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: GHR

    Description: growth hormone receptor

    Entrez Gene ID: 2690

    SwissProt Acc Number: P10912

    RefSeq: NM_000163

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

    .."In conclusion, genetic polymorphisms in the GHR gene and its ligand, GH1, may modulate the risk of CAD in the Asian Indian population."..

    From PMID: 21273694, in Journal J Genet , 2010


    References

    There were 0 potential papers with GHR and CHD.

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



    PPI interactions

    There were totally 35 unique genes interacted with GHR. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SGTA Reconstituted Complex12735788|12735788 No
    JAK2 Affinity Capture-Western7540178|8063815|10502458|21347402|7540178,10502458,8063815 CHD related
    CISH Affinity Capture-Western10585430|10585430|12586763 No
    SOCS1 Affinity Capture-Western10585430|10585430 CHD related
    SOCS3 Reconstituted Complex10585430 CHD related
    SOCS2 Reconstituted Complex10585430|12135564 No
    STAT3 Reconstituted Complex8923468|8923468 CHD related
    STAT5B Reconstituted Complex8923468 No
    JAK1 Affinity Capture-Western10502458|10502458 CHD related
    TYK2 Affinity Capture-Western10502458|10502458 No
    PTPN2 Reconstituted Complex12907755|12907755 No
    PTPRB Reconstituted Complex12907755 No
    PTPN1 Reconstituted Complex12907755|12907755 CHD related
    PTPRH Reconstituted Complex12907755|12907755 No
    DUSP7 Reconstituted Complex12907755 No
    PTPN9 Reconstituted Complex12907755|12907755 No
    PTPN3 Reconstituted Complex12907755|12907755 No
    PTPN13 Far Western12907755 No
    Ubc Affinity Capture-Western11456111 No
    STUB1 Affinity Capture-Western22433856|22433856 No
    PTPN6 in vivo9632636 No
    GHR in vitro8943276 CHD related
    GH2 in vivo1955498 No
    GH1 Reconstituted Complex7862673|17500058 CHD related
    PTPN11 Reconstituted Complex10976913|9632636 CHD related
    SHC1 Reconstituted Complex7535773 No
    GRB2 Reconstituted Complex9632636 CHD related
    PIK3R1 Reconstituted Complex9632636 CHD related
    PLCG1 Reconstituted Complex9632636 CHD related
    GRB10 Affinity Capture-Western9632636|9632636 No
    BTRC Reconstituted Complex17500058|22034227 No
    AP2A1 in vitro10551776 No
    STAT5A in vivo8702683 No
    NCOA6 in vitro10567404 No
    IRS1 in vitro;in vivo7782332 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00052Somatropin recombinant"For treatment of dwarfism, acromegaly and prevention of HIV-induced weight loss"H01AC01
    approvedDB00082PegvisomantPegvisomant is a growth hormone receptor antagonist used for the treatment of acromegaly.H01AX01