Single cell type - LRRC24 - The Human Protein Atlas

LRRC24

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.	LRRC24
Gene descriptionⁱ Full gene name according to HGNC.	Leucine rich repeat containing 24
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.	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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.	Bipolar 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.	Cell type enhanced (Cone photoreceptor cells, Bipolar cells, Rod photoreceptor cells, Late spermatids, 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.	0.74
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: Cell type enhanced (Cone photoreceptor cells, Bipolar cells, Rod photoreceptor cells, Late spermatids, Horizontal cells)

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

LRRC24 is part of cluster 25 Bipolar cells - Visual perception with confidenceⁱ 1
152 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.
PLCD4	Phospholipase C delta 4	0.8303	25
DRD4	Dopamine receptor D4	0.8049	25
ATP1A3	ATPase Na+/K+ transporting subunit alpha 3	0.7976	66
SYP	Synaptophysin	0.7642	25
PCBP4	Poly(rC) binding protein 4	0.7383	66
CABP5	Calcium binding protein 5	0.7379	66
PCBP3	Poly(rC) binding protein 3	0.7014	25
OTX2	Orthodenticle homeobox 2	0.6964	25
GDPD5	Glycerophosphodiester phosphodiesterase domain containing 5	0.6657	63
SLC17A7	Solute carrier family 17 member 7	0.6549	66
AANAT	Aralkylamine N-acetyltransferase	0.6504	25
RD3	RD3 regulator of GUCY2D	0.6363	66
GNB3	G protein subunit beta 3	0.6359	66
GABRR1	Gamma-aminobutyric acid type A receptor subunit rho1	0.6339	25
CACNA1F	Calcium voltage-gated channel subunit alpha1 F	0.6339	66

Adipocytes	0.7 nTPM
Breast	0.9 nTPM
Adipose tissue	0.4 nTPM

Alveolar cells type 1	1.3 nTPM
Lung	1.3 nTPM

Alveolar cells type 2	1.3 nTPM
Lung	1.3 nTPM

Astrocytes	8.1 nTPM
Brain	8.1 nTPM

B-cells	0.8 nTPM
Skin	5.1 nTPM
Lung	1.3 nTPM
Adipose tissue	1.2 nTPM
Salivary gland	1.2 nTPM
Thymus	0.7 nTPM
Lymph node	0.6 nTPM
Spleen	0.4 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Ciliated cells	1.1 nTPM
Endometrium	1.5 nTPM
Lung	1.1 nTPM
Fallopian tube	1.1 nTPM
Bronchus	0.4 nTPM

Club cells	1.6 nTPM
Lung	2.9 nTPM
Prostate	1.5 nTPM
Bronchus	0.3 nTPM

Endothelial cells	1.0 nTPM
Liver	2.5 nTPM
Ovary	2.1 nTPM
Breast	1.8 nTPM
Salivary gland	1.4 nTPM
Fallopian tube	1.4 nTPM
Testis	1.2 nTPM
Prostate	1.2 nTPM
Endometrium	1.1 nTPM
Esophagus	0.8 nTPM
Lung	0.8 nTPM
Tongue	0.7 nTPM
Placenta	0.6 nTPM
Skeletal muscle	0.5 nTPM
Thymus	0.5 nTPM
Vascular	0.5 nTPM
Skin	0.4 nTPM
Heart muscle	0.0 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	6.6 nTPM
Small intestine	10.3 nTPM
Rectum	8.4 nTPM
Colon	1.2 nTPM

Fibroblasts	1.6 nTPM
Prostate	4.0 nTPM
Breast	3.2 nTPM
Fallopian tube	3.1 nTPM
Adipose tissue	3.0 nTPM
Lung	2.3 nTPM
Skeletal muscle	2.2 nTPM
Salivary gland	1.5 nTPM
Placenta	1.4 nTPM
Skin	1.4 nTPM
Liver	1.2 nTPM
Vascular	1.2 nTPM
Pancreas	0.6 nTPM
Thymus	0.6 nTPM
Esophagus	0.3 nTPM
Heart muscle	0.0 nTPM
Stomach	0.0 nTPM

Granulocytes	1.2 nTPM
Lung	2.5 nTPM
Fallopian tube	1.0 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	2.4 nTPM
Small intestine	3.5 nTPM
Rectum	2.3 nTPM
Colon	1.5 nTPM

Lymphatic endothelial cells	0.3 nTPM
Fallopian tube	0.5 nTPM
Ovary	0.0 nTPM

Macrophages	0.8 nTPM
Skin	2.2 nTPM
Esophagus	1.3 nTPM
Testis	1.2 nTPM
Skeletal muscle	1.2 nTPM
Tongue	1.2 nTPM
Lung	1.1 nTPM
Bone marrow	1.0 nTPM
Spleen	1.0 nTPM
Breast	1.0 nTPM
Adipose tissue	0.9 nTPM
Prostate	0.9 nTPM
Salivary gland	0.9 nTPM
Vascular	0.7 nTPM
Fallopian tube	0.7 nTPM
Thymus	0.6 nTPM
Kidney	0.0 nTPM
Endometrium	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.8 nTPM
Rectum	2.4 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Cholangiocytes	1.9 nTPM
Liver	1.9 nTPM

Collecting duct cells	1.9 nTPM
Kidney	1.9 nTPM

Cone photoreceptor cells	107.0 nTPM
Eye	107.0 nTPM

Early spermatids	23.9 nTPM
Testis	23.9 nTPM

Plasma cells	2.3 nTPM
Fallopian tube	6.1 nTPM
Salivary gland	4.9 nTPM
Stomach	3.8 nTPM
Liver	1.5 nTPM
Thymus	1.3 nTPM
Spleen	1.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	0.8 nTPM
Vascular	2.1 nTPM
Adipose tissue	0.4 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	4.0 nTPM
Tongue	4.4 nTPM
Salivary gland	3.5 nTPM

Smooth muscle cells	2.0 nTPM
Adipose tissue	4.9 nTPM
Ovary	4.0 nTPM
Skeletal muscle	3.5 nTPM
Fallopian tube	3.0 nTPM
Lung	2.4 nTPM
Skin	2.3 nTPM
Endometrium	2.0 nTPM
Breast	1.9 nTPM
Vascular	1.5 nTPM
Liver	1.3 nTPM
Placenta	1.2 nTPM
Prostate	1.2 nTPM
Thymus	1.2 nTPM
Tongue	1.2 nTPM
Salivary gland	0.8 nTPM
Esophagus	0.0 nTPM

T-cells	0.6 nTPM
Esophagus	2.4 nTPM
Lung	1.9 nTPM
Salivary gland	1.1 nTPM
Breast	1.1 nTPM
Kidney	0.9 nTPM
Tongue	0.9 nTPM
Endometrium	0.8 nTPM
Liver	0.7 nTPM
Thymus	0.7 nTPM
Adipose tissue	0.6 nTPM
PBMC	0.4 nTPM
Skeletal muscle	0.4 nTPM
Prostate	0.4 nTPM
Fallopian tube	0.4 nTPM
Bone marrow	0.3 nTPM
Stomach	0.3 nTPM
Lymph node	0.2 nTPM
Colon	0.0 nTPM
Skin	0.0 nTPM
Spleen	0.0 nTPM
Vascular	0.0 nTPM

Undifferentiated cells	1.7 nTPM
Rectum	1.9 nTPM
Small intestine	1.7 nTPM
Colon	1.5 nTPM

Amygdala excitatory	6.1 nTPM
Basal ganglia	8.8 nTPM
Thalamus	7.3 nTPM
Cerebral cortex	5.7 nTPM
Hypothalamus	5.6 nTPM
Amygdala	4.8 nTPM
Hippocampus	4.4 nTPM

Astrocyte	10.7 nTPM
Cerebellum	15.6 nTPM
Pons	13.5 nTPM
Spinal cord	12.1 nTPM
Cerebral cortex	11.1 nTPM
Hippocampus	11.1 nTPM
Thalamus	10.7 nTPM
Midbrain	10.5 nTPM
Medulla oblongata	10.1 nTPM
Basal ganglia	9.0 nTPM
Hypothalamus	7.4 nTPM
Amygdala	7.2 nTPM

Bergmann glia	9.5 nTPM
Medulla oblongata	14.9 nTPM
Cerebellum	10.8 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	2.6 nTPM
Spinal cord	4.1 nTPM
Cerebral cortex	3.5 nTPM
Cerebellum	3.4 nTPM
Hypothalamus	3.3 nTPM
Thalamus	2.9 nTPM
Hippocampus	2.3 nTPM
Medulla oblongata	2.3 nTPM
Midbrain	2.1 nTPM
Basal ganglia	1.8 nTPM
Amygdala	1.7 nTPM
Pons	1.6 nTPM

Cerebellar inhibitory	14.0 nTPM
Midbrain	17.7 nTPM
Cerebellum	16.1 nTPM
Pons	15.0 nTPM
Medulla oblongata	13.1 nTPM
Spinal cord	8.2 nTPM

Cge interneuron	20.8 nTPM
Basal ganglia	24.6 nTPM
Midbrain	24.6 nTPM
Cerebral cortex	24.0 nTPM
Hippocampus	20.9 nTPM
Amygdala	18.4 nTPM
Thalamus	17.4 nTPM
Hypothalamus	15.8 nTPM

Choroid plexus epithelial cell	2.2 nTPM
Hippocampus	2.8 nTPM
Thalamus	2.7 nTPM
Medulla oblongata	1.9 nTPM
Basal ganglia	1.5 nTPM

Committed oligodendrocyte precursor	6.3 nTPM
Hypothalamus	10.9 nTPM
Medulla oblongata	9.0 nTPM
Midbrain	8.4 nTPM
Cerebral cortex	8.2 nTPM
Amygdala	7.9 nTPM
Thalamus	7.4 nTPM
Hippocampus	6.2 nTPM
Basal ganglia	4.9 nTPM
Cerebellum	3.2 nTPM
Pons	2.7 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	7.8 nTPM
Basal ganglia	10.0 nTPM
Midbrain	10.0 nTPM
Cerebral cortex	7.6 nTPM
Amygdala	6.5 nTPM
Hypothalamus	6.4 nTPM
Hippocampus	6.3 nTPM

Deep-layer intratelencephalic	9.4 nTPM
Hypothalamus	10.5 nTPM
Basal ganglia	9.6 nTPM
Amygdala	9.5 nTPM
Cerebral cortex	9.2 nTPM
Hippocampus	7.9 nTPM

Deep-layer near-projecting	10.9 nTPM
Hippocampus	15.6 nTPM
Basal ganglia	11.2 nTPM
Cerebral cortex	9.5 nTPM
Hypothalamus	9.2 nTPM
Amygdala	8.7 nTPM

Eccentric medium spiny neuron	7.4 nTPM
Hypothalamus	9.0 nTPM
Basal ganglia	8.6 nTPM
Cerebral cortex	8.2 nTPM
Amygdala	7.5 nTPM
Hippocampus	5.8 nTPM
Thalamus	5.2 nTPM

Endothelial cell	2.1 nTPM
Spinal cord	5.2 nTPM
Medulla oblongata	3.1 nTPM
Cerebral cortex	2.6 nTPM
Hippocampus	2.6 nTPM
Thalamus	2.3 nTPM
Cerebellum	1.5 nTPM
Hypothalamus	1.2 nTPM
Pons	1.2 nTPM
Amygdala	1.1 nTPM
Basal ganglia	0.9 nTPM
Midbrain	0.9 nTPM

Ependymal cell	2.9 nTPM
Hypothalamus	5.4 nTPM
Midbrain	4.4 nTPM
Amygdala	3.4 nTPM
Basal ganglia	2.7 nTPM
Thalamus	2.4 nTPM
Hippocampus	2.3 nTPM
Pons	2.0 nTPM
Spinal cord	1.9 nTPM
Medulla oblongata	1.3 nTPM