Single cell type - RASGRF1 - The Human Protein Atlas

RASGRF1

Search result

Field

Term

Cluster

Pathway

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.	RASGRF1
Gene descriptionⁱ Full gene name according to HGNC.	Ras protein specific guanine nucleotide releasing factor 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	RAS pathway related 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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

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.	Neurons - Synaptic function (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.	Group enriched (Oligodendrocytes, Alveolar cells type 2, Inhibitory neurons, Excitatory neurons, Horizontal cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.86
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	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.	Not detected in immune cells
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Group enriched (Oligodendrocytes, Alveolar cells type 2, Inhibitory neurons, Excitatory neurons, Horizontal cells)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Not detected in immune cells
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

RASGRF1 is part of cluster 65 Neurons - Synaptic function with confidenceⁱ 1
250 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LGI3	Leucine rich repeat LGI family member 3	0.7546	72
ELAPOR2	Endosome-lysosome associated apoptosis and autophagy regulator family member 2	0.7037	65
DOCK3	Dedicator of cytokinesis 3	0.6951	65
GRID1	Glutamate ionotropic receptor delta type subunit 1	0.6741	65
IL1RAPL1	Interleukin 1 receptor accessory protein like 1	0.6636	65
SAMD12	Sterile alpha motif domain containing 12	0.6555	51
ANKS6	Ankyrin repeat and sterile alpha motif domain containing 6	0.6420	51
MTMR7	Myotubularin related protein 7	0.6409	65
KIRREL3	Kirre like nephrin family adhesion molecule 3	0.6390	65
HECW2	HECT, C2 and WW domain containing E3 ubiquitin protein ligase 2	0.6358	65
HHIP	Hedgehog interacting protein	0.6255	72
UNC5C	Unc-5 netrin receptor C	0.6239	65
MACROD2	Mono-ADP ribosylhydrolase 2	0.6058	65
ELAVL3	ELAV like RNA binding protein 3	0.5978	51
ZNF536	Zinc finger protein 536	0.5927	65

Adipocytes	0.2 nTPM
Breast	0.3 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	4.7 nTPM
Lung	4.7 nTPM

Alveolar cells type 2	90.7 nTPM
Lung	90.7 nTPM

Astrocytes	8.1 nTPM
Brain	8.1 nTPM

B-cells	3.9 nTPM
Bone marrow	9.7 nTPM
Stomach	5.9 nTPM
Adipose tissue	5.3 nTPM
Kidney	5.2 nTPM
Liver	4.8 nTPM
Salivary gland	4.6 nTPM
Spleen	4.1 nTPM
Thymus	3.8 nTPM
Lymph node	3.3 nTPM
Lung	2.7 nTPM
Skin	1.7 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	0.7 nTPM
Lung	0.9 nTPM
Fallopian tube	0.8 nTPM
Bronchus	0.7 nTPM
Endometrium	0.6 nTPM

Club cells	0.6 nTPM
Lung	1.6 nTPM
Bronchus	0.1 nTPM
Prostate	0.0 nTPM

Endothelial cells	0.6 nTPM
Ovary	3.5 nTPM
Breast	2.6 nTPM
Lung	1.6 nTPM
Skin	0.8 nTPM
Fallopian tube	0.7 nTPM
Testis	0.6 nTPM
Placenta	0.6 nTPM
Tongue	0.5 nTPM
Endometrium	0.4 nTPM
Skeletal muscle	0.1 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.1 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	0.4 nTPM
Lung	2.0 nTPM
Placenta	1.5 nTPM
Prostate	0.7 nTPM
Salivary gland	0.6 nTPM
Pancreas	0.3 nTPM
Thymus	0.3 nTPM
Heart muscle	0.2 nTPM
Breast	0.2 nTPM
Skin	0.1 nTPM
Skeletal muscle	0.1 nTPM
Adipose tissue	0.1 nTPM
Esophagus	0.1 nTPM
Liver	0.0 nTPM
Stomach	0.0 nTPM
Vascular	0.0 nTPM
Fallopian tube	0.0 nTPM

Granulocytes	0.5 nTPM
Lung	1.5 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Lymphatic endothelial cells	0.7 nTPM
Fallopian tube	1.5 nTPM
Ovary	0.0 nTPM

Macrophages	1.1 nTPM
Breast	4.7 nTPM
Endometrium	3.7 nTPM
Skin	2.2 nTPM
Fallopian tube	1.6 nTPM
Adipose tissue	1.5 nTPM
Esophagus	1.3 nTPM
Bone marrow	1.0 nTPM
Kidney	0.9 nTPM
Tongue	0.9 nTPM
Lung	0.8 nTPM
Prostate	0.7 nTPM
Salivary gland	0.5 nTPM
Thymus	0.2 nTPM
Vascular	0.2 nTPM
Testis	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

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

Bipolar cells	3.6 nTPM
Eye	3.6 nTPM

Plasma cells	6.2 nTPM
Fallopian tube	31.2 nTPM
Esophagus	5.2 nTPM
Bone marrow	3.0 nTPM
Salivary gland	2.7 nTPM
Liver	2.5 nTPM
Thymus	2.4 nTPM
Spleen	2.2 nTPM
Stomach	0.8 nTPM

Schwann cells	1.0 nTPM
Vascular	3.1 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.0 nTPM
Salivary gland	0.0 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	0.1 nTPM
Lung	1.2 nTPM
Endometrium	0.3 nTPM
Placenta	0.1 nTPM
Thymus	0.1 nTPM
Liver	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Salivary gland	0.0 nTPM
Tongue	0.0 nTPM
Vascular	0.0 nTPM
Breast	0.0 nTPM
Fallopian tube	0.0 nTPM
Ovary	0.0 nTPM

T-cells	0.1 nTPM
Endometrium	0.5 nTPM
Lung	0.5 nTPM
Skin	0.4 nTPM
Skeletal muscle	0.4 nTPM
Vascular	0.4 nTPM
Lymph node	0.3 nTPM
Spleen	0.2 nTPM
Prostate	0.1 nTPM
Breast	0.1 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM
Salivary gland	0.0 nTPM
Thymus	0.0 nTPM
Tongue	0.0 nTPM
Fallopian tube	0.0 nTPM

Undifferentiated cells	0.1 nTPM
Colon	0.1 nTPM
Rectum	0.1 nTPM
Small intestine	0.0 nTPM

Amygdala excitatory	127.8 nTPM
Hypothalamus	177.1 nTPM
Thalamus	133.4 nTPM
Hippocampus	125.4 nTPM
Cerebral cortex	120.6 nTPM
Basal ganglia	110.0 nTPM
Amygdala	100.2 nTPM

Astrocyte	25.5 nTPM
Spinal cord	49.0 nTPM
Medulla oblongata	47.6 nTPM
Thalamus	43.0 nTPM
Midbrain	31.1 nTPM
Pons	29.5 nTPM
Cerebellum	25.6 nTPM
Cerebral cortex	17.6 nTPM
Hypothalamus	11.4 nTPM
Hippocampus	9.9 nTPM
Basal ganglia	9.2 nTPM
Amygdala	7.0 nTPM

Bergmann glia	3.2 nTPM
Medulla oblongata	4.3 nTPM
Cerebellum	4.0 nTPM
Pons	1.4 nTPM

Central nervous system macrophage	7.3 nTPM
Spinal cord	14.7 nTPM
Thalamus	11.5 nTPM
Hypothalamus	9.4 nTPM
Cerebral cortex	8.5 nTPM
Pons	7.4 nTPM
Midbrain	7.2 nTPM
Cerebellum	5.7 nTPM
Hippocampus	5.5 nTPM
Amygdala	4.5 nTPM
Medulla oblongata	3.8 nTPM
Basal ganglia	2.5 nTPM

Cerebellar inhibitory	114.3 nTPM
Midbrain	132.8 nTPM
Pons	114.8 nTPM
Medulla oblongata	113.2 nTPM
Cerebellum	111.8 nTPM
Spinal cord	99.0 nTPM

Cge interneuron	155.5 nTPM
Hypothalamus	204.5 nTPM
Amygdala	160.1 nTPM
Thalamus	158.9 nTPM
Midbrain	151.5 nTPM
Cerebral cortex	140.5 nTPM
Basal ganglia	136.7 nTPM
Hippocampus	136.3 nTPM

Choroid plexus epithelial cell	11.8 nTPM
Thalamus	43.8 nTPM
Medulla oblongata	2.4 nTPM
Basal ganglia	0.8 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	41.7 nTPM
Thalamus	116.2 nTPM
Hypothalamus	67.6 nTPM
Pons	57.5 nTPM
Cerebellum	46.0 nTPM
Medulla oblongata	38.7 nTPM
Basal ganglia	31.2 nTPM
Amygdala	29.3 nTPM
Hippocampus	24.3 nTPM
Midbrain	19.3 nTPM
Spinal cord	14.7 nTPM
Cerebral cortex	13.9 nTPM

Deep-layer corticothalamic and 6b	108.2 nTPM
Hippocampus	133.7 nTPM
Hypothalamus	126.7 nTPM
Cerebral cortex	110.4 nTPM
Amygdala	100.8 nTPM
Midbrain	92.1 nTPM
Basal ganglia	85.4 nTPM

Deep-layer intratelencephalic	84.1 nTPM
Cerebral cortex	95.2 nTPM
Hypothalamus	88.7 nTPM
Hippocampus	87.9 nTPM
Amygdala	81.4 nTPM
Basal ganglia	67.4 nTPM

Deep-layer near-projecting	127.1 nTPM
Cerebral cortex	139.0 nTPM
Amygdala	137.6 nTPM
Hypothalamus	136.1 nTPM
Basal ganglia	114.4 nTPM
Hippocampus	108.6 nTPM

Eccentric medium spiny neuron	52.9 nTPM
Amygdala	72.2 nTPM
Cerebral cortex	69.0 nTPM
Hippocampus	55.1 nTPM
Thalamus	45.5 nTPM
Basal ganglia	43.4 nTPM
Hypothalamus	32.2 nTPM

Endothelial cell	5.6 nTPM
Cerebellum	10.1 nTPM
Thalamus	9.0 nTPM
Pons	8.1 nTPM
Spinal cord	6.9 nTPM
Cerebral cortex	5.8 nTPM
Hippocampus	4.5 nTPM
Medulla oblongata	4.1 nTPM
Midbrain	3.8 nTPM
Hypothalamus	3.7 nTPM
Amygdala	3.4 nTPM
Basal ganglia	2.8 nTPM

Ependymal cell	7.0 nTPM
Amygdala	11.9 nTPM
Spinal cord	11.5 nTPM
Midbrain	8.9 nTPM
Hypothalamus	7.1 nTPM
Thalamus	6.9 nTPM
Medulla oblongata	4.6 nTPM
Hippocampus	4.3 nTPM
Basal ganglia	3.9 nTPM
Pons	3.5 nTPM