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: MDM2

    Description: Mdm2 p53 binding protein homolog (mouse)

    Entrez Gene ID: 4193

    SwissProt Acc Number: Q00987

    RefSeq: NM_001145336

    It was suspected to be CHD related:

    .."whereas the antiapoptotic genes (ie, MDM2, TERT, XRCC1) were more transcribed (P<0.001) in stable angina plaques."..

    From PMID: 15364800, in Journal Circulation , 2004


    References

    There were 2 potential papers with MDM2 and CHD.

    PMIDTitleJournalsDetails
    23162013 Loss of CDKN2B promotes p53-dependent smooth muscle cell apoptosis and aneurysm formation."Arteriosclerosis, thrombosis, and vascular biology"More Details
    15364800 Different quantitative apoptotic traits in coronary atherosclerotic plaques from patients with stable angina pectoris and acute coronary syndromes.CirculationMore Details

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



    PPI interactions

    There were totally 253 unique genes interacted with MDM2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    TP53 Biochemical Activity14671306|11709713|14612427|9809062|10722742|9529249|7686617|12208736|19098711|18665269|18332869|18309296|18172499|18172499|18485870|17908790|17525743|17380154|17139261|17139261|16866370|16857591|16579792|16547496|19303885|19085961|16107876|16023600|15933712|15308643|16624812|15064742|14596917|12944468|15154850|15908921|11925449|11925449|11713288|11431470|21454483|11046142|10488081|20588255|20588255|11597128|19837670|19411846|20657550|21088494|17301054|19568783|21887275|21887275|16845383|16845383|20173098|21084285|19656744|17290220|19857530|19816404|20479273|20395212|21986495|21478269|20484049|20124408|22124327|21060154|21060154|21316347|21925390|22157679|22157679|22103682|21965653|20542919|21084564|18264029|18566590|15058298|21098709|20694676|21572037|20659896|22227409|15013777|11486026|22525275|22487680|22575647|17666403|9450543|22444248|20962272|18541670|21584881|17159902|10827196|16861890|22389628|10640350|10889512|22737255|17848574|17848574|17848574|16414131|15950904|17116689|11285227|20234175|15001357|11697899|15094782|19160491|11714701|15001357|20705607|20639885|20639885|15144954|16678796|16173922|22819825|22331460|22948151|22916255|10435614|22912717|22920093|22266868|22301280|18813780|18981217|11112690|22474335|22474335|18815136|15824742|17426254|19081178|18467333|22032989|22032989|8875929|19106616|19106616|12381304|10561590|16905769|11839577|16870621|16870621|19305137|17875722|16159876|9582019|18604177|21261729|19411066|19033382|18234963|14559824|22374672|15242646|16338390|21471462|21471462|17318220|16201274|20235143 CHD related
    CTBP1 Far Western12867035|12867035 No
    TP73 Reconstituted Complex10435614|10207051|21088494|18499675|10435614|21261729|10469568|10469568 No
    RPL11 Affinity Capture-MS14612427|14612427|18426907|15314173|15314173|15308643|21097889|20554519|15314174|17116689|17116689|18560357|21903592|20547751|20547751|17373842|17242401|17242401 No
    RPL5 Affinity Capture-MS14612427|7935455|18426907|15314173|15314173|15308643|15308643|21097889|20554519|21925390|15314174|17116689|17116689|18560357|20547751|17373842|17242401|17242401 No
    CDKN2A Affinity Capture-MS14612427|14612427|9529249|9529249|12085228|12085228|9529248|18583933|16107876|11223036|10822382|20395212|22120712|18541670|17116689|10801444|16173922|18813780|18467333 CHD related
    NUMB Reconstituted Complex12646252|12646252|18172499|18172499|16678796 No
    HIF1A Reconstituted Complex12606552|10640274 CHD related
    KAT2B Reconstituted Complex12068014|14769800|14769800 No
    TBP Reconstituted Complex9388200|9271120 No
    TAF1 Reconstituted Complex9388200|17237821 No
    MDM2 Biochemical Activity10722742|19166840|17936559|16965791|16803902|16714300|14596917|17301054|17301054|16845383|19683495|21084285|19619542|20479273|20484049|20484049|21060154|18264029|17170710|17170710|22333590|15950904|15001357|15001357|17426254|22493164|16905769|17373842|22989009 CHD related
    ARRB1 Affinity Capture-Western12538596|11588219|15878855|21081496 No
    GTF2E1 Reconstituted Complex9271120 No
    MTBP Reconstituted Complex10906133|10906133|10906133|15632057 No
    RYBP Affinity Capture-Western19098711|19098711 No
    GNAS Affinity Capture-Western18948082 CHD related
    FOXO4 Biochemical Activity18665269|18665269|20874444|20874444 No
    IGF1R Biochemical Activity18632619|12821780 CHD related
    DHFR Affinity Capture-Western18451149|18451149|18451149 No
    RBBP6 Affinity Capture-Western17470788 No
    CDH1 Affinity Capture-Western16980628 No
    YWHAQ Affinity Capture-Western16943424|20086099 No
    PYHIN1 Affinity Capture-Western16479015 No
    DDX17 Affinity Capture-Luminescence17226766 No
    E2F1 Affinity Capture-Western16170383|18754770|18754770 CHD related
    TRIM28 Affinity Capture-MS16107876|16107876|17056014|17056014 No
    ATF3 Reconstituted Complex15933712|20592017|20592017 No
    HIST2H2BE Reconstituted Complex15546622|15546622 No
    RPL23 Affinity Capture-MS15314173|15314173|15314173|15314173|15308643|17116689|17116689|20547751 No
    YY1 Affinity Capture-Western15210108|15210108 No
    AKT1 Affinity Capture-Western12145204|21930127 CHD related
    tat Biochemical Activity12883554|12883554 No
    Trp53 Affinity Capture-Western12771937 No
    HIST3H3 Reconstituted Complex20588255|20588255|20588255 No
    EHMT1 Affinity Capture-Western20588255 No
    SUV39H1 Affinity Capture-Western20588255 No
    ADRB2 Biochemical Activity11588219 CHD related
    MTA1 Affinity Capture-Western19837670 No
    vif Affinity Capture-Western19128510 No
    G3BP2 Affinity Capture-Western17297477|17297477 No
    RPS6KB1 Affinity Capture-Western20657550 CHD related
    USP10 Affinity Capture-Western20096447 No
    PSMC1 Affinity Capture-Western20479273 No
    PSMD4 Affinity Capture-Western20479273|19240029|22659184|22350919 No
    PSMC3 Affinity Capture-Western20479273|20479273|22659184 No
    PSMC5 Affinity Capture-Western20479273|20479273|20479273 No
    PSMC6 Affinity Capture-Western20479273 No
    PSMA7 Co-fractionation20479273|20479273|16337594 No
    PSMD1 Co-fractionation20479273 No
    GNL3L Affinity Capture-Western21132010 No
    APEX1 Biochemical Activity19219073 CHD related
    SOX4 Affinity Capture-Western19234109 No
    HEXIM1 Affinity Capture-Western19617712 No
    CDK9 Affinity Capture-Western19617712 No
    HSP90AA1 Affinity Capture-Western20540933|15001357|15001357|15001357|15001356 CHD related
    HSPA4 Affinity Capture-Western20540933 No
    HSPA8 Affinity Capture-Western20540933 CHD related
    LAMP2 Affinity Capture-Western20540933 CHD related
    RPS3 Reconstituted Complex19656744|19656744 No
    USP2 Two-hybrid17290220|17290220|17290220|17290220 No
    TRIM13 Affinity Capture-Western21333377 No
    XRCC6 Biochemical Activity19247369|19247369|19247369 No
    GORAB Affinity Capture-Western20598683 No
    FOXO3 Affinity Capture-Western19321440|18204439 CHD related
    UCHL1 Affinity Capture-Western20395212 No
    S100A1 Reconstituted Complex20591429 CHD related
    S100A2 Reconstituted Complex20591429 No
    S100A4 Reconstituted Complex20591429 No
    S100A6 Reconstituted Complex20591429 CHD related
    S100B Reconstituted Complex20591429 CHD related
    CSNK1D Affinity Capture-Western20708156|22976441 No
    RFWD2 Affinity Capture-Western20333547 No
    SMURF1 Reconstituted Complex20484049|20484049 No
    NOTCH4 Affinity Capture-Western21402876 No
    CSNK1A1 Affinity Capture-Western19759023|22916255 No
    PDLIM7 Reconstituted Complex21060154|21060154 No
    RN5S1@ Affinity Capture-RNA21925390 No
    PDE4D Affinity Capture-Western19372219|19372219 CHD related
    NOTCH1 Affinity Capture-Western22128911 CHD related
    RASSF1 Affinity Capture-Western18566590 CHD related
    RPS14 Affinity Capture-Western22525275|22391559 No
    PSMB6 Affinity Capture-Western22659184 No
    PSMA8 Affinity Capture-Western22659184 No
    RASSF3 Affinity Capture-Western22593196 No
    LATS1 Affinity Capture-Western22195963 No
    RAD50 Affinity Capture-MS15734743|15734743 No
    NBN Affinity Capture-MS15734743|15734743|18541670 No
    MRE11A Affinity Capture-MS15734743|15734743 No
    Jmy Affinity Capture-Western17170761 No
    ADRBK1 Affinity Capture-Western21081496|17006543 CHD related
    HNRNPK Affinity Capture-Western22825850 No
    RASSF5 Two-hybrid22173032|22173032 No
    NPM1 Affinity Capture-Western15144954|15144954|23039052|15144954 No
    TCAP Two-hybrid16678796|16678796 No
    ARIH2 Affinity Capture-Western22819825 No
    TPT1 Affinity Capture-Western22912717|22912717 No
    ANG Affinity Capture-Western22266868 CHD related
    LATS2 Two-hybrid17015431|17015431 No
    ERCC8 Affinity Capture-Western22032989 No
    DDB1 Affinity Capture-Western22032989 No
    CUL4B Affinity Capture-Western22032989 No
    TRAF5 Two-hybrid22493164 CHD related
    MKRN3 Two-hybrid22493164 No
    PHF7 Two-hybrid22493164 No
    RNF126 Two-hybrid22493164 No
    RNF10 Two-hybrid22493164 No
    TRIM23 Two-hybrid22493164 No
    TRIM4 Two-hybrid22493164 No
    TRIM9 Two-hybrid22493164 No
    DHRS2 Affinity Capture-MS20547751|20547751 No
    ITCH Affinity Capture-Western21093410 No
    EEF1A1 Affinity Capture-MS17373842|17373842 No
    DCD Affinity Capture-MS17373842 No
    TUBB Affinity Capture-MS17373842 No
    TUBB2A Affinity Capture-MS17373842 No
    KRT14 Affinity Capture-MS17373842 No
    RPS20 Affinity Capture-MS17373842 No
    GAPDH Affinity Capture-MS17373842 No
    TUBA1C Affinity Capture-MS17373842 No
    GSN Affinity Capture-MS17373842 No
    XIAP Reconstituted Complex19411066 CHD related
    HNF4A Affinity Capture-Western22197810 No
    NME2 Reconstituted Complex21504894|21504894 No
    NEDD4 Protein-peptide15001356 No
    DAPK1 Protein-peptide15001356 No
    DAPK3 Protein-peptide15001356 No
    UBE2L3 Reconstituted Complex16714300 No
    UBE2E2 Reconstituted Complex21965653 No
    UBE2E3 Reconstituted Complex21965653 No
    UBQLN4 yeast 2-hybrid17290220 No
    UBB yeast 2-hybrid17290220 No
    MDC1 Protein-peptide14578343|18471438 No
    CTBP2 Reconstituted Complex12867035|12867035|21057548|21057548 No
    PML Affinity Capture-Western15195100|15195100|14507915|14507915|12759344|12759344|19150978|20972456 No
    UBE2A Affinity Capture-Western12640129|22083959 No
    KAT5 Affinity Capture-Western11927554|19150978|18264029|18499675|11927554 No
    HDAC1 Affinity Capture-Western12426395|15640443|22318606|12426395 CHD related
    EID1 Affinity Capture-Western11073989|11073989 No
    MDM4 Reconstituted Complex12483531|12393902|20473904|19683495|19838211|20484049|21925390|12874296|22266850|17159902|22266850|16055726|10608892|10608892|10218570,12393902,12483531,10608892,17159902 CHD related
    EP300 Reconstituted Complex9809062|9809062|15154850|15013777|20234175|9809062 CHD related
    ESR1 Reconstituted Complex10766163|12897156|17545634|17545634|11178989 CHD related
    ARRB2 Affinity Capture-Western12488444|18544533|21466165|21389118|15878855|21081496|17984062|17984062 No
    ABL1 Affinity Capture-Western12110584|12110584|12110584 No
    CCNG1 Reconstituted Complex12556559|12556559 No
    TSG101 Affinity Capture-Western11172000|17060450|11172000 No
    RB1 Reconstituted Complex10078201|15044952|16337594|20871633|15485814|7791904|7791904|16510145|7791904 CHD related
    FKBP3 Reconstituted Complex19166840 No
    RRM2B Affinity Capture-Western19015526 No
    RPL26 Affinity Capture-Western18951086|20542919 No
    DAXX Affinity Capture-Western18583933|16845383|16845383 No
    UBC Affinity Capture-Western18583933|17936559|17353187|16227609|15632057|12145204|12167711|21285945|11606419|20657550|21132010|19838211|17290220|21333377|21316347|22103682|18566590|21890473|21906983|22525275|22914926|19033382|19798103|22505724 No
    SUMO1 Affinity Capture-Western18583933|15876864|12917636|21316347|20972456|15876874|11384992,12393906 No
    GNL3 Affinity Capture-Western18426907|18426907|21132010|19033382 No
    CCAR1 Affinity Capture-Western18382127|18382127 No
    PSMD10 Reconstituted Complex18332869|16023600|16023600|16023600 No
    PSME3 Affinity Capture-Western18309296|18309296|18309296 No
    PTK2 Reconstituted Complex18206965 No
    AR Affinity Capture-Western17974989|15640443|21157430|12145204 CHD related
    PPM1D Affinity Capture-Western17936559|17936559 No
    USP7 Affinity Capture-Western17936559|16943424|16402859|16402859|16845383|16474402 No
    COPS5 Affinity Capture-Western17879958 No
    SFN Affinity Capture-Western17546054 No
    CHEK2 Biochemical Activity16943424|19176998|15862297|15862297|15862297 No
    NCL Affinity Capture-Western16751805|16751805|22103682 No
    UBE2G2 Two-hybrid19690564 No
    UBE2U Two-hybrid19690564 No
    UBE2Z Two-hybrid19690564 No
    BANP Reconstituted Complex19303885|19303885 No
    GATA3 Affinity Capture-Western15975924 No
    RAD23A Affinity Capture-Western15064742 No
    CDKN1A Affinity Capture-Western14761977|14633995|14633995|20086099|20308078 CHD related
    NR3C1 Affinity Capture-Western11562347 CHD related
    UBE2I Reconstituted Complex11384992 No
    RPS27L Reconstituted Complex21170087|21170087 No
    RPS27 Reconstituted Complex21170087|21170087 No
    SIVA1 Affinity Capture-Western19590512 No
    RCHY1 Affinity Capture-Western19483087|20333547 No
    UBE2D1 Two-hybrid17301054|15280377 No
    CASP2 Biochemical Activity21726810 No
    RPS27A Reconstituted Complex21561866|21561866 No
    RPS7 Reconstituted Complex21561866|19683495|17310983|17310983 No
    PSMD2 Affinity Capture-Western18086887|18086887 No
    PAK1IP1 Affinity Capture-Western21097889 No
    ZNF668 Affinity Capture-Western21852383 No
    TP63 Reconstituted Complex21088494|11714701 No
    PCNA Affinity Capture-Western20733054 CHD related
    RUNX3 Affinity Capture-Western19808967 No
    TERT Affinity Capture-Western20453884 CHD related
    UIMC1 Affinity Capture-Western19433585 No
    CREBBP Affinity Capture-RNA21149449|15013777|22349818 No
    ARR3 Affinity Capture-Western21466165 No
    UBE4B Affinity Capture-Western21317885 No
    TBRG1 Affinity Capture-Western17110379 No
    BAIAP2L1 Affinity Capture-Western21887275|21887275 No
    RFWD3 Reconstituted Complex20173098|20173098 No
    ERBB3 Affinity Capture-Western21930127 No
    PA2G4 Affinity Capture-Western21930127|21098709 No
    DYRK2 Affinity Capture-Western19965871 No
    FOXO1 Affinity Capture-Western19321440 CHD related
    USP42 Affinity Capture-Western22085928 No
    CUL1 Affinity Capture-Western20708156 No
    BTRC Affinity Capture-Western20708156 No
    FBXW11 Affinity Capture-Western20708156 No
    SUMO2 Affinity Capture-Western21316347 No
    SENP3 Affinity Capture-Western21316347|21316347|21316347 No
    SNAI1 Affinity Capture-Western22128911 No
    TRIM27 Affinity Capture-Western20972456|20972456 No
    RFFL Affinity Capture-Western18382127 No
    PPP2R4 Affinity Capture-Western22525275 No
    TTF1 Reconstituted Complex22383580|22383580 No
    NR0B2 Affinity Capture-Western22575647 No
    UBE2D2 Biochemical Activity15280377|20705607 No
    UBE2D3 Biochemical Activity15280377 No
    UBE2K Biochemical Activity15280377 No
    HDAC2 Negative Genetic22318606 CHD related
    HDAC3 Negative Genetic22318606 CHD related
    UBE2B Affinity Capture-Western22083959 No
    PIAS1 Biochemical Activity12393906|12393906 No
    RANBP1 Biochemical Activity12393906 No
    TRRAP Affinity Capture-Western12897156 No
    CUL4A Affinity Capture-Western16861890 No
    DTL Affinity Capture-Western16861890 No
    PIM1 Biochemical Activity19166854|18467333|18467333 No
    GSK3B Biochemical Activity16055726|16055726 CHD related
    PSMA3 Reconstituted Complex20308078 No
    ESR2 Affinity Capture-Western22349818 CHD related
    AATF Affinity Capture-Western17468107 No
    BUB1B Affinity Capture-Western22566641 No
    NEDD8 Affinity Capture-Western15242646 No
    POLH Affinity Capture-Western22056306 No
    CDK5RAP3 Affinity Capture-Western16173922 No
    IRF2 Affinity Capture-Western19032150 No
    RPS25 Affinity Capture-Western22777350 No
    RHOA Affinity Capture-Western22907703 CHD related
    PDCD5 Affinity Capture-Western22914926 No
    CDKN2AIP Affinity Capture-Western18292944|17460193 No
    WWOX Affinity Capture-Western16219768 CHD related
    MED1 Affinity Capture-Western15848166|15848166 No
    ERCC6 Affinity Capture-Western22032989 No
    HIPK2 Affinity Capture-Western16212962|17349959|16212962 No
    CASP3 Biochemical Activity9278461|9278461 CHD related
    ERBB4 Affinity Capture-Western20858735 No
    PLK1 Biochemical Activity19833129|19833129 No
    ATM Biochemical Activity22976441|11331603 No
    PBX1 Reconstituted Complex23044487 No
    UBE3A Biochemical Activity11486026 No
    UBD Affinity Capture-MS22797925 No
    JMY in vivo17170761 No
    GTF2E2 in vitro9271120 No
    PJA1 in vivo10722742 No
    RANBP2 in vitro12393906 No
    POLE in vitro;yeast 2-hybrid10982879 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02872"Cis-[4,5-Bis-(4-Bromophenyl)-2-(2-Ethoxy-4-Methoxyphenyl)-4,5-Dihydroimidazol-1-Yl]-[4-(2-Hydroxyethyl)Piperazin-1-Yl]Methanone"
    experimentalDB04144"Cis-[4,5-Bis-(4-Chlorophenyl)-2-(2-Isopropoxy-4-Methoxyphenyl)-4,5-Dihyd Roimidazol-1-Yl]-Piperazin-1-Yl-Methanone"