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: IRS1

    Description: insulin receptor substrate 1

    Entrez Gene ID: 3667

    SwissProt Acc Number: P35568

    RefSeq: NM_005544

    It was suspected to be CHD related:

    .."The insulin receptor substrate-1 (IRS1) gene is considered a major T2DM gene, and common genetic variations near the IRS1 gene were found to be associated with T2DM, insulin resistance, adiposity, and CAD."..

    From PMID: 22797928, in Journal Acta Diabetol , 2012


    References

    There were 9 potential papers with IRS1 and CHD.

    PMIDTitleJournalsDetails
    22797928 Evidence of selection at insulin receptor substrate-1 gene loci.Acta diabetologicaMore Details
    23659870 Common variants in and near IRS1 and subclinical cardiovascular disease in the Framingham Heart Study.AtherosclerosisMore Details
    24135527 Genetic susceptibility for ischemic infarction and arteriolosclerosis based on neuropathologic evaluations."Cerebrovascular diseases (Basel, Switzerland)"More Details
    22326951 Metabolic stress-induced activation of FoxO1 triggers diabetic cardiomyopathy in mice.The Journal of clinical investigationMore Details
    21353221 The type 2 diabetes and insulin-resistance locus near IRS1 is a determinant of HDL cholesterol and triglycerides levels among diabetic subjects.AtherosclerosisMore Details
    21706003 Genetic variation near IRS1 associates with reduced adiposity and an impaired metabolic profile.Nature geneticsMore Details
    22347652 Insulin receptor substrate-1 expression is increased in circulating leukocytes of patients with acute coronary syndrome.ISRN cardiologyMore Details
    20112301 Green tea polyphenols improve cardiac muscle mRNA and protein levels of signal pathways related to insulin and lipid metabolism and inflammation in insulin-resistant rats.Molecular nutrition & food researchMore Details
    18620593 Investigation of 89 candidate gene variants for effects on all-cause mortality following acute coronary syndrome.BMC medical geneticsMore Details

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



    PPI interactions

    There were totally 81 unique genes interacted with IRS1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SOCS1 Affinity Capture-Western12228220 CHD related
    PIK3R3 Affinity Capture-Western10417350 No
    GRB2 Affinity Capture-Western8491186|12173038|7488107,8810325,8388384 CHD related
    KHDRBS1 Affinity Capture-Western11604231 No
    BCL2L1 Affinity Capture-Western10679027 CHD related
    MTOR Affinity Capture-Western11287630 CHD related
    PIK3CA Affinity Capture-Western16354680|14511371|12933652 CHD related
    JAK3 Affinity Capture-Western7499365 No
    AKT1 Affinity Capture-Western10497255 CHD related
    IRS2 Co-fractionation12554758 CHD related
    UBTF Affinity Capture-Western12554758 No
    ALK Affinity Capture-Western14968112|9174053 No
    CBLB Affinity Capture-Western16734387 No
    HDAC2 Two-hybrid15522123|15522123|15522123 CHD related
    UBC Affinity Capture-Western15516986|12821935|20663861|10669726|23045529|23045529 No
    SOCS3 Affinity Capture-Western15514089 CHD related
    FBXW8 Reconstituted Complex23045529 No
    APP Reconstituted Complex21832049 No
    ATP2A1 in vivo9295312 No
    IRS1 in vitro10411883 CHD related
    NPM1 in vitro8633037 No
    PDPK1 in vivo15802620 CHD related
    BCR in vivo12560071 CHD related
    CRK in vitro;in vivo8810325,9837978,8621590 No
    FER in vivo11006284 No
    RAD51 in vitro;in vivo14559999 No
    FES in vitro10856136 No
    GHR in vitro;in vivo7782332 CHD related
    CAV1 in vitro;in vivo15003536 CHD related
    GRB14 in vivo;yeast 2-hybrid9748281 No
    ROCK1 in vitro;in vivo11739394 CHD related
    ATP2A3 in vitro;in vivo12524443 No
    NTRK1 in vitro;yeast 2-hybrid11147812 No
    IGF1R Two-hybrid7559507|8776723|10082579|7559507,8662806,15629149,12220227,8530377 CHD related
    PTK2 Two-hybrid9822703|9822703 No
    MAPK8 Two-hybrid11606564|10722755|10722755|12417588,11606564,10722755,12351658 CHD related
    INSR Two-hybrid11606564|8626379|11606564,8662806,15629149,16582879,7935368 No
    SFN Affinity Capture-MS15778465 No
    PIK3R1 Affinity Capture-Western1381348|12220227,12173038,1381348,16230374,16043515 CHD related
    JAK1 Biochemical Activity9492017|11162588 CHD related
    JAK2 Biochemical Activity9492017|11208867|12960006 CHD related
    PTPN1 Reconstituted Complex10660596|10660596 CHD related
    GRB10 Reconstituted Complex8621530|12783867 No
    CHUK Affinity Capture-Western12351658 CHD related
    IKBKB Affinity Capture-Western12351658|12351658,11606564,10722755 CHD related
    YWHAE Reconstituted Complex9111084|9312143,9111084 No
    PTPN11 Reconstituted Complex8505282|9756938|8505282,9756938,7935386 CHD related
    BCL2 Affinity Capture-Western10679027 CHD related
    AP3S1 Reconstituted Complex9792713|9792713 No
    SHC1 Reconstituted Complex7499194|7499194 No
    YWHAH Affinity Capture-Western11969417 No
    PRKCD Affinity Capture-Western12031982|15516986|12031982,15364919 CHD related
    NISCH Affinity Capture-Western11912194 No
    YWHAB Reconstituted Complex9422753|9422753 No
    NCK2 Reconstituted Complex9843575 No
    ESR1 Affinity Capture-Western12821935 CHD related
    NEDD4 Reconstituted Complex19953087 No
    CBL Affinity Capture-Western10854852 No
    RPTOR Affinity Capture-Western16354680|19561084 No
    RPS6KB1 Biochemical Activity23045529 CHD related
    SMAD3 Affinity Capture-MS18729074 CHD related
    CSNK2A1 in vitro8349691 CHD related
    CSNK2B in vitro8349691 No
    MAPK1 in vitro16131083 CHD related
    PRKCQ in vitro;in vivo15364919 No
    PRKCG in vitro15364919 No
    ATP2A2 in vitro;in vivo9295312 CHD related
    FYN in vitro;in vivo8631859 No
    IL4R in vivo8599766 CHD related
    PTPRC in vivo8557683 CHD related
    TYK2 in vivo8550573 No
    PRKCZ in vitro;in vivo11063744 No
    PTPRF in vitro10660596,8732688,15588985 No
    CDH1 in vivo11035789 No
    TUB in vitro10455176 No
    YWHAZ in vivo9312143 No
    MAPK9 in vivo12417588 CHD related
    PIK3R2 in vivo;yeast 2-hybrid11120660,7559478,12730242 No
    YWHAG in vivo15324660 No
    PHIP in vitro;in vivo;yeast 2-hybrid11018022 No
    SIK2 in vitro;in vivo12624099 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB08513[4-({5-(AMINOCARBONYL)-4-[(3-METHYLPHENYL)AMINO]PYRIMIDIN-2-YL}AMINO)PHENYL]ACETIC ACID