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: ITPR3

    Description: "inositol 1,4,5-triphosphate receptor, type 3"

    Entrez Gene ID: 3710

    SwissProt Acc Number: Q14573

    RefSeq: NM_002224

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

    ..Single nucleotide polymorphism rs2229634 in the ITPR3 gene is associated with the risk of developing coronary artery aneurysm in children with Kawasaki disease...

    From PMID: 20618519, in Journal Int J Immunogenet. , 2010


    References

    There were 1 potential papers with ITPR3 and CHD.

    PMIDTitleJournalsDetails
    20618519 Single nucleotide polymorphism rs2229634 in the ITPR3 gene is associated with the risk of developing coronary artery aneurysm in children with Kawasaki disease.International journal of immunogeneticsMore Details

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



    PPI interactions

    There were totally 18 unique genes interacted with ITPR3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    TRPC4 Reconstituted Complex11290752 No
    TRPC5 Reconstituted Complex11290752 No
    TRPC6 Reconstituted Complex11290752 CHD related
    TRPC7 Reconstituted Complex11290752 No
    TRPC2 Reconstituted Complex11290752 No
    TRPC3 Reconstituted Complex11290752 CHD related
    TRPC1 Affinity Capture-Western10980191|10980191,11290752 CHD related
    SIGMAR1 Affinity Capture-Western11149946|11149946 No
    ITPR1 Co-fractionation7559486 No
    SUMO1 Reconstituted Complex19596686 No
    UBC Affinity Capture-MS21139048|21890473|21906983 No
    SIRT7 Affinity Capture-MS22586326 No
    ATP2A2 Co-fractionation22939629 CHD related
    ATP2A1 Co-fractionation22939629 No
    ABCD1 Co-fractionation22939629 No
    ANK1 in vitro;in vivo8385102,15051494 CHD related
    TRPM2 in vitro11290752 No
    CABP1 in vivo14685260,12032348 No


    Involved FDA drugs

    There was no drug associated with ITPR3