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: ANXA5

    Description: annexin A5

    Entrez Gene ID: 308

    SwissProt Acc Number: P08758

    RefSeq: NM_001154

    It was suspected to be CHD related:

    ..The biological significance of ANXA5 as a member of endogenous antithrombotic system in vivo has been suggested recently for the large vasculature and for placental microcirculation...

    From PMID: 17878960, in Journal Drug News Perspect , 2007


    References

    There were 3 potential papers with ANXA5 and CHD.

    PMIDTitleJournalsDetails
    22341596 Annexin A5 prevents post-interventional accelerated atherosclerosis development in a dose-dependent fashion in mice.AtherosclerosisMore Details
    17766279 Upregulation of myocardial Annexin A5 in hypertensive heart disease: association with systolic dysfunction.European heart journalMore Details
    17878960 Annexin A5 multitasking: a potentially novel antiatherothrombotic agent?Drug news & perspectivesMore Details

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



    PPI interactions

    There were totally 29 unique genes interacted with ANXA5. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ITGB5 Affinity Capture-Western12769841 No
    EED Two-hybrid9584197 No
    FDFT1 Two-hybrid16169070|16169070 No
    APP Reconstituted Complex21832049 No
    NDRG1 Co-fractionation22939629 No
    HARS Co-fractionation22939629 No
    PPT2 Co-fractionation22939629 No
    PUM1 Co-fractionation22939629 No
    EIF4G1 yeast 2-hybrid16169070 No
    SUPT4H1 yeast 2-hybrid16169070 No
    ACTG1 in vivo10903505 No
    KDR Two-hybrid10329451|10329451|10329451 CHD related
    COL2A1 Reconstituted Complex1397263 No
    COL10A1 Reconstituted Complex1397263 No
    H2AFX Affinity Capture-MS20000738 No
    PPP2R1B Affinity Capture-MS17540176|17540176 No
    Pds5a Affinity Capture-MS20360068 No
    AI837181 Affinity Capture-MS20360068 No
    SUMO1 Affinity Capture-MS19596686 No
    UBC Affinity Capture-MS18781797|21139048|21890473|21906983|22536838|22053931 No
    SUMO2 Affinity Capture-MS21693764|19471022 No
    ANXA1 Co-localization12689596 CHD related
    ISG15 Affinity Capture-MS16009940 No
    TERF1 Two-hybrid21044950 No
    TERF2IP Two-hybrid21044950 No
    TINF2 Two-hybrid21044950 No
    TERF2 Two-hybrid21044950 No
    CDK2 Affinity Capture-MS21319273 No
    IFNGR2 in vitro;in vivo;yeast 2-hybrid16670301 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02497L-Alpha-Glycerophosphorylserine
    experimentalDB02846Thioproline
    experimentalDB02929K201
    experimentalDB03484L-Alpha-Glycerophosphorylethanolamine
    experimentalDB03935"1,4-Dideoxy-O2-Sulfo-Glucuronic Acid"
    experimentalDB03959"N,O6-Disulfo-Glucosamine"
    experimentalDB03981"1,4-Dideoxy-5-Dehydro-O2-Sulfo-Glucuronic Acid"