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: NRG1

    Description: neuregulin 1

    Entrez Gene ID: 3084

    SwissProt Acc Number: Q02297

    RefSeq: NM_001159995

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

    .."Furthermore, neuregulin-1 gene (NRG1) may play a role in cardiovascular disease such as atherosclerosis and coronary heart disease i.e. the suggested ""outcomes"" of Type A behavior."..

    From PMID: 18798975, in Journal Behav Brain Funct. , 2008


    References

    There were 2 potential papers with NRG1 and CHD.

    PMIDTitleJournalsDetails
    22792252 Hypoxia changes the expression of the epidermal growth factor (EGF) system in human hearts and cultured cardiomyocytes.PloS oneMore Details
    18798975 Does neuregulin-1 play a role in Type A behavior? The cardiovascular risk in young Finns study.Behavioral and brain functions : BBFMore Details

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



    PPI interactions

    There were totally 8 unique genes interacted with NRG1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ERBB2 Reconstituted Complex7592681 CHD related
    ERBB4 Reconstituted Complex9168115 No
    IKZF4 in vitro;in vivo15494726 No
    EGF in vitro7730382 CHD related
    LIMK1 Two-hybrid9685409|9685409|9685409|9685409 No
    ERBB3 Reconstituted Complex11555649|7592681,11555649,9565587,8702572 No
    EGFR Affinity Capture-Western7730382 CHD related
    ADAM19 in vitro11116142 No


    Involved FDA drugs

    There was no drug associated with NRG1