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: CNTF

    Description: ciliary neurotrophic factor

    Entrez Gene ID: 1270

    SwissProt Acc Number: P26441

    RefSeq: NM_000614

    It was suspected to be CHD related:

    .."In CAD patients, suggestive associations were found in the GR, CNTF and the AMPD1 gene with an improved change in aerobic capacity after three months of training."..

    From PMID: 21967077, in Journal BMC Genet. , 2011


    References

    There were 1 potential papers with CNTF and CHD.

    PMIDTitleJournalsDetails
    21967077 A genetic predisposition score for muscular endophenotypes predicts the increase in aerobic power after training: the CAREGENE study.BMC geneticsMore Details

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



    PPI interactions

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

    Gene nameInteraction typereference PMIDCHD relation
    STK16 Affinity Capture-MS17353931 No
    EIF3E Affinity Capture-MS17353931 CHD related
    CNTF Co-crystal Structure7796798|7796798 CHD related
    ICA1 Affinity Capture-MS17353931 No
    EXT1 Affinity Capture-MS17353931 No
    VHL Affinity Capture-MS17353931 No
    EXT2 Affinity Capture-MS17353931 No
    IL6R Reconstituted Complex12643274|12643274|1281789 CHD related
    CNTFR Reconstituted Complex7810882 No
    APOE in vitro9236223 CHD related
    LIFR in vitro12643274,16051226 No
    IL6ST in vitro12643274,16051226 CHD related


    Involved FDA drugs

    There was no drug associated with CNTF