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: DAB2IP

    Description: DAB2 interacting protein

    Entrez Gene ID: 153090

    SwissProt Acc Number: Q5VWQ8

    RefSeq: NM_032552

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

    ..This study replicates a previous association of a variant in DAB2IP with CHD. ..

    From PMID: 21444365, in Journal Eur Heart J. , 2012


    References

    There were 2 potential papers with DAB2IP and CHD.

    PMIDTitleJournalsDetails
    23326475 Dab2IP GTPase activating protein regulates dendrite development and synapse number in cerebellum.PloS oneMore Details
    21444365 Association of a sequence variant in DAB2IP with coronary heart disease.European heart journalMore Details

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



    PPI interactions

    There were totally 12 unique genes interacted with DAB2IP. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    DAB1 in vitro;in vivo11812785 No
    DAB2 Affinity Capture-Western11812785|11812785 CHD related
    TP53 Affinity Capture-Western20308539 CHD related
    TP63 Affinity Capture-Western20308539 No
    TP73 Affinity Capture-Western20308539 No
    YWHAQ Reconstituted Complex17389591|17389591 No
    TRAF2 Affinity Capture-Western17389591|15310755 No
    RIPK1 Affinity Capture-Western17389591|15310755 No
    MAP3K5 Affinity Capture-Western17389591 CHD related
    TNFRSF1A Affinity Capture-Western15310755 CHD related
    TRADD Affinity Capture-Western15310755 No
    BIRC3 Affinity Capture-Western15310755 No


    Involved FDA drugs

    There was no drug associated with DAB2IP