Single cell type - ARL4D - 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.	ARL4D
Gene descriptionⁱ Full gene name according to HGNC.	ADP ribosylation factor like GTPase 4D
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.	1

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	Squamous epithelial cells - Keratinization (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 (Rod photoreceptor cells, Suprabasal keratinocytes, Basal keratinocytes, Squamous epithelial cells, Early 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	Group enriched (naive B-cell, memory B-cell)
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 many
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 (HHSteC, hTCEpi)
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 (Rod photoreceptor cells, Suprabasal keratinocytes, Basal keratinocytes, Squamous epithelial cells, Early 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

ARL4D is part of cluster 61 Squamous epithelial cells - Keratinization with confidenceⁱ 1
176 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
ZNF385A	Zinc finger protein 385A	0.6151	56
CBR3	Carbonyl reductase 3	0.5740	61
THOC3	THO complex 3	0.5441	61
CERS3	Ceramide synthase 3	0.5405	61
SLC38A2	Solute carrier family 38 member 2	0.5312	7
ZFP36L1	ZFP36 ring finger protein like 1	0.5248	61
KRT31	Keratin 31	0.5224	61
SOX15	SRY-box transcription factor 15	0.5216	61
ZNF503	Zinc finger protein 503	0.5186	61
ING1	Inhibitor of growth family member 1	0.5063	7
SERTAD2	SERTA domain containing 2	0.5020	44
LY6G6D	Lymphocyte antigen 6 family member G6D	0.4966	61
TP53AIP1	Tumor protein p53 regulated apoptosis inducing protein 1	0.4962	61
C4orf46	Chromosome 4 open reading frame 46	0.4951	48
PKP1	Plakophilin 1	0.4947	61

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	28.8 nTPM
Breast	48.6 nTPM
Adipose tissue	9.1 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	1.7 nTPM
Lung	1.7 nTPM

Astrocytes	0.7 nTPM
Brain	0.7 nTPM

B-cells	37.9 nTPM
Lymph node	112.9 nTPM
Breast	78.8 nTPM
Spleen	76.8 nTPM
Stomach	28.6 nTPM
Colon	27.1 nTPM
Adipose tissue	22.5 nTPM
Bone marrow	12.3 nTPM
Kidney	9.5 nTPM
PBMC	5.7 nTPM
Liver	4.6 nTPM

Basal squamous epithelial cells	132.1 nTPM
Esophagus	132.1 nTPM

Dendritic cells	37.4 nTPM
Breast	99.8 nTPM
Adipose tissue	12.3 nTPM
PBMC	0.0 nTPM

Endothelial cells	32.2 nTPM
Liver	132.1 nTPM
Esophagus	68.5 nTPM
Testis	53.3 nTPM
Breast	41.3 nTPM
Skin	40.0 nTPM
Eye	32.4 nTPM
Placenta	26.1 nTPM
Heart muscle	16.0 nTPM
Endometrium	14.4 nTPM
Skeletal muscle	8.8 nTPM
Prostate	8.3 nTPM
Ovary	7.0 nTPM
Lung	3.1 nTPM
Pancreas	0.0 nTPM

Fibroblasts	52.3 nTPM
Skin	92.9 nTPM
Esophagus	80.8 nTPM
Stomach	78.7 nTPM
Heart muscle	55.8 nTPM
Breast	55.6 nTPM
Prostate	55.1 nTPM
Skeletal muscle	38.4 nTPM
Adipose tissue	34.0 nTPM
Ovary	33.4 nTPM
Placenta	31.9 nTPM
Lung	19.0 nTPM

Intestinal goblet cells	5.4 nTPM
Colon	11.4 nTPM
Rectum	2.8 nTPM
Small intestine	2.2 nTPM

Macrophages	16.6 nTPM
Breast	139.5 nTPM
Esophagus	59.8 nTPM
Endometrium	15.7 nTPM
Skeletal muscle	9.6 nTPM
Adipose tissue	8.8 nTPM
Testis	4.6 nTPM
Ovary	3.9 nTPM
Prostate	3.4 nTPM
Spleen	2.1 nTPM
Lung	1.1 nTPM
Kidney	0.8 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.9 nTPM
Rectum	2.7 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	1.4 nTPM
Spleen	4.8 nTPM
Adipose tissue	1.9 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	7.6 nTPM
Bronchus	9.3 nTPM
Lung	5.8 nTPM

Smooth muscle cells	45.1 nTPM
Skin	176.9 nTPM
Esophagus	124.1 nTPM
Breast	44.4 nTPM
Prostate	32.1 nTPM
Adipose tissue	21.7 nTPM
Heart muscle	20.4 nTPM
Endometrium	17.5 nTPM
Bronchus	17.2 nTPM
Pancreas	16.0 nTPM
Skeletal muscle	15.4 nTPM
Ovary	10.4 nTPM

Collecting duct cells	132.4 nTPM
Kidney	132.4 nTPM

Cytotrophoblasts	39.9 nTPM
Placenta	39.9 nTPM

Distal tubular cells	76.3 nTPM
Kidney	76.3 nTPM

Endometrial stromal cells	33.3 nTPM
Endometrium	33.3 nTPM

T-cells	31.7 nTPM
Breast	153.9 nTPM
Lymph node	94.8 nTPM
Skin	53.4 nTPM
Esophagus	52.4 nTPM
Spleen	40.6 nTPM
Endometrium	25.7 nTPM
Colon	19.5 nTPM
Skeletal muscle	18.2 nTPM
Ovary	15.6 nTPM
Prostate	14.2 nTPM
Stomach	14.1 nTPM
Adipose tissue	9.5 nTPM
Kidney	8.9 nTPM
Lung	7.6 nTPM
Liver	7.4 nTPM
Bone marrow	2.2 nTPM
PBMC	0.5 nTPM

Undifferentiated cells	4.6 nTPM
Colon	8.7 nTPM
Rectum	2.9 nTPM
Small intestine	2.2 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