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: PELI1

    Description: pellino homolog 1 (Drosophila)

    Entrez Gene ID: 57162

    SwissProt Acc Number: Q96FA3

    RefSeq: NM_020651

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

    .."coronary artery lesions, Conclusively, incomplete KD, IVIG nonresponsiveness, long febrile days, and the rs7604693 genetic variant in the PELI1 gene are major risk factors for the development of CALs, whereas low serum albumin concentration is an independent risk factor for IVIG nonresponsiveness."..

    From PMID: 22105492, in Journal Pediatr Cardiol. , 2012


    References

    There were 2 potential papers with PELI1 and CHD.

    PMIDTitleJournalsDetails
    22105492 Assessment of risk factors for Korean children with Kawasaki disease.Pediatric cardiologyMore Details
    21221998 A genome-wide association analysis reveals 1p31 and 2p13.3 as susceptibility loci for Kawasaki disease.Human geneticsMore Details

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



    PPI interactions

    There were totally 17 unique genes interacted with PELI1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    UBC Affinity Capture-Western18326498|19264966|21204785 No
    IRAK1 Affinity Capture-Western17675297|19081057|12496252|16951688|15917247|16884718,17675297 CHD related
    UBE2I Two-hybrid21120624 No
    TRAF6 Affinity Capture-Western12496252|16951688|12804775 No
    IL1R1 Affinity Capture-Western12496252 CHD related
    SMAD6 Affinity Capture-Western16951688 No
    MYD88 Affinity Capture-Western16951688 CHD related
    NR2C2 Affinity Capture-Western12804775 No
    UBE2N Reconstituted Complex21204785 No
    UBE2V1 Reconstituted Complex21204785|19734906 No
    UBE2D1 Reconstituted Complex19264966 No
    UBE2D2 Reconstituted Complex19264966 No
    IRAK4 Affinity Capture-Western17675297|17997719|19264966|21204785 CHD related
    IRAK2 Affinity Capture-Western17675297|17675297 No
    RIPK1 Affinity Capture-Western19734906 No
    TBK1 Biochemical Activity21204785 No
    IKBKB Biochemical Activity21204785 CHD related


    Involved FDA drugs

    There was no drug associated with PELI1