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: CYP4F2

    Description: "cytochrome P450, family 4, subfamily F, polypeptide 2"

    Entrez Gene ID: 8529

    SwissProt Acc Number: P78329

    RefSeq: NM_001082

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

    ..The GG genotype and G allele were associated with ischemic stroke in the male Northern Chinese Han population...

    From PMID: 20227456, in Journal Prog Neuropsychopharmacol Biol Psychiatry , 2010


    References

    There were 4 potential papers with CYP4F2 and CHD.

    PMIDTitleJournalsDetails
    20227456 CYP4F2 gene V433M polymorphism is associated with ischemic stroke in the male Northern Chinese Han population.Progress in neuro-psychopharmacology & biological psychiatryMore Details
    20435227 Clinical assessment incorporating a personal genome.LancetMore Details
    20093140 Effect of cytochrome P450 polymorphism on arachidonic acid metabolism and their impact on cardiovascular diseases.Pharmacology & therapeuticsMore Details
    18574070 The V433M variant of the CYP4F2 is associated with ischemic stroke in male Swedes beyond its effect on blood pressure.HypertensionMore Details

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



    PPI interactions

    There were totally 1 unique genes interacted with CYP4F2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    UBC Affinity Capture-MS21906983 No


    Involved FDA drugs

    There was no drug associated with CYP4F2