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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for LTA4H |
Basic gene info. | Gene symbol | LTA4H |
Gene name | leukotriene A4 hydrolase | |
Synonyms | - | |
Cytomap | UCSC genome browser: 12q22 | |
Genomic location | chr12 :96394530-96437298 | |
Type of gene | protein-coding | |
RefGenes | NM_000895.2, NM_001256643.1,NM_001256644.1, | |
Ensembl id | ENSG00000111144 | |
Description | LTA-4 hydrolaseleukotriene A-4 hydrolase | |
Modification date | 20141207 | |
dbXrefs | MIM : 151570 | |
HGNC : HGNC | ||
Ensembl : ENSG00000111144 | ||
HPRD : 01056 | ||
Vega : OTTHUMG00000170355 | ||
Protein | UniProt: P09960 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LTA4H | |
BioGPS: 4048 | ||
Gene Expression Atlas: ENSG00000111144 | ||
The Human Protein Atlas: ENSG00000111144 | ||
Pathway | NCI Pathway Interaction Database: LTA4H | |
KEGG: LTA4H | ||
REACTOME: LTA4H | ||
ConsensusPathDB | ||
Pathway Commons: LTA4H | ||
Metabolism | MetaCyc: LTA4H | |
HUMANCyc: LTA4H | ||
Regulation | Ensembl's Regulation: ENSG00000111144 | |
miRBase: chr12 :96,394,530-96,437,298 | ||
TargetScan: NM_000895 | ||
cisRED: ENSG00000111144 | ||
Context | iHOP: LTA4H | |
cancer metabolism search in PubMed: LTA4H | ||
UCL Cancer Institute: LTA4H | ||
Assigned class in ccmGDB | A - This gene has a literature evidence and it belongs to cancer gene. | |
References showing role of LTA4H in cancer cell metabolism | 1. Guo Y, Wang X, Zhang X, Sun Z, Chen X (2011) Ethanol promotes chemically induced oral cancer in mice through activation of the 5-lipoxygenase pathway of arachidonic acid metabolism. Cancer Prev Res (Phila) 4: 1863-1872. doi: 10.1158/1940-6207.CAPR-11-0206. pmid: 3208736. go to article 2. Sun Z, Sood S, Li N, Ramji D, Yang P, et al. (2006) Involvement of the 5-lipoxygenase/leukotriene A4 hydrolase pathway in 7,12-dimethylbenz[a]anthracene (DMBA)-induced oral carcinogenesis in hamster cheek pouch, and inhibition of carcinogenesis by its inhibitors. Carcinogenesis 27: 1902-1908. doi: 10.1093/carcin/bgl039. go to article |
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Phenotypic Information for LTA4H(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: LTA4H |
Familial Cancer Database: LTA4H |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
Metabolic Pathway Description | |
KEGG_ARACHIDONIC_ACID_METABOLISM |
Others | |
OMIM | 151570; gene. |
Orphanet | |
Disease | KEGG Disease: LTA4H |
MedGen: LTA4H (Human Medical Genetics with Condition) | |
ClinVar: LTA4H | |
Phenotype | MGI: LTA4H (International Mouse Phenotyping Consortium) |
PhenomicDB: LTA4H |
Mutations for LTA4H |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows LTA4H related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
BQ335002 | LTA4H | 4 | 114 | 12 | 96394856 | 96396821 | RPLP2 | 104 | 371 | 11 | 810308 | 812822 | |
BE875453 | LTA4H | 10 | 179 | 12 | 96400145 | 96407038 | ADCY2 | 173 | 334 | 1 | 152004982 | 152005144 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 | 1 |   |   |   |   |   |   |   |   |   |   |   | 1 | 1 |   |   | |||
GAIN (# sample) |   | 1 |   |   |   |   |   |   |   |   |   |   |   | 1 | 1 |   |   | |||
LOSS (# sample) | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=22) | (# total SNVs=4) |
(# total SNVs=1) | (# total SNVs=0) |
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Top 10 SNVs Having the Most Samples in COSMIC data |
* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr12:96421313-96421313 | p.F107S | 3 |
chr12:96421314-96421314 | p.F107L | 2 |
chr12:96394809-96394809 | p.P598P | 2 |
chr12:96412987-96412987 | p.E224Q | 2 |
chr12:96397644-96397644 | p.A529T | 1 |
chr12:96409430-96409430 | p.C330C | 1 |
chr12:96414878-96414879 | p.G208fs*16 | 1 |
chr12:96397680-96397680 | p.H517N | 1 |
chr12:96421316-96421316 | p.S106Y | 1 |
chr12:96409440-96409440 | p.R327H | 1 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 1 | 1 |   | 3 |   |   |   |   | 5 |   | 1 | 3 | 2 | 1 |   |   | 5 | 4 |   | 3 |
# mutation | 1 | 1 |   | 3 |   |   |   |   | 4 |   | 1 | 3 | 2 | 1 |   |   | 5 | 4 |   | 3 |
nonsynonymous SNV | 1 |   |   | 2 |   |   |   |   | 3 |   | 1 | 2 | 2 | 1 |   |   | 4 | 4 |   | 3 |
synonymous SNV |   | 1 |   | 1 |   |   |   |   | 1 |   |   | 1 |   |   |   |   | 1 |   |   |   |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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Top 10 SNVs Having the Most Samples in TCGA data |
* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr12:96421313 | p.F107S,LTA4H | 2 |
chr12:96421314 | p.F107L,LTA4H | 2 |
chr12:96397680 | p.H517Y,LTA4H | 1 |
chr12:96410827 | p.R175C,LTA4H | 1 |
chr12:96421316 | p.T507M,LTA4H | 1 |
chr12:96400102 | p.S172I,LTA4H | 1 |
chr12:96412590 | p.S486A,LTA4H | 1 |
chr12:96400166 | p.L116L,LTA4H | 1 |
chr12:96412600 | p.M463I,LTA4H | 1 |
chr12:96402917 | p.A115A,LTA4H | 1 |
Other DBs for Point Mutations |
Copy Number for LTA4H in TCGA |
* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for LTA4H |
Gene Expression in Cancer Cell-lines (CCLE) |
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
Differential Gene Expression in Primary Tumors (TCGA) |
* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-Expressed gene's network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
METTL25,C12orf29,CEP83,EIF4B,LTA4H,METAP2,MRPL42, NAP1L1,NEDD1,NR2C1,POC1B,PPP1CC,RPL15,RPL17, RPL6,RPS12,RPS23,SLC25A3,SNRPF,STX7,UBE2N | BTF3,CCNB1IP1,CCT4,CLNS1A,DPH5,EIF2S3,EIF3E, EIF3L,EIF3M,LTA4H,NIFK,NPM1,RPL15,RPL22, RPL35A,RPS15A,RPS24,RPS3A,RPS4X,RPS7,TIMM9 | ||||
ATP5G2,DDX54,DENR,EIF4B,HNRNPA1,LTA4H,METAP2, NACA,NACAP1,NAP1L1,PA2G4,PCBP2,POLR3B,PPP1CC, PWP1,RPL13A,RPL3,RPL6,RPLP0,SLC25A3,SNRPF | ABCB7,ACRBP,AZGP1,CDC14B,CLPX,CREBL2,EIF2S3, EIF3H,EIF4B,FGGY,IGBP1,LETMD1,LTA4H,PCBP2, ECI2,PLAG1,RAG1,RMND1,RPL22,TMEM19,WDR48 |
Co-Expressed gene's Protein-protein interaction Network Plot |
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for LTA4H |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Chemistry | BindingDB | P09960; -. |
Chemistry | ChEMBL | CHEMBL4618; -. |
Chemistry | GuidetoPHARMACOLOGY | 1395; -. |
Organism-specific databases | PharmGKB | PA24345; -. |
Organism-specific databases | CTD | 4048; -. |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB02062 | leukotriene A4 hydrolase | experimental | N-[3-[(1-Aminoethyl)(Hydroxy)Phosphoryl]-2-(1,1'-Biphenyl-4-Ylmethyl)Propanoyl]Alanine | ||
DB02352 | leukotriene A4 hydrolase | experimental | 3-(Benzyloxy)Pyridin-2-Amine | ||
DB03424 | leukotriene A4 hydrolase | experimental | Bestatin | ||
DB06828 | leukotriene A4 hydrolase | experimental | 5-[2-(1H-pyrrol-1-yl)ethoxy]-1H-indole | ||
DB06851 | leukotriene A4 hydrolase | experimental | N-(pyridin-3-ylmethyl)aniline | ||
DB06917 | leukotriene A4 hydrolase | experimental | (4-fluorophenyl)(pyridin-4-yl)methanone | ||
DB07094 | leukotriene A4 hydrolase | experimental | 1-(2,2'-bithiophen-5-yl)methanamine | ||
DB07099 | leukotriene A4 hydrolase | experimental | N-[4-(benzyloxy)phenyl]glycinamide | ||
DB07102 | leukotriene A4 hydrolase | experimental | (2S)-2-amino-5-oxo-5-[(4-phenylmethoxyphenyl)amino]pentanoic acid | ||
DB07104 | leukotriene A4 hydrolase | experimental | 4-amino-N-[4-(benzyloxy)phenyl]butanamide | ||
DB07196 | leukotriene A4 hydrolase | experimental | N-methyl-1-(2-thiophen-2-ylphenyl)methanamine | ||
DB07237 | leukotriene A4 hydrolase | experimental | {4-[(2R)-pyrrolidin-2-ylmethoxy]phenyl}(4-thiophen-3-ylphenyl)methanone | ||
DB07258 | leukotriene A4 hydrolase | experimental | (R)-pyridin-4-yl[4-(2-pyrrolidin-1-ylethoxy)phenyl]methanol | ||
DB07259 | leukotriene A4 hydrolase | experimental | 1-(4-thiophen-2-ylphenyl)methanamine | ||
DB07260 | leukotriene A4 hydrolase | experimental | N-benzyl-4-[(2R)-pyrrolidin-2-ylmethoxy]aniline | ||
DB07292 | leukotriene A4 hydrolase | experimental | 4-(2-amino-1,3-thiazol-4-yl)phenol | ||
DB08040 | leukotriene A4 hydrolase | experimental | N-[(2R)-2-benzyl-4-(hydroxyamino)-4-oxobutanoyl]-L-alanine | ||
DB08466 | leukotriene A4 hydrolase | experimental | 5-[2-(4-hydroxyphenyl)ethyl]benzene-1,3-diol | ||
DB00143 | leukotriene A4 hydrolase | approved; nutraceutical | Glutathione | ||
DB00145 | leukotriene A4 hydrolase | approved; nutraceutical | Glycine | ||
DB00471 | leukotriene A4 hydrolase | approved | Montelukast |
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Cross referenced IDs for LTA4H |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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