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: CPE

    Description: carboxypeptidase E

    Entrez Gene ID: 1363

    SwissProt Acc Number: P16870

    RefSeq: NM_001873

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

    .."the severity of the coronary atherosclerosis estimated by Gensini score was significantly influenced by the presence of the A2925G mutant and G2855A mutant of the CPE gene, and the exactly mechanism underlying the association needs further study."..

    From PMID: 18080843, in Journal Mol Biol Rep. , 2009


    References

    There were 5 potential papers with CPE and CHD.

    PMIDTitleJournalsDetails
    18080843 Association of the mutation for the human carboxypeptidase E gene exon 4 with the severity of coronary artery atherosclerosis.Molecular biology reportsMore Details
    18501121 Association of human carboxypeptidase E exon5 gene polymorphisms with angiographical characteristics of coronary atherosclerosis in a Chinese population.Acta pharmacologica SinicaMore Details
    17957445 Molecular scanning of the human carboxypeptidase E gene for mutations in Chinese subjects with coronary atherosclerosis.Molecular and cellular biochemistryMore Details
    17426196 Diagnostic and prognostic utility of brain natriuretic Peptide in subjects admitted to the ICU with hypoxic respiratory failure due to noncardiogenic and cardiogenic pulmonary edema.ChestMore Details
    16609347 "Culture-positive and culture-negative endocarditis in patients with cancer: a retrospective observational study, 1994-2004."MedicineMore Details

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



    PPI interactions

    There were totally 19 unique genes interacted with CPE. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ROBO2 Two-hybrid16169070|16169070 No
    CHD3 Two-hybrid16169070 No
    GTF3C1 Two-hybrid16169070|16169070 No
    POLA2 Two-hybrid16169070|16169070 No
    POLDIP2 Two-hybrid16169070|16169070 No
    RPA1 Two-hybrid16169070|16169070 CHD related
    UTP14A Two-hybrid16169070|16169070 No
    MED31 Two-hybrid16169070|16169070 No
    LRIF1 Two-hybrid16169070 No
    CCK in vivo9275097,12479974 No
    GAST in vivo9369230 No
    INS in vivo10966857,7477119 CHD related
    C1orf103 yeast 2-hybrid16169070 No
    UBC Affinity Capture-MS21906983 No
    GCG in vivo11375130 CHD related
    PMCH in vivo8770919 No
    NTS in vivo8770919 No
    TRH in vivo12270926 No
    BDNF in vitro15664176 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00030Insulin recombinantFor treatment of Type I and II diabetes mellitus.A10AB01;A10AE05;A10AB04;A10AE04;A10AD05;A10AC03;A10AC01;A10AB05;A10AB03
    approvedDB00071"Insulin, porcine"For the treatment of type I and II diabetes mellitus.