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: ADD1

    Description: adducin 1 (alpha)

    Entrez Gene ID: 118

    SwissProt Acc Number: P35611

    RefSeq: NM_001119

    It was suspected to be CHD related:

    .."In hypertensive patients with coronary artery disease, black ADD1 variant carriers showed a 2.6-fold excess risk for a primary outcome event and an 8-fold increase risk of death."..

    From PMID: 18657677, in Journal Am Heart J , 2008


    References

    There were 4 potential papers with ADD1 and CHD.

    PMIDTitleJournalsDetails
    18657677 Alpha-adducin polymorphism associated with increased risk of adverse cardiovascular outcomes: results from GENEtic Substudy of the INternational VErapamil SR-trandolapril STudy (INVEST-GENES).American heart journalMore Details
    17984662 Association of alpha-adducin Gly460Trp polymorphism with coronary artery disease in a Korean population.Journal of hypertensionMore Details
    15699449 Adducin polymorphism: detection and impact on hypertension and related disorders.HypertensionMore Details
    15699455 Hypertension genes are genetic markers for insulin sensitivity and resistance.HypertensionMore Details

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



    PPI interactions

    There were totally 23 unique genes interacted with ADD1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CALM1 Phenotypic Suppression8626479 No
    SPTB Reconstituted Complex8663089 No
    SPTAN1 Reconstituted Complex8663089 No
    ID2 Reconstituted Complex10585876 No
    ID3 Reconstituted Complex10585876|10585876 No
    SMARCA4 Affinity Capture-Western17074803 No
    SMARCC1 Affinity Capture-Western17074803|17074803 No
    SMARCA2 Affinity Capture-Western17074803 No
    SIN3A Affinity Capture-Western17074803 No
    HDAC1 Affinity Capture-Western17074803 CHD related
    RFX1 in vivo;yeast 2-hybrid16289097 No
    SPTA1 Co-fractionation3600811|3600811,8626479 No
    CSNK2B Two-hybrid21900206 No
    TK1 Two-hybrid21900206 No
    MAP1LC3B Two-hybrid21900206 No
    GEMIN7 Two-hybrid21900206 No
    UBC Affinity Capture-MS21139048|21906983 No
    ADD2 in vivo7490111 No
    PRKCD in vitro;in vivo8810272,9679146 CHD related
    ATP1A1 in vitro10516168 No
    CASP3 in vitro10823823 CHD related
    PRKACA in vitro8810272 CHD related
    ROCK1 in vivo10209029 CHD related


    Involved FDA drugs

    There was no drug associated with ADD1