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: IFNG

    Description: "interferon, gamma"

    Entrez Gene ID: 3458

    SwissProt Acc Number: P01579

    RefSeq: NM_000619

    It was suspected to be CHD related:

    ..Our results suggest that the IFNG gene may be one of the factors determining the extent of CAD in the Korean population. ..

    From PMID: 22189538, in Journal Mol Biol Rep. , 2012


    References

    There were 4 potential papers with IFNG and CHD.

    PMIDTitleJournalsDetails
    22189538 Polymorphisms of the Interferon gamma gene and coronary artery disease in the Korean population.Molecular biology reportsMore Details
    22780915 A novel multiplex polymerase chain reaction assay for profile analyses of gene expression in peripheral blood.BMC cardiovascular disordersMore Details
    20606121 Relation of platelet and leukocyte inflammatory transcripts to body mass index in the Framingham heart study.CirculationMore Details
    16115485 Interferon-gamma and interferon-gamma receptor 1 and 2 gene polymorphisms and restenosis following coronary stenting.AtherosclerosisMore Details

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



    PPI interactions

    There were totally 5 unique genes interacted with IFNG. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    IFNG Co-crystal Structure10986460|10860730 CHD related
    IFNGR1 Co-crystal Structure10986460|7673114|12165521,10986460,11250200 No
    IFNGR2 Reconstituted Complex7673114|7673114 No
    TNF in vitro;in vivo3139842 CHD related
    PDIA3 in vivo8974399 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01250OlsalazineFor the treatment of Inflammatory Bowel Disease and Ulcerative Colitis.A07EC03
    approvedDB01296GlucosamineM01AX05