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: CYP2C8

    Description: "cytochrome P450, family 2, subfamily C, polypeptide 8"

    Entrez Gene ID: 1558

    SwissProt Acc Number: P10632

    RefSeq: NM_000770

    It was supported literatures to be a novel CHD related gene:

    ..whereas cigarette smoking may modify the relationship between the I264M and K399R polymorphisms in CYP2C8 and coronary heart disease risk in Caucasians...

    From PMID: 17429317, in Journal Pharmacogenet Genomics. , 2007


    References

    There were 3 potential papers with CYP2C8 and CHD.

    PMIDTitleJournalsDetails
    21047199 Impact of CYP2C8 and 2C9 polymorphisms on coronary artery disease and myocardial infarction in the LURIC cohort.PharmacogenomicsMore Details
    17429317 CYP2J2 and CYP2C8 polymorphisms and coronary heart disease risk: the Atherosclerosis Risk in Communities (ARIC) study.Pharmacogenetics and genomicsMore Details
    11368292 Clinical pharmacokinetics of fluvastatin.Clinical pharmacokineticsMore Details

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



    PPI interactions

    There were totally 11 unique genes interacted with CYP2C8. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    BLMH Two-hybrid21163940 No
    APOE Two-hybrid21163940 CHD related
    DNAJB1 Two-hybrid21163940 No
    LONP1 Two-hybrid21163940 No
    EXOC6 Two-hybrid21163940 No
    IFIT3 Two-hybrid21163940 No
    A2M Two-hybrid21163940 No
    MAST1 Two-hybrid21163940 No
    ECSIT Two-hybrid21163940 No
    PSEN1 Two-hybrid21163940 No
    RNF32 Two-hybrid21163940 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB03014Heme
    experimentalDB03796Palmitic Acid
    experimentalDB08607"(5R)-5-(4-{[(2R)-6-HYDROXY-2,5,7,8-TETRAMETHYL-3,4-DIHYDRO-2H-CHROMEN-2-YL]METHOXY}BENZYL)-1,3-THIAZOLIDINE-2,4-DIONE"