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: ABR

    Description: active BCR-related gene

    Entrez Gene ID: 29

    SwissProt Acc Number: Q12979

    RefSeq: NM_001092

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

    .."Furthermore, the odds of ABR remained significantly higher in patients with XFG than in patients with POAG (OR 4.36; 95% CI, 2.10-9.06; P <.001) after controlling for systemic diseases (arterial hypertension, coronary heart disease, high cholesterol, and stroke)."..

    From PMID: 21493300, in Journal Otolaryngol Head Neck Surg. , 2011


    References

    There were 3 potential papers with ABR and CHD.

    PMIDTitleJournalsDetails
    21493300 Hearing Evaluation in Patients with Exfoliative and Primary Open-Angle Glaucoma.Otolaryngology--head and neck surgery : official journal of American Academy ofMore Details
    20690152 Efficacy of everolimus eluting stent implantation in patients with calcified coronary culprit lesions: two-year angiographic and three-year clinical results from the SPIRIT II study.Catheterization and cardiovascular interventions : official journal of theMore Details
    16983184 Distortion product otoacoustic emissions as a prognostic factor for idiopathic sudden sensorineural hearing loss.Audiology & neuro-otologyMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with ABR. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    APP Reconstituted Complex21832049 No
    ADRA1A in vitro;yeast 2-hybrid15525470 CHD related
    LNX1 Two-hybrid22889411 No


    Involved FDA drugs

    There was no drug associated with ABR