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: S100A6

    Description: S100 calcium binding protein A6

    Entrez Gene ID: 6277

    SwissProt Acc Number: P06703

    RefSeq: NM_014624

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

    .."This study indicates that serum levels of S100B, S100A6 and S100P are associated with ACS, and serum levels and myocardial expression of these proteins are related to infarct size."..

    From PMID: 21663912, in Journal Atherosclerosis. , 2011


    References

    There were 1 potential papers with S100A6 and CHD.

    PMIDTitleJournalsDetails
    21663912 "Association of increased S100B, S100A6 and S100P in serum levels with acute coronary syndrome and also with the severity of myocardial infarction in cardiac tissue of rat models with ischemia-reperfusion injury."AtherosclerosisMore Details

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



    PPI interactions

    There were totally 18 unique genes interacted with S100A6. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    S100A6 Co-crystal Structure11937060|11937060 CHD related
    CACYBP Reconstituted Complex18803400|18803400 CHD related
    SEC24A Co-fractionation22939629 No
    TOM1L2 Co-fractionation22939629 No
    SEC23A Co-fractionation22939629 No
    SUGT1 Affinity Capture-Western12746458|12746458|12746458 No
    S100B Two-hybrid10913138|10913138|9925766|9925766|9925766,10913138 CHD related
    ANXA11 Reconstituted Complex10037139|12601007,1299619,10037139 No
    MDM2 Reconstituted Complex20591429 CHD related
    UBC Affinity Capture-MS21987572|21139048|21906983 No
    SUMO2 Affinity Capture-MS21693764 No
    CDK2 Affinity Capture-MS21319273 No
    CD2BP2 Co-fractionation22939629 No
    DHX36 Co-fractionation22939629 No
    CLNS1A Co-fractionation22939629 No
    NUP214 Co-fractionation22939629 No
    GAPDH in vitro1999197 No
    ANXA2 in vitro1999197 No


    Involved FDA drugs

    There was no drug associated with S100A6