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: IL6R

    Description: interleukin 6 receptor

    Entrez Gene ID: 3570

    SwissProt Acc Number: P08887

    RefSeq: NM_000565

    It was suspected to be CHD related:

    ..Interleukin-6 receptor (IL6R) signalling propagates downstream inflammation cascades...

    From PMID: 22421339, in Journal Lancet. , 2012


    References

    There were 8 potential papers with IL6R and CHD.

    PMIDTitleJournalsDetails
    23073775 Association of two variants in the interleukin-6 receptor gene and premature coronary heart disease in a Chinese Han population.Molecular biology reportsMore Details
    23505291 Gene-centric analysis identifies variants associated with interleukin-6 levels and shared pathways with other inflammation markers.Circulation. Cardiovascular geneticsMore Details
    23593036 Functional IL6R 358Ala allele impairs classical IL-6 receptor signaling and influences risk of diverse inflammatory diseases.PLoS geneticsMore Details
    22902153 Inflammation and coronary artery disease: insights from genetic studies.The Canadian journal of cardiologyMore Details
    22421340 The interleukin-6 receptor as a target for prevention of coronary heart disease: a mendelian randomisation analysis.LancetMore Details
    22421339 Interleukin-6 receptor pathways in coronary heart disease: a collaborative meta-analysis of 82 studies.LancetMore Details
    21300955 Meta-analysis of genome-wide association studies in >80 000 subjects identifies multiple loci for C-reactive protein levels.CirculationMore Details
    19567438 Genetic Loci associated with C-reactive protein levels and risk of coronary heart disease.JAMA : the journal of the American Medical AssociationMore Details

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



    PPI interactions

    There were totally 10 unique genes interacted with IL6R. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CNTF Reconstituted Complex12643274|12643274|1281789 CHD related
    IL6ST Affinity Capture-Western2788034 CHD related
    STAT3 Affinity Capture-Western10982829|10982829 CHD related
    IL6R in vitro;in vivo12633863 CHD related
    IL6 Reconstituted Complex14557255 CHD related
    SRC in vitro10462375 CHD related
    WWP1 in vitro9169421 No
    WWP2 in vitro9169421 No
    MAGI1 in vitro9169421 No
    ERAP1 in vivo12748171 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02944Alpha-D-Mannose