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: BRAP

    Description: BRCA1 associated protein

    Entrez Gene ID: 8315

    SwissProt Acc Number: Q7Z569

    RefSeq: NM_006768

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

    ..We previously reported that a single nucleotide polymorphism (rs11066001) in the BRAP gene was related to the risk of myocardial infarction..

    From PMID: 22085839, in Journal Cardiology. , 2011


    References

    There were 7 potential papers with BRAP and CHD.

    PMIDTitleJournalsDetails
    22965072 The single nucleotide polymorphisms in BRAP decrease the risk of metabolic syndrome in a Chinese young adult population.Diabetes & vascular disease research : official journal of the InternationalMore Details
    23364394 A genome-wide association study of a coronary artery disease risk variant.Journal of human geneticsMore Details
    21971053 Genome-wide association study of coronary artery disease in the Japanese.European journal of human genetics : EJHGMore Details
    22487834 [Association between polymorphisms of inflammatory factor genes and coronary heart disease].Zhonghua yi xue yi chuan xue za zhi = Zhonghua yixue yichuanxue zazhi = ChineseMore Details
    22085839 Synergistic effect between BRAP polymorphism and diabetes on the extent of coronary atherosclerosis in the Chinese population.CardiologyMore Details
    19713974 Validation of eight genetic risk factors in East Asian populations replicated the association of BRAP with coronary artery disease.Journal of human geneticsMore Details
    19198608 SNPs in BRAP associated with risk of myocardial infarction in Asian populations.Nature geneticsMore Details

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



    PPI interactions

    There were totally 18 unique genes interacted with BRAP. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    IKBKB Affinity Capture-Western21670849 CHD related
    NFKBIB Affinity Capture-Western21670849 No
    MAP2K1 Affinity Capture-Western18332145 CHD related
    BRAF Affinity Capture-Western18332145 No
    KSR1 Affinity Capture-Western18332145 No
    CENPF in vitro9497340 No
    BRAP in vivo14724641 CHD related
    BRCA1 Two-hybrid9497340|8955125 CHD related
    CDC14A Two-hybrid19152073|19152073 No
    UBE2H Two-hybrid19549727 No
    UBC Affinity Capture-MS20639865|18781797|21139048|21890473|21906983|22053931|22505724 No
    TWIST1 Affinity Capture-MS21983900 No
    CDKN1A Affinity Capture-Western15340083 CHD related
    HRAS Affinity Capture-Western14724641 No
    CUL2 Affinity Capture-MS21145461 No
    RAF1 Affinity Capture-Western18332145 CHD related
    DDB1 yeast 2-hybrid10777491 No
    CNKSR1 in vivo14724641 No


    Involved FDA drugs

    There was no drug associated with BRAP