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: LRPAP1

    Description: low density lipoprotein receptor-related protein associated protein 1

    Entrez Gene ID: 4043

    SwissProt Acc Number: P30533

    RefSeq: NM_002337

    It was suspected to be CHD related:

    .."According to our data, the variation at the LRPAP1 gene could contribute to the risk of developing an early episode of MI"..

    From PMID: 12394648, in Journal Coron Artery Dis , 2002


    References

    There were 1 potential papers with LRPAP1 and CHD.

    PMIDTitleJournalsDetails
    14557872 Evidence for substantial effect modification by gender in a large-scale genetic association study of the metabolic syndrome among coronary heart disease patients.Human geneticsMore Details

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



    PPI interactions

    There were totally 22 unique genes interacted with LRPAP1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    LRP8 Reconstituted Complex12899622 CHD related
    VLDLR Reconstituted Complex12899622|10571241 No
    POLA2 Two-hybrid16169070|16169070 No
    RTN4 Two-hybrid16169070|16169070 No
    RAF1 Two-hybrid10783161 CHD related
    RALGDS Two-hybrid10783161 No
    SORL1 Co-purification8940146|11557679 No
    EIF4EBP1 Affinity Capture-Western16798736 No
    MTOR Affinity Capture-Western16798736 CHD related
    PPM1G yeast 2-hybrid16169070 No
    RALA Reconstituted Complex11167825 No
    LRP2 Reconstituted Complex11912251|7512726 No
    LRP1 Reconstituted Complex1374383|10747918,1374383,1718973 CHD related
    SORT1 Reconstituted Complex9013611|9013611 CHD related
    LDLR Reconstituted Complex7822276|7822276 CHD related
    RANBP2 Two-hybrid20936779 No
    UBC Affinity Capture-MS21139048 No
    SUMO1 Affinity Capture-MS15576338 No
    SUMO2 Affinity Capture-MS17000644 No
    MAPK3 in vitro15342917 CHD related
    MAPK1 in vitro15342917 CHD related
    LRP1B in vivo11384978 No


    Involved FDA drugs

    There was no drug associated with LRPAP1