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: ITGB3

    Description: "integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)"

    Entrez Gene ID: 3690

    SwissProt Acc Number: P05106

    RefSeq: NM_000212

    It was suspected to be CHD related:

    .."The combined group samples identified 6 up regulated differential expression (DE) genes (GHRL, LTA, CBS, HP, ITGA2B, and OLR1) and 12 down regulated DE genes (IL18R1, ITGA2B,IL18RAP, HP, OLR1, SOD2 ITGB3, IL1B, MMP9, PLA2G7, UTS2, and CBS) to be involved in CAD at the fold change of 1.3 with fault discovery rate (FDR) of 1%."..

    From PMID: 22738689, in Journal J Cardiol. , 2012


    References

    There were 10 potential papers with ITGB3 and CHD.

    PMIDTitleJournalsDetails
    24267260 Quantitative and qualitative pleiotropic differences between Simvastatin single and Vytorin combination therapy in hypercholesterolemic subjects.AtherosclerosisMore Details
    22738689 Peripheral blood gene expression profile of atherosclerotic coronary artery disease in patients of different ethnicity in Malaysia.Journal of cardiologyMore Details
    22948415 Idiopathic sudden sensorineural hearing loss: classic cardiovascular and new genetic risk factors.Audiology & neuro-otologyMore Details
    22028352 "Clinical, angiographic, and genetic factors associated with early coronary stent thrombosis."JAMA : the journal of the American Medical AssociationMore Details
    21353223 Association of the platelet GPIIb/IIIa polymorphism with atherosclerotic plaque morphology: the Atherosclerosis Risk in Communities (ARIC) Study.AtherosclerosisMore Details
    21742104 Polymorphisms associated with in vitro aspirin resistance are not associated with clinical outcomes in patients with coronary artery disease who report regular aspirin use.American heart journalMore Details
    20306290 Oligonucleotide microarray and QRT-PCR study of adhesion protein gene expression in acute coronary syndrome patients.InflammationMore Details
    19637098 "Ticagrelor yields consistent dose-dependent inhibition of ADP-induced platelet aggregation in patients with atherosclerotic disease regardless of genotypic variations in P2RY12, P2RY1, and ITGB3."PlateletsMore Details
    18035074 Association of polymorphisms in platelet and hemostasis system genes with acute myocardial infarction.American heart journalMore Details
    14557872 Evidence for substantial effect modification by gender in a large-scale genetic association study of the metabolic syndrome among coronary heart disease patients.Human geneticsMore Details

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



    PPI interactions

    There were totally 42 unique genes interacted with ITGB3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ITGAV Co-crystal Structure11884718 CHD related
    PTK2 Reconstituted Complex11927607|9169439 No
    ITGB3BP Two-hybrid11864709|7593198|7593198 No
    PECAM1 Co-localization10982404|10982404 CHD related
    PDGFRB Affinity Capture-Western10964931|10964931 No
    CIB1 Reconstituted Complex9030514|9030514 No
    PDGFRA Affinity Capture-Western11953315 No
    SYK Affinity Capture-Western11042121 No
    ITGB3 in vitro;in vivo12606711,14681217 CHD related
    VTN in vitro16195248 CHD related
    SHC1 in vitro;in vivo10964917 No
    COL1A2 in vitro;in vivo1693626 CHD related
    NID1 in vitro;in vivo8831898,9686320 No
    FGA in vitro11460491 CHD related
    FGG in vitro10747940 CHD related
    FN1 in vitro1694173 CHD related
    ITGA5 in vitro1694173 CHD related
    FBLN2 in vivo10848816 No
    FLNB Two-hybrid11807098 No
    FLNA Two-hybrid11807098 No
    TLN1 Reconstituted Complex10497223|11932255|11932255,10497223,12606711 No
    ILK Affinity Capture-Western12372433|12372433 CHD related
    THBS1 Reconstituted Complex2478219|2478219 CHD related
    PTK2B Reconstituted Complex11683411|11683411 No
    PXN Reconstituted Complex11683411 No
    CD36 Affinity Capture-Western11238109|11238109 CHD related
    SRC in vitro;in vivo11723131 CHD related
    TGM2 in vitro;in vivo10684262 CHD related
    P2RY2 in vitro;in vivo11331301 No
    EPS8 in vitro12606711 No
    DAB2 in vitro12606711 CHD related
    DOK1 in vitro12606711 No
    DAB1 in vitro12606711 No
    NUMB in vitro12606711 No
    PDPK1 in vitro10896934 CHD related
    ITGA2B in vitro;in vivo1429573,14681217,15067009,11606749 CHD related
    ANGPTL3 in vitro11877390 CHD related
    TENC1 in vitro12606711 No
    CAPN1 in vitro;in vivo7592818 No
    THY1 in vitro;in vivo15897908 No
    KDR in vivo10022831 CHD related
    AKT1 in vitro10896934 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00054AbciximabB01AC13
    approvedDB00063EptifibatideFor treatment of myocardial infarction and acute coronary syndrome.B01AC16
    approvedDB00098Antithymocyte globulinFor prevention of renal transplant rejection
    approvedDB00775Tirofiban"For treatment, in combination with heparin, of acute coronary syndrome, including patients who are to be managed medically and those undergoing PTCA or atherectomy."B01AC17