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: IGF1

    Description: insulin-like growth factor 1 (somatomedin C)

    Entrez Gene ID: 3479

    SwissProt Acc Number: P01343

    RefSeq: NM_000618

    It was suspected to be CHD related:

    ..low IGF-I level as a risk factor for incident myocardial infarction and other manifestations of coronary heart disease...

    From PMID: 15596027, in Journal Cardiol Rev. , 2005


    References

    There were 6 potential papers with IGF1 and CHD.

    PMIDTitleJournalsDetails
    23832067 Pharmacogenomics of anti-platelet therapy focused on peripheral blood cells of coronary arterial disease patients.Clinica chimica acta; international journal of clinical chemistryMore Details
    23132698 Active acromegaly is associated with decreased hs-CRP and NT-proBNP serum levels: insights from the Belgian registry of acromegaly.European journal of endocrinology / European Federation of Endocrine SocietiesMore Details
    22128087 CD36 overexpression predisposes to arrhythmias but reduces infarct size in spontaneously hypertensive rats: gene expression profile analysis.Physiological genomicsMore Details
    22113073 Associations of IGF1 and its binding proteins with abdominal aortic aneurysm and aortic diameter in older men.European journal of endocrinology / European Federation of Endocrine SocietiesMore Details
    16456091 Molecular signatures determining coronary artery and saphenous vein smooth muscle cell phenotypes: distinct responses to stimuli."Arteriosclerosis, thrombosis, and vascular biology"More Details
    16095599 Effects of Vitamin D analogs on gene expression profiling in human coronary artery smooth muscle cells.AtherosclerosisMore Details

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



    PPI interactions

    There were totally 16 unique genes interacted with IGF1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    IGFBP7 Reconstituted Complex14521955 No
    IGFBP3 Reconstituted Complex12735930|10823924|9497324|11600567 CHD related
    IGFALS Affinity Capture-Western10823924 CHD related
    IGFBP4 Reconstituted Complex7683646|9722589 No
    IGFBP2 Co-purification11063745|11063745 No
    IGFBP5 Reconstituted Complex9497324|9497324,1147105 CHD related
    IGFBP1 in vitro10350456 CHD related
    IGFBP6 in vitro7683646 No
    NOV Reconstituted Complex10084601|10084601 No
    IGF1R Reconstituted Complex1852007 CHD related
    TF Reconstituted Complex11749962 No
    IDE Reconstituted Complex1733942 No
    IGSF1 Two-hybrid11344214|11344214 No
    E2F1 Two-hybrid14681231 CHD related
    CTSB in vitro;in vivo16051222 CHD related
    WISP2 in vitro10358067 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB01890Deoxy-Bigchap
    experimentalDB02643"N-Dodecyl-N,N-Dimethyl-3-Ammonio-1-Propanesulfonate"