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: IRAK1

    Description: interleukin-1 receptor-associated kinase 1

    Entrez Gene ID: 3654

    SwissProt Acc Number: P51617

    RefSeq: NM_001025242

    It was suspected to be CHD related:

    .."Evidence suggests that interleukin-1 receptor-associated kinase-1 (IRAK1),fundamental in the toll-like receptor pathway (TLR), may play a more specific role in atherosclerosis.Variation in the IRAK1 gene is associated with CRP concentration in Caucasian women in DHS."..

    From PMID: 17382928, in Journal Exp Mol Pathol.? , 2007


    References

    There were 2 potential papers with IRAK1 and CHD.

    PMIDTitleJournalsDetails
    20524934 Expression of miR-146a/b is associated with the Toll-like receptor 4 signal in coronary artery disease: effect of renin-angiotensin system blockade and statins on miRNA-146a/b and Toll-like receptor 4 levels."Clinical science (London, England : 1979)"More Details
    17382928 The association between innate immunity gene (IRAK1) and C-reactive protein in the Diabetes Heart Study.Experimental and molecular pathologyMore Details

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



    PPI interactions

    There were totally 86 unique genes interacted with IRAK1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    PRKCZ Affinity Capture-Western11937546|11937546 No
    IRAK1BP1 Two-hybrid11096118|11096118 No
    IKBKB Affinity Capture-Western11096118|18180283 CHD related
    CHUK Affinity Capture-Western11096118|18180283 CHD related
    IRAK1 Two-hybrid11259596|18524972|14625308|11397809|19166926|16951688|16024789|10383454,12138165,11960013 CHD related
    BCL10 Reconstituted Complex16831874 No
    PPP2CA Affinity Capture-Western21708940 CHD related
    TNFAIP3 Affinity Capture-Western21220427 CHD related
    TRIM32 Affinity Capture-MS21903422|21903422 No
    BAG3 Affinity Capture-MS21903422 No
    ADCK3 Affinity Capture-MS21903422 No
    CCDC47 Affinity Capture-MS21903422|21903422 No
    IQSEC1 Affinity Capture-MS21903422 No
    IRAK2 Affinity Capture-MS21903422|12138165 No
    MAGED1 Affinity Capture-MS21903422 No
    PJA1 Affinity Capture-MS21903422 No
    PPP3CB Affinity Capture-MS21903422|21903422 CHD related
    RHOT1 Affinity Capture-MS21903422 No
    SNRNP200 Affinity Capture-MS21903422 No
    TARDBP Affinity Capture-MS21903422 No
    TOMM70A Affinity Capture-MS21903422 No
    YTHDC2 Affinity Capture-MS21903422|21903422 No
    CAV1 Affinity Capture-Western16107720 CHD related
    TRAF4 Affinity Capture-Western16052631|16052631 No
    BTRC Affinity Capture-Western22851693 No
    FBXW11 Affinity Capture-Western22851693 No
    CUL1 Affinity Capture-Western22851693 No
    HSP90AA1 Affinity Capture-Western15647277|15647277|15647277 CHD related
    CDC37 Affinity Capture-Western15647277|15647277 No
    HSPA4 Affinity Capture-Western15647277|15647277 No
    STIP1 Affinity Capture-Western15647277|15647277 No
    HIST3H3 Biochemical Activity18276832 No
    NLRP12 Affinity Capture-Western16203735|16203735 No
    STAT3 Affinity Capture-Western15465816 CHD related
    PRKCD Affinity Capture-Western21804018 CHD related
    VASP Affinity Capture-Western20044140 CHD related
    HSPA8 Affinity Capture-MS15647277 CHD related
    ST13 Affinity Capture-MS15647277|15647277 No
    HRAS in vivo11744690 No
    NTRK3 in vivo12034707 No
    RIPK2 in vivo15691841 No
    SUMO1 in vivo16690127 No
    JUN in vitro10346818 CHD related
    MBP in vitro10346818 No
    SIGIRR Affinity Capture-Western12925853|12925853 No
    AKT1 Affinity Capture-Western11976320|11976320 CHD related
    MYD88 Affinity Capture-Western11976320|10383454|11960013|11544529|21903422|22011580|12538665|17920759|17548806|16024789|16461741|10854325 CHD related
    IL1RAP Affinity Capture-Western9371760|9371760 No
    SQSTM1 Affinity Capture-Western10747026|12034707 No
    TRAF6 Affinity Capture-Western10383454|8837778|12566447|11960013|10920205|9374458|18234474|11287640|21220427|22033459|22447928|19716405|11397809|17785851|12496252|16024789|18056395|8837778,10346818 No
    TOLLIP Affinity Capture-Western10854325|17113392|21903422|19716405|15388348|16107720|16024789|10854325 No
    TLR2 Affinity Capture-Western10395652|10395652 CHD related
    TIFA Affinity Capture-Western12566447|12566447 No
    IRAK4 Affinity Capture-Western11960013|11960013|18221795|21903422|12538665|12860405|16024789|11960013 CHD related
    ITGAM Affinity Capture-Western11701612 CHD related
    UBC Affinity Capture-Western18724939|21435586|21987572|21890473|21906983|22505724 No
    IKBKG Reconstituted Complex18347055|18347055|18180283|17997719|21220427|18180283 No
    PELI3 Affinity Capture-Western18326498|17675297|12874243|15917247|12874243,16884718,17675297,18326498 No
    TAB2 Affinity Capture-Western18180283|19675569|12242293 No
    PELI1 Affinity Capture-Western17675297|19081057|12496252|16951688|15917247|16884718,17675297 CHD related
    PELI2 Affinity Capture-Western17675297|12860405|15917247|12370331,16884718,17675297,18326498 No
    CAMKK2 Affinity Capture-MS20562859 No
    CLN3 Affinity Capture-MS20562859 No
    MYC Affinity Capture-MS17314511 CHD related
    TLR4 Affinity Capture-Western21911421 CHD related
    TLR9 Affinity Capture-Western21911421 No
    MAP3K7 Affinity Capture-Western19026643|12242293 No
    IRAK3 Affinity Capture-MS21903422|10383454 No
    IRF4 Affinity Capture-MS21903422|21903422 No
    IRF7 Affinity Capture-MS21903422|21903422|15767370 No
    TIRAP Affinity Capture-MS21903422|21903422 No
    SARM1 Affinity Capture-MS21903422 No
    TMEM173 Affinity Capture-MS21903422|21903422 No
    UNC93B1 Affinity Capture-MS21903422|21903422 No
    Rsad2 Affinity Capture-Western21435586 No
    RCAN1 Affinity Capture-Western19716405 CHD related
    IL1R1 Affinity Capture-Western12609980|12242293|22904187|8599092|8599092|16024789 CHD related
    MAPK14 Affinity Capture-Western15388348 CHD related
    CUL3 Affinity Capture-MS21145461 No
    BTK Affinity Capture-Western12724322 No
    STAT1 Affinity Capture-Western12856330 CHD related
    UBD Affinity Capture-MS22797925 No
    FADD in vitro11828002 No
    MAP3K7IP2 in vivo11518704,18180283 No
    TICAM2 in vitro;in vivo12721283 No
    PRKCI in vitro;in vivo14684752 No


    Involved FDA drugs

    There was no drug associated with IRAK1