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: GNAS

    Description: GNAS complex locus

    Entrez Gene ID: 2778

    SwissProt Acc Number: O95467

    RefSeq: NM_000516

    It was suspected to be CHD related:

    .."For each treatment group, we identified a panel of genetic variants that collectively improved the prediction of CHD to a small but statistically significant extent. Chlorthalidone (A): NOS3 rs3918226; SELE rs5361; ICAM1 rs1799969; AGT rs5051; GNAS rs7121;..."..

    From PMID: 22388798, in Journal Pharmacogenet Genomics. , 2012


    References

    There were 1 potential papers with GNAS and CHD.

    PMIDTitleJournalsDetails
    22388798 Gene panels to help identify subgroups at high and low risk of coronary heart disease among those randomized to antihypertensive treatment: the GenHAT study.Pharmacogenetics and genomicsMore Details

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



    PPI interactions

    There were totally 45 unique genes interacted with GNAS. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    FSCN1 Affinity Capture-MS17353931 No
    PAICS Affinity Capture-MS17353931 No
    RUVBL1 Affinity Capture-MS17353931 No
    SHMT2 Affinity Capture-MS17353931 No
    RIC8A Two-hybrid12652642 No
    ADCY6 Phenotypic Enhancement9228084 CHD related
    GNAS Reconstituted Complex7797570|10598591 CHD related
    ADRB3 in vivo8011597 CHD related
    GNGT1 in vitro15368366 No
    GCGR in vivo1908089 No
    ADORA1 in vivo10521440 CHD related
    ADCY2 in vitro9268375 No
    TTC1 Affinity Capture-Western12748287|12748287 No
    CRHR1 Affinity Capture-Western10598591|10598591 No
    RGS2 Reconstituted Complex9794454|9794454 No
    SNX13 Reconstituted Complex11729322|11729322 No
    VIPR1 Affinity Capture-Western11812005|11812005 No
    MDM2 Affinity Capture-Western18948082 CHD related
    UBC Affinity Capture-MS16196087|20133939|20639865|17623298|18781797|21987572|20972266|21139048|21890473|21906983|22505724 No
    Cbx1 Affinity Capture-MS20360068 No
    Haus1 Affinity Capture-MS20360068 No
    Trim69 Affinity Capture-MS20360068 No
    CALM1 Reconstituted Complex15840729 No
    GNG2 Affinity Capture-Western20133939 No
    Ric8b Reconstituted Complex20133939|20133939 No
    PCK1 Affinity Capture-MS21726808 No
    SUMO1 Affinity Capture-MS21110914 No
    ADRB2 FRET15782186 CHD related
    AVPR2 FRET15782186|8621513 No
    TBXA2R FRET15782186 CHD related
    GNB1 FRET15782186 No
    UBD Affinity Capture-MS22797925 No
    GNAQ Co-fractionation22939629 CHD related
    GNA11 Co-fractionation22939629 No
    SLC25A12 Co-fractionation22939629 No
    LAMTOR1 Co-fractionation22939629 No
    LHB in vitro8663226 No
    NUCB1 yeast 2-hybrid9647645 No
    LHCGR in vivo10493819 No
    HTR6 in vitro11916537 No
    CAV3 in vitro7797570 CHD related
    TSHR in vitro9525885 No
    PTGDR in vivo12672054 No
    PTGIR in vitro12488443 No
    ADCY5 in vitro9268375 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02587Forskolin
    experimentalDB06843"2',5'-DIDEOXY-ADENOSINE 3'-MONOPHOSPHATE"