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: ANXA1

    Description: annexin A1

    Entrez Gene ID: 301

    SwissProt Acc Number: P04083

    RefSeq: NM_000700

    It was suspected to be CHD related:

    ..The neutrophil expression of ANXA1 was significantly increased in patients...

    From PMID: 19850308, in Journal Metabolism , 2010


    References

    There were 1 potential papers with ANXA1 and CHD.

    PMIDTitleJournalsDetails
    19850308 Enhanced neutrophil expression of annexin-1 in coronary artery disease.Metabolism: clinical and experimentalMore Details

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



    PPI interactions

    There were totally 50 unique genes interacted with ANXA1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    S100A11 Reconstituted Complex8557678 No
    KRT8 Affinity Capture-MS9459484|9459484 No
    UBC Affinity Capture-Western19204938|20359522 No
    SUMO1 Reconstituted Complex20359522 No
    GAPDH Two-hybrid21900206 No
    KLHL23 Two-hybrid21900206 No
    APBB1 Two-hybrid21900206 No
    CSAD Two-hybrid21900206 No
    C1orf123 Two-hybrid21900206 No
    RPA1 Two-hybrid21900206 CHD related
    UNC119 Two-hybrid21900206 No
    OTUB1 Two-hybrid21900206 No
    C14orf1 Two-hybrid21900206 No
    XRCC6 Two-hybrid21900206 No
    MLL4 Two-hybrid21900206 No
    CCT7 Two-hybrid21900206 No
    UBE2D1 Two-hybrid21900206 No
    COPS6 Two-hybrid21900206 No
    LRIF1 Two-hybrid21900206 No
    FAF1 Two-hybrid21900206 No
    ANXA1 Dosage Rescue12689596 CHD related
    ANXA5 Co-localization12689596 CHD related
    RELA Affinity Capture-Western21383699 CHD related
    ANXA4 Co-fractionation22939629 No
    EGFR in vivo15581623 CHD related
    FPR1 in vitro;in vivo10882119 No
    PPM1B Affinity Capture-MS17353931 No
    DLG3 Affinity Capture-MS17353931 No
    USP25 Affinity Capture-MS19615732 No
    USPL1 Affinity Capture-MS19615732 No
    SLX1B Affinity Capture-MS19596235 No
    ATG4B Affinity Capture-MS20562859 No
    SUMO2 Affinity Capture-MS19394292 No
    MGMT Affinity Capture-MS16226712 No
    UCHL5 Reconstituted Complex21800051 No
    UBE3A Reconstituted Complex19204938|19204938|19204938 No
    CD4 Affinity Capture-MS15047060 CHD related
    YWHAQ Affinity Capture-MS15161933 No
    UBE2I Biochemical Activity20359522 No
    KIAA0101 Affinity Capture-MS21628590 No
    SIRT7 Affinity Capture-MS22586326 No
    CUL5 Affinity Capture-MS21145461 No
    CDK2 Affinity Capture-MS21319273 No
    IKBKG Affinity Capture-Western21383699 No
    RIPK1 Affinity Capture-Western21383699 No
    PRKCI in vitro2457390 No
    SRC in vitro2457390 CHD related
    TGM2 in vitro1670773 CHD related
    DYSF in vitro14506282 No
    TRPM7 in vitro;in vivo15485879 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00288AmcinonideFor the relief of the inflammatory and pruritic manifestations of corticosteroid-responsive dermatoses.D07AC11
    approvedDB00741Hydrocortisone"For the relief of the inflammatory and pruritic manifestations of corticosteroid-responsive dermatoses. Also used to treat endocrine (hormonal) disorders (adrenal insufficiency, Addisons disease). It is also used to treat many immune and allergic disorders, such as arthritis, lupus, severe psoriasis, severe asthma, ulcerative colitis, and Crohn's disease."A01AC03;A07EA02;C05AA01;D07AA02;D07AB02;D07AB11;D07AC16;D07XA01;H02AB09;S01BA02;S01CB03;S02BA01
    approvedDB01234DexamethasoneA01AC02;C05AA09;D07AB19;D07XB05;D10AA03;H02AB02;R01AD03;S01BA01;S01CB01;S02BA06;S03BA01;