
Heart muscle	121.9 nTPM
Eye	117.3 nTPM
Ovary	113.9 nTPM
Pancreas	108.1 nTPM
Esophagus	101.1 nTPM
Breast	100.9 nTPM
Testis	100.2 nTPM
Placenta	75.6 nTPM
Liver	67.8 nTPM

Enteroendocrine cells	90.1 nTPM
Colon	124.3 nTPM
Rectum	55.8 nTPM

Fibroblasts	101.6 nTPM
Prostate	141.2 nTPM
Skin	137.1 nTPM
Lung	134.0 nTPM
Heart muscle	122.4 nTPM
Skeletal muscle	110.7 nTPM
Breast	100.1 nTPM
Adipose tissue	99.3 nTPM
Stomach	89.1 nTPM
Esophagus	66.4 nTPM
Placenta	58.7 nTPM
Ovary	58.6 nTPM

Intestinal goblet cells	53.2 nTPM
Colon	58.6 nTPM
Small intestine	51.0 nTPM
Rectum	50.0 nTPM

Macrophages	97.3 nTPM
Adipose tissue	181.8 nTPM
Endometrium	123.0 nTPM
Breast	120.9 nTPM
Prostate	115.8 nTPM
Skeletal muscle	115.6 nTPM
Lung	115.4 nTPM
Testis	106.4 nTPM
Spleen	94.3 nTPM
Stomach	93.7 nTPM
Ovary	91.5 nTPM
Kidney	80.1 nTPM
Esophagus	73.9 nTPM
Bone marrow	72.4 nTPM
Pancreas	61.2 nTPM
PBMC	13.6 nTPM

Paneth cells	57.3 nTPM
Colon	79.0 nTPM
Rectum	55.2 nTPM
Small intestine	37.6 nTPM

Plasma cells	104.1 nTPM
Adipose tissue	306.5 nTPM
Esophagus	61.7 nTPM
Stomach	58.7 nTPM
Spleen	52.6 nTPM
Bone marrow	41.2 nTPM

Respiratory ciliated cells	82.3 nTPM
Lung	99.1 nTPM
Bronchus	65.5 nTPM

Cholangiocytes	47.1 nTPM
Liver	47.1 nTPM

Collecting duct cells	31.3 nTPM
Kidney	31.3 nTPM

Cytotrophoblasts	64.0 nTPM
Placenta	64.0 nTPM

Distal enterocytes	47.9 nTPM
Colon	53.8 nTPM
Rectum	42.0 nTPM

Smooth muscle cells	121.4 nTPM
Heart muscle	184.3 nTPM
Prostate	145.6 nTPM
Endometrium	144.7 nTPM
Skin	139.8 nTPM
Skeletal muscle	139.4 nTPM
Ovary	128.1 nTPM
Adipose tissue	109.8 nTPM
Breast	105.3 nTPM
Bronchus	99.7 nTPM
Esophagus	93.1 nTPM
Pancreas	45.9 nTPM

T-cells	209.8 nTPM
Adipose tissue	469.6 nTPM
Skeletal muscle	281.4 nTPM
Colon	272.3 nTPM
Endometrium	258.2 nTPM
Lymph node	229.7 nTPM
Skin	207.7 nTPM
Ovary	206.9 nTPM
PBMC	206.1 nTPM
Breast	205.4 nTPM
Spleen	199.7 nTPM
Stomach	176.0 nTPM
Lung	174.7 nTPM
Prostate	165.6 nTPM
Liver	150.0 nTPM
Kidney	130.1 nTPM
Esophagus	117.9 nTPM
Bone marrow	114.8 nTPM

Undifferentiated cells	44.7 nTPM
Colon	48.1 nTPM
Small intestine	43.0 nTPM
Rectum	42.9 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