Single cell type - RASSF4 - 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.	RASSF4
Gene descriptionⁱ Full gene name according to HGNC.	Ras association domain family member 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.	4

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	Muller glia cells - Visual perception (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 (Muller glia cells, monocytes, Skeletal myocytes, Hofbauer cells, Proximal tubular 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	Group enriched (classical monocyte, myeloid DC, intermediate monocyte, non-classical monocyte)
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 (Karpas-707, RH-30, RPMI-8226, U-937, WM-115)
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 (Muller glia cells, monocytes, Skeletal myocytes, Hofbauer cells, Proximal tubular 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

RASSF4 is part of cluster 5 Muller glia cells - Visual perception with confidenceⁱ 1
155 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
SLC15A3	Solute carrier family 15 member 3	0.7012	5
CD86	CD86 molecule	0.5568	3
CRYAA	Crystallin alpha A	0.5362	5
CA14	Carbonic anhydrase 14	0.5351	5
GPR137B	G protein-coupled receptor 137B	0.5299	5
CTSZ	Cathepsin Z	0.5197	41
IL12B	Interleukin 12B	0.5178	3
CSF2RA	Colony stimulating factor 2 receptor subunit alpha	0.5172	3
LRRC75B	Leucine rich repeat containing 75B	0.5104	67
TUBB2B	Tubulin beta 2B class IIb	0.5103	5
CD80	CD80 molecule	0.5095	3
GATB	Glutamyl-tRNA amidotransferase subunit B	0.5091	5
RGR	Retinal G protein coupled receptor	0.5019	5
CLRN1	Clarin 1	0.4991	5
SIX6	SIX homeobox 6	0.4958	5

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	8.9 nTPM
Breast	9.8 nTPM
Adipose tissue	8.1 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	17.2 nTPM
Lung	17.2 nTPM

Astrocytes	77.4 nTPM
Brain	77.4 nTPM

B-cells	3.7 nTPM
Kidney	14.3 nTPM
Colon	8.0 nTPM
Breast	6.6 nTPM
Lymph node	3.2 nTPM
Liver	2.0 nTPM
PBMC	1.4 nTPM
Stomach	0.9 nTPM
Adipose tissue	0.5 nTPM
Spleen	0.3 nTPM
Bone marrow	0.0 nTPM

Dendritic cells	20.3 nTPM
Adipose tissue	36.9 nTPM
Breast	24.1 nTPM
PBMC	0.0 nTPM

Endothelial cells	9.2 nTPM
Eye	28.3 nTPM
Lung	18.7 nTPM
Heart muscle	18.3 nTPM
Skeletal muscle	15.2 nTPM
Esophagus	11.5 nTPM
Breast	8.2 nTPM
Skin	6.9 nTPM
Ovary	4.2 nTPM
Pancreas	3.9 nTPM
Placenta	3.4 nTPM
Liver	2.7 nTPM
Testis	2.4 nTPM
Endometrium	2.3 nTPM
Prostate	2.2 nTPM

Fibroblasts	28.6 nTPM
Heart muscle	102.8 nTPM
Adipose tissue	51.4 nTPM
Esophagus	40.2 nTPM
Skeletal muscle	27.8 nTPM
Stomach	22.3 nTPM
Breast	21.3 nTPM
Lung	19.0 nTPM
Prostate	13.5 nTPM
Skin	7.9 nTPM
Placenta	5.4 nTPM
Ovary	2.7 nTPM

Intestinal goblet cells	7.4 nTPM
Small intestine	10.8 nTPM
Rectum	10.5 nTPM
Colon	0.7 nTPM

Macrophages	91.0 nTPM
Breast	170.5 nTPM
Ovary	150.9 nTPM
Adipose tissue	125.4 nTPM
Spleen	95.4 nTPM
Endometrium	94.3 nTPM
Skeletal muscle	91.1 nTPM
Prostate	90.5 nTPM
Testis	89.5 nTPM
Lung	81.3 nTPM
Bone marrow	76.2 nTPM
Esophagus	75.5 nTPM
Stomach	73.3 nTPM
Pancreas	68.9 nTPM
Kidney	68.1 nTPM
PBMC	13.6 nTPM

Paneth cells	11.3 nTPM
Rectum	15.7 nTPM
Small intestine	15.0 nTPM
Colon	3.3 nTPM

Plasma cells	4.1 nTPM
Adipose tissue	9.7 nTPM
Esophagus	6.1 nTPM
Stomach	3.8 nTPM
Spleen	0.7 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	5.9 nTPM
Lung	7.3 nTPM
Bronchus	4.5 nTPM

Smooth muscle cells	25.9 nTPM
Heart muscle	79.3 nTPM
Esophagus	38.8 nTPM
Skeletal muscle	34.0 nTPM
Prostate	30.3 nTPM
Adipose tissue	28.0 nTPM
Breast	22.7 nTPM
Skin	17.8 nTPM
Endometrium	15.9 nTPM
Bronchus	9.2 nTPM
Ovary	4.8 nTPM
Pancreas	4.1 nTPM

T-cells	8.0 nTPM
Lung	38.0 nTPM
Kidney	18.5 nTPM
Liver	12.1 nTPM
Bone marrow	10.9 nTPM
Skeletal muscle	8.2 nTPM
Spleen	8.1 nTPM
Endometrium	6.9 nTPM
Ovary	6.7 nTPM
Esophagus	6.6 nTPM
Prostate	4.7 nTPM
Breast	4.6 nTPM
Adipose tissue	3.5 nTPM
Skin	2.8 nTPM
PBMC	2.7 nTPM
Lymph node	1.2 nTPM
Stomach	0.7 nTPM
Colon	0.5 nTPM

Cholangiocytes	37.1 nTPM
Liver	37.1 nTPM

Collecting duct cells	16.5 nTPM
Kidney	16.5 nTPM

Endometrial stromal cells	13.7 nTPM
Endometrium	13.7 nTPM

Excitatory neurons	17.0 nTPM
Brain	17.0 nTPM

Undifferentiated cells	15.0 nTPM
Small intestine	22.7 nTPM
Rectum	17.5 nTPM
Colon	4.6 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