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: RGS1

    Description: regulator of G-protein signaling 1

    Entrez Gene ID: 5996

    SwissProt Acc Number: Q08116

    RefSeq: NM_002922

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

    .."Differential expression of ABCA1, RSG1 and ADBR2 was replicated. In conclusion, we identified these 3 genes to be expressed differently in CAD cases which might play a role in the pathogenesis of atherosclerotic vascular disease."..

    From PMID: 22363809, in Journal PloS one , 2012


    References

    There were 1 potential papers with RGS1 and CHD.

    PMIDTitleJournalsDetails
    22363809 Monocyte gene expression signature of patients with early onset coronary artery disease.PloS oneMore Details

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



    PPI interactions

    There were totally 9 unique genes interacted with RGS1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    MAP3K12 Two-hybrid16169070|16169070 No
    UTP14A Two-hybrid16169070|16169070 No
    FUNDC2 Two-hybrid16169070|16169070 No
    TSC22D1 Two-hybrid16169070|16169070 No
    APP Reconstituted Complex21832049 No
    GIPC1 in vivo11251075 No
    GDE1 yeast 2-hybrid10760272 No
    HAX1 Affinity Capture-MS20171186 No
    GNAO1 in vivo;yeast 2-hybrid15215290 No


    Involved FDA drugs

    There was no drug associated with RGS1