Single cell type - LTC4S - The Human Protein Atlas

LTC4S

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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.	LTC4S
Gene descriptionⁱ Full gene name according to HGNC.	Leukotriene C4 synthase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Enzymes Human disease related genes Metabolic proteins Potential drug targets
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.	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.	Granulocytes - Unknown 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.	Cell type enriched (Granulocytes)
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.	0.67
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.	Cell type enriched (Central nervous system macrophage)
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.	Group enriched (eosinophil, basophil)
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 enriched (Granulocytes)

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Cell type enriched (Central nervous system macrophage)

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: Group enriched (eosinophil, basophil)
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

LTC4S is part of cluster 30 Granulocytes - Unknown function with confidenceⁱ 1
76 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.
HPGDS	Hematopoietic prostaglandin D synthase	0.8432	30
MS4A2	Membrane spanning 4-domains A2	0.8259	30
TPSAB1	Tryptase alpha/beta 1	0.8232	30
TPSB2	Tryptase beta 2	0.8147	30
CPA3	Carboxypeptidase A3	0.8132	30
TPSD1	Tryptase delta 1	0.8100	30
HDC	Histidine decarboxylase	0.8010	30
GCSAML	Germinal center associated signaling and motility like	0.7970	30
ADCYAP1	Adenylate cyclase activating polypeptide 1	0.7939	30
RAB44	RAB44, member RAS oncogene family	0.7820	30
RGS13	Regulator of G protein signaling 13	0.7667	30
SIGLEC8	Sialic acid binding Ig like lectin 8	0.7628	30
RHEX	Regulator of hemoglobinization and erythroid cell expansion	0.7544	30
CTSG	Cathepsin G	0.7497	30
VWA5A	Von Willebrand factor A domain containing 5A	0.7454	30

IMMUNE CELLS

LTC4S is part of cluster 36 Eosinophils - Protein ubiquitination with confidenceⁱ 0.99
179 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.
CDIPT	CDP-diacylglycerol--inositol 3-phosphatidyltransferase	1.0000	36
F8A2	Coagulation factor VIII associated 2	1.0000	36
ENSG00000285547	Novel protein	1.0000	36
F8A3	Coagulation factor VIII associated 3	1.0000	36
ENSG00000267168	Novel protein	1.0000	36
HYAL3	Hyaluronidase 3	1.0000	36
GPR146	G protein-coupled receptor 146	1.0000	36
UCK1	Uridine-cytidine kinase 1	1.0000	36
CAT	Catalase	1.0000	36
YJU2	YJU2 splicing factor homolog	1.0000	36
SLC7A8	Solute carrier family 7 member 8	1.0000	36
AOC1	Amine oxidase copper containing 1	0.9762	36
GGT5	Gamma-glutamyltransferase 5	0.9762	36
ACACB	Acetyl-CoA carboxylase beta	0.9762	36
NCBP3	Nuclear cap binding subunit 3	0.9762	36

Adipocytes	35.1 nTPM
Breast	39.5 nTPM
Adipose tissue	30.6 nTPM

Alveolar cells type 1	5.0 nTPM
Lung	5.0 nTPM

Alveolar cells type 2	5.2 nTPM
Lung	5.2 nTPM

Astrocytes	2.8 nTPM
Brain	2.8 nTPM

B-cells	5.7 nTPM
Kidney	36.4 nTPM
Skin	23.7 nTPM
Adipose tissue	5.8 nTPM
Thymus	3.0 nTPM
Salivary gland	2.1 nTPM
Stomach	1.3 nTPM
Lymph node	1.0 nTPM
Spleen	1.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	17.0 nTPM
Fallopian tube	44.0 nTPM
Lung	11.5 nTPM
Bronchus	8.1 nTPM
Endometrium	4.3 nTPM

Club cells	15.1 nTPM
Lung	18.1 nTPM
Prostate	15.9 nTPM
Bronchus	11.3 nTPM

Endothelial cells	56.2 nTPM
Ovary	147.7 nTPM
Testis	144.1 nTPM
Breast	101.9 nTPM
Thymus	82.9 nTPM
Salivary gland	76.9 nTPM
Vascular	56.3 nTPM
Fallopian tube	52.4 nTPM
Lung	50.9 nTPM
Liver	49.1 nTPM
Esophagus	47.9 nTPM
Skeletal muscle	44.4 nTPM
Tongue	37.3 nTPM
Skin	35.9 nTPM
Heart muscle	23.9 nTPM
Prostate	22.7 nTPM
Endometrium	20.2 nTPM
Placenta	17.6 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	3.2 nTPM
Small intestine	6.9 nTPM
Rectum	1.7 nTPM
Colon	1.0 nTPM

Fibroblasts	17.0 nTPM
Liver	72.3 nTPM
Fallopian tube	39.0 nTPM
Heart muscle	31.7 nTPM
Vascular	21.9 nTPM
Stomach	14.4 nTPM
Skin	13.6 nTPM
Placenta	13.3 nTPM
Thymus	12.6 nTPM
Lung	9.3 nTPM
Prostate	9.2 nTPM
Skeletal muscle	8.3 nTPM
Breast	8.2 nTPM
Adipose tissue	6.3 nTPM
Esophagus	5.8 nTPM
Pancreas	3.1 nTPM
Salivary gland	2.6 nTPM

Granulocytes	626.4 nTPM
Lung	991.8 nTPM
Fallopian tube	475.1 nTPM
Tongue	412.3 nTPM

Intestinal goblet cells	1.5 nTPM
Rectum	2.9 nTPM
Colon	1.2 nTPM
Small intestine	0.5 nTPM

Lymphatic endothelial cells	94.7 nTPM
Fallopian tube	107.6 nTPM
Ovary	81.8 nTPM

Macrophages	70.4 nTPM
Breast	358.4 nTPM
Skin	174.9 nTPM
Esophagus	160.5 nTPM
Adipose tissue	129.1 nTPM
Skeletal muscle	80.4 nTPM
Fallopian tube	71.2 nTPM
Prostate	69.7 nTPM
Tongue	61.1 nTPM
Testis	49.0 nTPM
Vascular	40.7 nTPM
Salivary gland	40.5 nTPM
Endometrium	32.0 nTPM
Kidney	23.0 nTPM
Thymus	15.2 nTPM
Stomach	10.3 nTPM
Spleen	9.0 nTPM
Lung	7.8 nTPM
Bone marrow	4.1 nTPM
Pancreas	0.0 nTPM

Paneth cells	0.6 nTPM
Rectum	1.7 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Basal prostatic cells	26.1 nTPM
Prostate	26.1 nTPM

Basal respiratory cells	16.6 nTPM
Bronchus	16.6 nTPM

Basal squamous epithelial cells	18.2 nTPM
Esophagus	18.2 nTPM

Cholangiocytes	15.3 nTPM
Liver	15.3 nTPM

Plasma cells	13.4 nTPM
Salivary gland	33.1 nTPM
Esophagus	26.0 nTPM
Fallopian tube	23.5 nTPM
Liver	11.5 nTPM
Thymus	4.9 nTPM
Bone marrow	3.0 nTPM
Stomach	2.9 nTPM
Spleen	2.6 nTPM

Schwann cells	11.0 nTPM
Adipose tissue	32.0 nTPM
Vascular	1.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	7.9 nTPM
Salivary gland	11.4 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	23.9 nTPM
Liver	270.0 nTPM
Fallopian tube	61.7 nTPM
Skeletal muscle	8.8 nTPM
Ovary	6.6 nTPM
Vascular	5.3 nTPM
Salivary gland	5.2 nTPM
Prostate	4.3 nTPM
Breast	3.8 nTPM
Placenta	3.5 nTPM
Lung	3.5 nTPM
Thymus	2.6 nTPM
Tongue	2.4 nTPM
Skin	2.2 nTPM
Adipose tissue	1.6 nTPM
Endometrium	1.4 nTPM
Esophagus	0.0 nTPM

T-cells	19.3 nTPM
Colon	177.4 nTPM
Fallopian tube	27.6 nTPM
Skin	26.6 nTPM
Vascular	26.5 nTPM
Breast	26.2 nTPM
Endometrium	18.3 nTPM
Skeletal muscle	13.6 nTPM
Kidney	12.4 nTPM
Lung	11.1 nTPM
Adipose tissue	11.0 nTPM
Stomach	8.2 nTPM
Prostate	7.9 nTPM
Esophagus	7.3 nTPM
Salivary gland	6.9 nTPM
PBMC	4.7 nTPM
Tongue	4.7 nTPM
Liver	4.6 nTPM
Thymus	2.6 nTPM
Lymph node	2.5 nTPM
Bone marrow	2.4 nTPM
Spleen	1.9 nTPM

Undifferentiated cells	5.1 nTPM
Rectum	6.8 nTPM
Small intestine	4.6 nTPM
Colon	3.8 nTPM

Amygdala excitatory	2.8 nTPM
Thalamus	5.0 nTPM
Basal ganglia	2.7 nTPM
Amygdala	2.5 nTPM
Cerebral cortex	2.3 nTPM
Hippocampus	2.2 nTPM
Hypothalamus	2.2 nTPM

Astrocyte	6.3 nTPM
Pons	8.6 nTPM
Cerebellum	8.4 nTPM
Basal ganglia	7.1 nTPM
Hippocampus	6.8 nTPM
Medulla oblongata	6.8 nTPM
Midbrain	6.8 nTPM
Spinal cord	6.7 nTPM
Thalamus	6.1 nTPM
Cerebral cortex	5.7 nTPM
Hypothalamus	3.6 nTPM
Amygdala	2.9 nTPM

Bergmann glia	3.8 nTPM
Cerebellum	4.4 nTPM
Medulla oblongata	4.3 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	186.2 nTPM
Medulla oblongata	276.5 nTPM
Basal ganglia	232.4 nTPM
Cerebral cortex	231.6 nTPM
Hippocampus	215.2 nTPM
Pons	198.0 nTPM
Spinal cord	171.0 nTPM
Midbrain	169.8 nTPM
Cerebellum	168.1 nTPM
Thalamus	166.7 nTPM
Hypothalamus	116.2 nTPM
Amygdala	102.3 nTPM

Cerebellar inhibitory	2.2 nTPM
Cerebellum	3.1 nTPM
Medulla oblongata	3.1 nTPM
Pons	3.1 nTPM
Midbrain	1.6 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	2.5 nTPM
Basal ganglia	3.3 nTPM
Thalamus	2.8 nTPM
Amygdala	2.4 nTPM
Midbrain	2.3 nTPM
Cerebral cortex	2.2 nTPM
Hippocampus	2.2 nTPM
Hypothalamus	2.0 nTPM

Choroid plexus epithelial cell	2.7 nTPM
Hippocampus	5.5 nTPM
Thalamus	2.7 nTPM
Medulla oblongata	1.5 nTPM
Basal ganglia	1.0 nTPM

Committed oligodendrocyte precursor	3.8 nTPM
Basal ganglia	8.2 nTPM
Medulla oblongata	5.2 nTPM
Hippocampus	4.7 nTPM
Cerebral cortex	4.4 nTPM
Hypothalamus	4.1 nTPM
Amygdala	3.9 nTPM
Midbrain	3.4 nTPM
Thalamus	3.2 nTPM
Pons	2.7 nTPM
Cerebellum	1.6 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	1.9 nTPM
Basal ganglia	2.7 nTPM
Hypothalamus	2.2 nTPM
Amygdala	2.0 nTPM
Cerebral cortex	1.8 nTPM
Hippocampus	1.7 nTPM
Midbrain	1.1 nTPM

Deep-layer intratelencephalic	2.1 nTPM
Basal ganglia	2.8 nTPM
Amygdala	2.2 nTPM
Hippocampus	2.0 nTPM
Hypothalamus	1.9 nTPM
Cerebral cortex	1.6 nTPM

Deep-layer near-projecting	2.4 nTPM
Basal ganglia	3.5 nTPM
Hippocampus	2.6 nTPM
Amygdala	2.3 nTPM
Hypothalamus	1.9 nTPM
Cerebral cortex	1.7 nTPM

Eccentric medium spiny neuron	2.2 nTPM
Amygdala	3.0 nTPM
Basal ganglia	2.4 nTPM
Thalamus	2.2 nTPM
Cerebral cortex	2.1 nTPM
Hippocampus	1.7 nTPM
Hypothalamus	1.5 nTPM

Endothelial cell	27.2 nTPM
Medulla oblongata	80.0 nTPM
Midbrain	36.9 nTPM
Pons	30.0 nTPM
Hypothalamus	29.8 nTPM
Thalamus	28.8 nTPM
Cerebral cortex	26.9 nTPM
Cerebellum	20.1 nTPM
Hippocampus	15.4 nTPM
Spinal cord	12.1 nTPM
Basal ganglia	11.2 nTPM
Amygdala	7.8 nTPM

Ependymal cell	4.3 nTPM
Spinal cord	9.6 nTPM
Medulla oblongata	5.7 nTPM
Pons	5.5 nTPM
Hypothalamus	3.6 nTPM
Midbrain	3.2 nTPM
Thalamus	3.2 nTPM
Hippocampus	3.0 nTPM
Basal ganglia	2.9 nTPM
Amygdala	2.3 nTPM