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: IGFALS

    Description: "insulin-like growth factor binding protein, acid labile subunit"

    Entrez Gene ID: 3483

    SwissProt Acc Number: P35858

    RefSeq: NM_001146006

    It was suspected to be CHD related:

    ..low circulating IGF-I levels due to a homozygous acid-labile subunit (IGFALS) gene mutation..

    From PMID: 21664162, in Journal Growth Horm IGF Res , 2011


    References

    There were 2 potential papers with IGFALS and CHD.

    PMIDTitleJournalsDetails
    21664162 Case report: low circulating IGF-I levels due to Acid-Labile Subunit deficiency in adulthood are not associated with early development of atherosclerosis and impaired heart function.Growth hormone & IGF research : official journal of the Growth Hormone ResearchMore Details
    20667078 Novel proteins associated with risk for coronary heart disease or stroke among postmenopausal women identified by in-depth plasma proteome profiling.Genome medicineMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with IGFALS. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    IGFBP3 Reconstituted Complex9497324|9446566|9446566,9497324 CHD related
    IGFBP5 Reconstituted Complex9497324|9497324,9786878 CHD related
    PDCD6 in vivo11591653 No
    IGF1 Affinity Capture-Western10823924 CHD related


    Involved FDA drugs

    There was no drug associated with IGFALS