Single cell type - ARHGAP4 - 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.	ARHGAP4
Gene descriptionⁱ Full gene name according to HGNC.	Rho GTPase activating protein 4
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.	12

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	B-cells - Immune response (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 (Hofbauer cells, Kupffer cells, Macrophages, dendritic cells, NK-cells, T-cells, B-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	Cell line enhanced (Daudi, HL-60, Karpas-707, MOLT-4, RPMI-8226, THP-1, U-698, U-937)
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 (Hofbauer cells, Kupffer cells, Macrophages, dendritic cells, NK-cells, T-cells, B-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

ARHGAP4 is part of cluster 57 B-cells - Immune response with confidenceⁱ 1
204 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
PARVG	Parvin gamma	0.6965	57
PLCB2	Phospholipase C beta 2	0.6851	19
VAV1	Vav guanine nucleotide exchange factor 1	0.6741	57
RGS19	Regulator of G protein signaling 19	0.6666	57
LAPTM5	Lysosomal protein transmembrane 5	0.6620	57
OSM	Oncostatin M	0.6406	19
WAS	WASP actin nucleation promoting factor	0.6160	19
LY86	Lymphocyte antigen 86	0.6071	57
TRMT1	TRNA methyltransferase 1	0.5948	57
ATG16L2	Autophagy related 16 like 2	0.5888	57
DENND4B	DENN domain containing 4B	0.5887	57
PTPN6	Protein tyrosine phosphatase non-receptor type 6	0.5787	57
MS4A4E	Membrane spanning 4-domains A4E	0.5741	4
HCLS1	Hematopoietic cell-specific Lyn substrate 1	0.5730	63
TLR1	Toll like receptor 1	0.5726	57

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	16.0 nTPM
Breast	18.7 nTPM
Adipose tissue	13.3 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	22.7 nTPM
Lung	22.7 nTPM

Astrocytes	2.6 nTPM
Brain	2.6 nTPM

Basal keratinocytes	3.4 nTPM
Skin	3.4 nTPM

B-cells	65.3 nTPM
Bone marrow	92.3 nTPM
Stomach	91.7 nTPM
Lymph node	87.7 nTPM
Spleen	78.6 nTPM
Adipose tissue	69.2 nTPM
Breast	62.8 nTPM
PBMC	51.3 nTPM
Colon	43.2 nTPM
Kidney	42.9 nTPM
Liver	33.1 nTPM

Dendritic cells	70.0 nTPM
Breast	90.4 nTPM
Adipose tissue	67.9 nTPM
PBMC	51.8 nTPM

Endothelial cells	13.0 nTPM
Placenta	31.8 nTPM
Eye	26.7 nTPM
Heart muscle	17.9 nTPM
Endometrium	16.9 nTPM
Esophagus	13.9 nTPM
Ovary	13.5 nTPM
Lung	12.5 nTPM
Testis	11.6 nTPM
Skeletal muscle	9.9 nTPM
Breast	8.5 nTPM
Prostate	6.9 nTPM
Liver	6.4 nTPM
Skin	5.8 nTPM
Pancreas	0.0 nTPM

Fibroblasts	3.5 nTPM
Heart muscle	12.4 nTPM
Stomach	6.0 nTPM
Lung	5.6 nTPM
Breast	3.5 nTPM
Placenta	3.2 nTPM
Skin	2.9 nTPM
Skeletal muscle	1.3 nTPM
Esophagus	1.3 nTPM
Ovary	1.2 nTPM
Adipose tissue	0.5 nTPM
Prostate	0.2 nTPM

Intestinal goblet cells	6.6 nTPM
Colon	15.0 nTPM
Small intestine	3.2 nTPM
Rectum	1.6 nTPM

Macrophages	76.0 nTPM
Spleen	138.9 nTPM
Stomach	111.3 nTPM
Breast	110.6 nTPM
Esophagus	110.1 nTPM
Bone marrow	105.0 nTPM
Adipose tissue	100.8 nTPM
Ovary	86.3 nTPM
Skeletal muscle	71.7 nTPM
Kidney	68.1 nTPM
Lung	57.2 nTPM
Endometrium	52.9 nTPM
Prostate	51.6 nTPM
Testis	46.4 nTPM
Pancreas	15.3 nTPM
PBMC	13.6 nTPM

Paneth cells	0.5 nTPM
Rectum	1.5 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	32.9 nTPM
Adipose tissue	71.0 nTPM
Bone marrow	33.0 nTPM
Stomach	27.7 nTPM
Spleen	26.7 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	8.7 nTPM
Lung	14.6 nTPM
Bronchus	2.9 nTPM

Smooth muscle cells	2.6 nTPM
Heart muscle	8.1 nTPM
Breast	7.9 nTPM
Skeletal muscle	2.2 nTPM
Skin	2.1 nTPM
Bronchus	1.9 nTPM
Ovary	1.7 nTPM
Esophagus	1.5 nTPM
Adipose tissue	1.4 nTPM
Endometrium	0.8 nTPM
Prostate	0.4 nTPM
Pancreas	0.2 nTPM

Collecting duct cells	18.4 nTPM
Kidney	18.4 nTPM

Cone photoreceptor cells	4.2 nTPM
Eye	4.2 nTPM

Distal tubular cells	5.9 nTPM
Kidney	5.9 nTPM

Early spermatids	0.1 nTPM
Testis	0.1 nTPM

T-cells	69.5 nTPM
Breast	107.3 nTPM
Bone marrow	96.7 nTPM
Lymph node	89.6 nTPM
Spleen	88.7 nTPM
Stomach	85.7 nTPM
Ovary	84.5 nTPM
Adipose tissue	81.2 nTPM
Esophagus	78.6 nTPM
Skeletal muscle	66.4 nTPM
Liver	64.5 nTPM
Colon	59.4 nTPM
PBMC	55.5 nTPM
Kidney	53.4 nTPM
Endometrium	48.9 nTPM
Lung	48.6 nTPM
Skin	43.7 nTPM
Prostate	28.4 nTPM

Undifferentiated cells	5.0 nTPM
Colon	7.6 nTPM
Small intestine	4.6 nTPM
Rectum	2.6 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