How to Build CHD@ZJU

CHD related Articles were retrieved from Pubmed, by entering keywords "coronary heart disease" and constrict the publish date from 2000/1/1 to now (2013/1/23). As a result, totally 115898 articles were found and their abstracts were downloaded for text mining. Since some articles didn't contain abstracts, only 88396 abstracts remained.

The text-mining process to get CHD related genes could be divided in to 5 following steps:

  • 1) Extracting all keywords from abstracts and ignoring those keywords start with numbers. 101402 keywords were extracted.

  • 2) Input these keywords into Gene library in ArrayTrack and find possible related genes. 4674 genes were then found.

  • 3) Put these 4674 genes again into pubmed abstracts to find related aticles. Only genes which offical name or there keyword description (such as prolactin for gene PRL) could be found in the abstract would be remained. As a result, 1247 genes were remained.

  • 4) Manually examined on the 1247 genes to validate it was acutally related to CHD. Some genes would be filtered if it represents other meanings (such as gene CAD, Entrez ID:790, carbamoyl-phosphate synthetase 2, is mostly meant coronary arterial disease in articles). 681 genes were then validated with at least one reference.

  • 5) All genes was compared with 1078 CHD genes in RGD database, and 370 genes were overlapped. These 370 genes were labels as "RGD_Supported" and the other 293 genes were labels as "REFERED". All 663 genes had supported references in CHD@ZJU which were examined by step 4.
  • How To contact Us

    Collaboration Information: Prof. Xiaohui Fan (fanxh@zju.edu.cn)

    Website using assistance : Leihong Wu (11019004@zju.edu.cn)



    Basic Information

    Gene Name: EPHX2

    Description: "epoxide hydrolase 2, cytoplasmic"

    Entrez Gene ID: 2053

    SwissProt Acc Number: P34913

    RefSeq: NM_001979

    It was suspected to be CHD related:

    ..The functional K55R polymorphism of the EPHX2 gene confers a higher risk of hypertension prevalence and increases the risk of incident ischemic stroke in male homozygotes...

    From PMID: 20065888, in Journal Pharmacogenet Genomics , 2010


    References

    There were 8 potential papers with EPHX2 and CHD.

    PMIDTitleJournalsDetails
    21704394 Soluble epoxide hydrolase and ischemic cardiomyopathy.International journal of cardiologyMore Details
    21642892 Association between polymorphisms of CYP2J2 and EPHX2 genes and risk of coronary artery disease.Pharmacogenetics and genomicsMore Details
    20065888 Homozygosity for the EPHX2 K55R polymorphism increases the long-term risk of ischemic stroke in men: a study in Swedes.Pharmacogenetics and genomicsMore Details
    19814804 Variation in the human soluble epoxide hydrolase gene and risk of restenosis after percutaneous coronary intervention.BMC cardiovascular disordersMore Details
    18537101 "Genetic analysis of the soluble epoxide hydrolase gene, EPHX2, in subclinical cardiovascular disease in the Diabetes Heart Study."Diabetes & vascular disease research : official journal of the InternationalMore Details
    16545818 Sequence variation in the soluble epoxide hydrolase gene and subclinical coronary atherosclerosis: interaction with cigarette smoking.AtherosclerosisMore Details
    16595607 Genetic variation in soluble epoxide hydrolase (EPHX2) and risk of coronary heart disease: The Atherosclerosis Risk in Communities (ARIC) study.Human molecular geneticsMore Details
    14673705 Soluble epoxide hydrolase variant (Glu287Arg) modifies plasma total cholesterol and triglyceride phenotype in familial hypercholesterolemia: intrafamilial association study in an eight-generation hyperlipidemic kindred.Journal of human geneticsMore Details

    NOTEs: These result is mostly from TEXT-MINING and there might have mismatches.



    PPI interactions

    There were totally 3 unique genes interacted with EPHX2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    NIPSNAP3A yeast 2-hybrid16169070 No
    TERF1 Two-hybrid21044950 No
    UBC Affinity Capture-MS22505724 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02029N-Cyclohexyl-N'-(4-Iodophenyl)Urea
    experimentalDB03677N-Cyclohexyl-N'-Decylurea
    experimentalDB04213N-Cyclohexyl-N'-(Propyl)Phenyl Urea
    experimentalDB08256N-[(CYCLOHEXYLAMINO)CARBONYL]GLYCINE
    experimentalDB082574-{[(CYCLOHEXYLAMINO)CARBONYL]AMINO}BUTANOIC ACID
    experimentalDB082586-{[(CYCLOHEXYLAMINO)CARBONYL]AMINO}HEXANOIC ACID
    experimentalDB082597-{[(CYCLOHEXYLAMINO)CARBONYL]AMINO}HEPTANOIC ACID