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: PLA2G2A

    Description: "phospholipase A2, group IIA (platelets, synovial fluid)"

    Entrez Gene ID: 5320

    SwissProt Acc Number: P14555

    RefSeq: NM_000300

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

    ..Secretory phospholipase A2 group IIA (sPLA2-IIA) has been identified as a biomarker of atherosclerosis in observational and animal studies. The protein is encoded by the PLA2G2A gene..

    From PMID: 22879865, in Journal PLoS One. , 2012


    References

    There were 6 potential papers with PLA2G2A and CHD.

    PMIDTitleJournalsDetails
    23916927 Secretory Phospholipase A2-IIA and Cardiovascular Disease: A Mendelian Randomization Study.Journal of the American College of CardiologyMore Details
    22879865 Functional analysis of two PLA2G2A variants associated with secretory phospholipase A2-IIA levels.PloS oneMore Details
    21130994 Strong association of the APOA5-1131T>C gene variant and early-onset acute myocardial infarction.AtherosclerosisMore Details
    21799821 Type II secretory phospholipase A2 and prognosis in patients with stable coronary heart disease: mendelian randomization study.PloS oneMore Details
    17545304 "Tagging SNP haplotype analysis of the secretory PLA2-V gene, PLA2G5, shows strong association with LDL and oxLDL levels, suggesting functional distinction from sPLA2-IIA: results from the UDACS study."Human molecular geneticsMore Details
    16368710 Tagging-SNP haplotype analysis of the secretory PLA2IIa gene PLA2G2A shows strong association with serum levels of sPLA2IIa: results from the UDACS study.Human molecular geneticsMore Details

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



    PPI interactions

    There were totally 24 unique genes interacted with PLA2G2A. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    DCN Reconstituted Complex10747008|10747008 CHD related
    Cep70 Two-hybrid21900206 No
    BAG6 Two-hybrid21900206 No
    VCAN in vitro9848887,8824283 CHD related
    PLA2G2A in vitro12616631 CHD related
    ALOX12 in vivo15474031 CHD related
    PLA2G1B Reconstituted Complex7721806 No
    SENP8 Biochemical Activity22118674 No
    JOSD2 Biochemical Activity22118674 No
    SENP6 Biochemical Activity22118674 No
    UCHL1 Biochemical Activity22118674 No
    UCHL3 Biochemical Activity22118674 No
    UCHL5 Biochemical Activity22118674 No
    USP15 Biochemical Activity22118674 No
    USP2 Biochemical Activity22118674 No
    USP20 Biochemical Activity22118674 No
    USP28 Biochemical Activity22118674 No
    USP4 Biochemical Activity22118674 No
    USP47 Biochemical Activity22118674 No
    USP5 Biochemical Activity22118674 No
    USP7 Biochemical Activity22118674 No
    USP8 Biochemical Activity22118674 No
    PLA2R1 in vitro7721806 No
    CRMP1 yeast 2-hybrid16169070 No


    Involved FDA drugs

    There was no drug associated with PLA2G2A