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: CD27

    Description: CD27 molecule

    Entrez Gene ID: 939

    SwissProt Acc Number: P26842

    RefSeq: NM_001242

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

    ..The percentages of both (CD27+)Treg and (CD27-)Treg were significantly lower in patients with STEMI in comparison with controls. Naturally-occurring regulatory T cells (Treg)..

    From PMID: 17261328, in Journal Thromb Res. , 2007


    References

    There were 2 potential papers with CD27 and CHD.

    PMIDTitleJournalsDetails
    17261328 Frequency of naturally-occurring regulatory T cells is reduced in patients with ST-segment elevation myocardial infarction.Thrombosis researchMore Details
    15585311 Altered trafficking of CD8+ memory T cells after implantation of rapamycin-eluting stents in patients with coronary artery disease.Immunology lettersMore Details

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



    PPI interactions

    There were totally 9 unique genes interacted with CD27. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SIVA1 Two-hybrid9177220|9177220|16683188 No
    TRAF1 Affinity Capture-Western9794406 CHD related
    TRAF3 Affinity Capture-Western9794406|9582383 No
    TRAF2 Affinity Capture-Western9794406|9582383|20974987|9692890 No
    TRAF5 Affinity Capture-Western9582383 CHD related
    CD5 Reconstituted Complex1711157 No
    UHRF2 Far Western21952639 No
    ELAVL1 Affinity Capture-RNA19322201 No
    CD70 in vivo8120384,8186199,8580829,15723067,7479974,9862673,9767422 No


    Involved FDA drugs

    There was no drug associated with CD27