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: AHSG

    Description: alpha-2-HS-glycoprotein

    Entrez Gene ID: 197

    SwissProt Acc Number: P02765

    RefSeq: NM_001622

    It was suspected to be CHD related:

    .."polymorphisms in the corresponding alpha2-Heremans-Schmid glycoprotein (AHSG) gene have been shown to be associated with serum fetuin A levels and free phosphate levels, as well as cardiovascular disease death."..

    From PMID: 17062776, in Journal J Clin Endocrinol Metab , 2007


    References

    There were 3 potential papers with AHSG and CHD.

    PMIDTitleJournalsDetails
    22024217 Are AHSG polymorphisms directly associated with coronary atherosclerosis?Clinica chimica acta; international journal of clinical chemistryMore Details
    21226708 Serum fetuin-A in metabolic and inflammatory pathways in patients with myocardial infarction.European journal of clinical investigationMore Details
    17062776 Association of alpha2-Heremans-Schmid glycoprotein polymorphisms with subclinical atherosclerosis.The Journal of clinical endocrinology and metabolismMore Details

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



    PPI interactions

    There were totally 11 unique genes interacted with AHSG. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    PPP5C Co-fractionation22939629 No
    INSR Reconstituted Complex7906861|7906861 No
    FBXO2 Reconstituted Complex12140560|12140560|17116465|12140560 No
    DCN Reconstituted Complex12071714 CHD related
    Mad2l1 Affinity Capture-MS20360068 No
    Smad3 Affinity Capture-MS20360068 No
    Hsd17b7 Affinity Capture-MS20360068 No
    GRB2 Two-hybrid18624398 CHD related
    CDC42 Two-hybrid18624398 CHD related
    PSMA3 Affinity Capture-MS22079093 No
    RRAS2 in vitro11788587 No


    Involved FDA drugs

    There was no drug associated with AHSG