Single cell type - ARF4 - 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.	ARF4
Gene descriptionⁱ Full gene name according to HGNC.	ADP ribosylation factor 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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. 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	Plasma cells - Humoral 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	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. 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: Low cell type specificity

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

ARF4 is part of cluster 55 Plasma cells - Humoral immune response with confidenceⁱ 0.93
379 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
YIF1A	Yip1 interacting factor homolog A, membrane trafficking protein	0.6224	10
MANF	Mesencephalic astrocyte derived neurotrophic factor	0.6215	55
PDIA3	Protein disulfide isomerase family A member 3	0.5989	55
RAB2A	RAB2A, member RAS oncogene family	0.5931	55
HSPA5	Heat shock protein family A (Hsp70) member 5	0.5850	22
SAR1A	Secretion associated Ras related GTPase 1A	0.5757	10
REEP5	Receptor accessory protein 5	0.5645	10
RHEB	Ras homolog, mTORC1 binding	0.5538	10
SEC61G	SEC61 translocon subunit gamma	0.5470	55
DNAJC3	DnaJ heat shock protein family (Hsp40) member C3	0.5453	55
TMEM39A	Transmembrane protein 39A	0.5449	55
ERP44	Endoplasmic reticulum protein 44	0.5304	55
PCOLCE	Procollagen C-endopeptidase enhancer	0.5056	10
LRRC59	Leucine rich repeat containing 59	0.5053	55
EFEMP2	EGF containing fibulin extracellular matrix protein 2	0.4909	33

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	172.5 nTPM
Breast	194.7 nTPM
Adipose tissue	150.2 nTPM

Alveolar cells type 1	76.9 nTPM
Lung	76.9 nTPM

Alveolar cells type 2	90.8 nTPM
Lung	90.8 nTPM

Astrocytes	18.3 nTPM
Brain	18.3 nTPM

B-cells	150.2 nTPM
Breast	314.3 nTPM
Liver	276.1 nTPM
Lymph node	185.1 nTPM
Stomach	163.5 nTPM
Spleen	144.0 nTPM
Colon	137.4 nTPM
Adipose tissue	135.8 nTPM
Kidney	61.9 nTPM
Bone marrow	56.4 nTPM
PBMC	27.1 nTPM

Basal squamous epithelial cells	195.8 nTPM
Esophagus	195.8 nTPM

Dendritic cells	146.7 nTPM
Breast	220.5 nTPM
Adipose tissue	147.8 nTPM
PBMC	71.8 nTPM

Endothelial cells	146.5 nTPM
Prostate	266.3 nTPM
Skin	231.0 nTPM
Pancreas	208.5 nTPM
Esophagus	198.2 nTPM
Endometrium	180.1 nTPM
Breast	171.5 nTPM
Placenta	163.7 nTPM
Ovary	137.5 nTPM
Skeletal muscle	102.7 nTPM
Testis	95.4 nTPM
Eye	92.2 nTPM
Liver	91.8 nTPM
Heart muscle	59.3 nTPM
Lung	53.0 nTPM

Enteroendocrine cells	164.5 nTPM
Colon	241.6 nTPM
Rectum	87.4 nTPM

Erythroid cells	232.4 nTPM
Liver	384.9 nTPM
Bone marrow	79.8 nTPM

Fibroblasts	298.4 nTPM
Prostate	537.3 nTPM
Placenta	535.1 nTPM
Skin	415.3 nTPM
Stomach	362.3 nTPM
Breast	332.9 nTPM
Esophagus	300.5 nTPM
Adipose tissue	247.7 nTPM
Ovary	213.6 nTPM
Skeletal muscle	152.5 nTPM
Lung	101.7 nTPM
Heart muscle	82.8 nTPM

Intestinal goblet cells	403.7 nTPM
Colon	771.2 nTPM
Rectum	251.7 nTPM
Small intestine	188.3 nTPM

Macrophages	139.4 nTPM
Breast	267.8 nTPM
Pancreas	252.7 nTPM
Prostate	240.8 nTPM
Adipose tissue	196.6 nTPM
Endometrium	164.0 nTPM
Esophagus	154.2 nTPM
Spleen	120.3 nTPM
Stomach	120.1 nTPM
Kidney	103.7 nTPM
PBMC	95.5 nTPM
Testis	85.9 nTPM
Skeletal muscle	82.2 nTPM
Ovary	76.3 nTPM
Bone marrow	67.5 nTPM
Lung	63.8 nTPM

Paneth cells	238.1 nTPM
Colon	368.9 nTPM
Rectum	202.9 nTPM
Small intestine	142.7 nTPM

Plasma cells	346.8 nTPM
Stomach	554.5 nTPM
Esophagus	437.2 nTPM
Spleen	370.6 nTPM
Bone marrow	232.4 nTPM
Adipose tissue	139.3 nTPM

Cholangiocytes	91.5 nTPM
Liver	91.5 nTPM

Collecting duct cells	97.5 nTPM
Kidney	97.5 nTPM

Cone photoreceptor cells	6.2 nTPM
Eye	6.2 nTPM

Cytotrophoblasts	322.3 nTPM
Placenta	322.3 nTPM

Respiratory ciliated cells	201.2 nTPM
Bronchus	315.1 nTPM
Lung	87.4 nTPM

Smooth muscle cells	345.5 nTPM
Bronchus	1316.4 nTPM
Pancreas	954.1 nTPM
Ovary	254.1 nTPM
Prostate	237.9 nTPM
Endometrium	197.9 nTPM
Skin	181.7 nTPM
Esophagus	170.5 nTPM
Breast	144.4 nTPM
Adipose tissue	127.5 nTPM
Skeletal muscle	115.3 nTPM
Heart muscle	100.6 nTPM

T-cells	133.0 nTPM
Breast	282.9 nTPM
Prostate	255.7 nTPM
Lymph node	190.1 nTPM
Skin	185.1 nTPM
Adipose tissue	162.4 nTPM
Spleen	156.8 nTPM
Stomach	144.6 nTPM
Endometrium	137.4 nTPM
Colon	115.9 nTPM
Esophagus	104.8 nTPM
Ovary	104.5 nTPM
Bone marrow	81.9 nTPM
Skeletal muscle	81.3 nTPM
Kidney	77.4 nTPM
Liver	77.0 nTPM
Lung	60.7 nTPM
PBMC	41.9 nTPM

Undifferentiated cells	272.3 nTPM
Colon	447.6 nTPM
Rectum	248.9 nTPM
Small intestine	120.5 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