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: MMP7

    Description: "matrix metallopeptidase 7 (matrilysin, uterine)"

    Entrez Gene ID: 4316

    SwissProt Acc Number: P09237

    RefSeq: NM_002423

    It was suspected to be CHD related:

    .."Functional polymorphisms in the MMP1, MMP2, MMP7, MMP9, MMP12, and MMP13 genes have also been related to coronary artery disease, arterial stiffness, and/or abdominal aortic aneurysm.//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; ROC comparison, P=0.004; Amlodipine (B): MMP1 rs1799750; Factor5 (F5) rs6025; NPPA rs5065; PDE4D rs6450512; MMP9 rs2274756; ROC comparison, P=0.006; Lisinopril (C): AGT rs5051; PON1 rs705379; MMP12 rs652438; F12 rs1801020; GP1BA rs6065; PDE4D rs27653; ROC comparison, P=0.01; Doxazosin (D): F2 rs1799963; PAI1 rs1799768; MMP7 rs11568818; AGT rs5051; ACE rs4343; MMP2 rs243865; ROC comparison, P=0.007."..

    From PMID: 16122719, in Journal Cardiovasc Res.? , 2006


    References

    There were 5 potential papers with MMP7 and CHD.

    PMIDTitleJournalsDetails
    23344661 "Integrins alpha4 and alphaM, collagen1A1, and matrix metalloproteinase 7 are upregulated in acute Kawasaki disease vasculopathy."Pediatric researchMore Details
    22664146 "Association of matrix metalloproteinases (MMP2, MMP7 and MMP9) genetic variants with left ventricular dysfunction in coronary artery disease patients."Clinica chimica acta; international journal of clinical chemistryMore Details
    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
    23216991 Serum protein profiles predict coronary artery disease in symptomatic patients referred for coronary angiography.BMC medicineMore Details
    16122719 Influence of matrix metalloproteinase genotype on cardiovascular disease susceptibility and outcome.Cardiovascular researchMore Details

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



    PPI interactions

    There were totally 16 unique genes interacted with MMP7. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    FASLG Biochemical Activity12464266|12464266 No
    HBEGF Affinity Capture-Western11825873|11825873 No
    CD44 Affinity Capture-Western11825873|11825873 CHD related
    BCAN Biochemical Activity10986281|10986281 No
    SPP1 in vitro;in vivo11375993 CHD related
    PLG in vitro9360944,9548733 No
    SERPINA1 in vivo7980522 CHD related
    HAPLN1 in vitro7694569 No
    MMP1 in vitro7896811 CHD related
    MMP9 in vivo7896811 CHD related
    CD151 in vitro;in vivo;yeast 2-hybrid16200075 CHD related
    DCN in vitro9148753 CHD related
    MBP in vitro8786845 No
    NGF in vitro;in vivo11729324 CHD related
    TNFSF11 in vitro15894268 CHD related
    TFPI in vitro10859319 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00786MarimastatFor the treatment of various cancers
    experimentalDB08170"(1R)-N,6-DIHYDROXY-7-METHOXY-2-[(4-METHOXYPHENYL)SULFONYL]-1,2,3,4-TETRAHYDROISOQUINOLINE-1-CARBOXAMIDE"
    experimentalDB08489"N4-HYDROXY-2-ISOBUTYL-N1-(9-OXO-1,8-DIAZA-TRICYCLO[10.6.1.013,18]NONADECA-12(19),13,15,17-TETRAEN-10-YL)-SUCCINAMIDE"
    experimentalDB08493"5-METHYL-3-(9-OXO-1,8-DIAZA-TRICYCLO[10.6.1.013,18]NONADECA-12(19),13,15,17-TETRAEN-10-YLCARBAMOYL)-HEXANOIC ACID"