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: G6PD

    Description: glucose-6-phosphate dehydrogenase

    Entrez Gene ID: 2539

    SwissProt Acc Number: P11413

    RefSeq: NM_000402

    It was suspected to be CHD related:

    .."Previous studies suggest a reduction in cardiovascular risk among subjects expressing the glucose-6-phosphate dehydrogenase (G6PD, EC 1.1.1.49) deficient phenotype."..

    From PMID: 18392752, in Journal J Inherit Metab Dis , 2008


    References

    There were 3 potential papers with G6PD and CHD.

    PMIDTitleJournalsDetails
    22727889 Kawasaki disease with G6PD deficiency - Report of one case and literature review."Journal of microbiology, immunology, and infection = Wei mian yu gan ran za zhi"More Details
    18392752 Glucose-6-phosphate dehydrogenase deficiency protects against coronary heart disease.Journal of inherited metabolic diseaseMore Details
    14960891 The burden of genetic disorders in India and a framework for community control.Community geneticsMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with G6PD. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    G6PD Co-crystal Structure10745013|10089300,10745013 CHD related
    HARS Co-fractionation22939629 No
    CCT4 Co-fractionation22939629 No
    UBC Affinity Capture-MS16335966|17623298|18781797|21987572|21139048|21890473|21906983|21853274|22505724 No
    HSPB1 Affinity Capture-Western21157431 No
    SUMO4 Affinity Capture-MS16236267|16236267 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB03085Hydroxyacetic Acid
    experimentalDB034612'-Monophosphoadenosine 5'-Diphosphoribose