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: PCNA

    Description: proliferating cell nuclear antigen

    Entrez Gene ID: 5111

    SwissProt Acc Number: P12004

    RefSeq: NM_002592

    It was suspected to be CHD related:

    .."Using immunohistochemical techniques,proliferating cell nuclear antigen (PCNA) was quantified to assess the proliferation of vascular smooth muscle cells."..

    From PMID: 11775251, in Journal Chin Med J (Engl). , 2000


    References

    There were 29 potential papers with PCNA and CHD.

    PMIDTitleJournalsDetails
    23523564 "p38 MAPK inhibitor, CBS3830 limits vascular remodelling in arterialised vein grafts.""Heart, lung & circulation"More Details
    23340693 Hydrogen-rich saline attenuates vascular smooth muscle cell proliferation and neointimal hyperplasia by inhibiting reactive oxygen species production and inactivating the Ras-ERK1/2-MEK1/2 and Akt pathways.International journal of molecular medicineMore Details
    23369077 "Effects of glycated low-density lipoprotein on cell viability, proliferation, and growth factors of mouse embryo fibroblasts."Canadian journal of physiology and pharmacologyMore Details
    23784108 MiRNA-146a regulates the maturation and differentiation of vascular smooth muscle cells by targeting NF-kappaB expression.Molecular medicine reportsMore Details
    23341188 Linolelaidic acid induces a stronger proliferative effect on human umbilical vein smooth muscle cells compared to elaidic acid.LipidsMore Details
    23237526 Detecting DNA synthesis of neointimal formation after catheter balloon injury in GK and in Wistar rats: using 5-ethynyl-2'-deoxyuridine.Cardiovascular diabetologyMore Details
    21622819 Both AT(1) and AT(2) receptors mediate proliferation and migration of porcine vascular smooth muscle cells.American journal of physiology. Heart and circulatory physiologyMore Details
    21726525 "Anti-proliferative actions of 2-decylamino-5,8-dimethoxy-1,4-naphthoquinone in vascular smooth muscle cells."Biochemical and biophysical research communicationsMore Details
    21540027 Suppressor of cytokine signaling-3 and intimal hyperplasia in porcine coronary arteries following coronary intervention.Experimental and molecular pathologyMore Details
    19748258 "Effect of total saponins of ""panax notoginseng root"" on aortic intimal hyperplasia and the expressions of cell cycle protein and extracellular matrix in rats."Phytomedicine : international journal of phytotherapy and phytopharmacologyMore Details
    19951743 Stent-based release of a selective PDGF-receptor blocker from the bis-indolylmethanon class inhibits restenosis in the rabbit animal model.Vascular pharmacologyMore Details
    20040887 Inhibition of matrix deposition: a new strategy for prevention of restenosis after balloon angioplasty.Journal of cardiovascular pharmacologyMore Details
    18490059 Induction of housekeeping gene expression after subarachnoid hemorrhage in dogs.Journal of neuroscience methodsMore Details
    16581260 "Differential, time-dependent effects of perivenous application of fibrin glue on medial thickening in porcine saphenous vein grafts."European journal of cardio-thoracic surgery : official journal of the EuropeanMore Details
    16543500 Adeno-associated virus-mediated transduction of VEGF165 improves cardiac tissue viability and functional recovery after permanent coronary occlusion in conscious dogs.Circulation researchMore Details
    16440199 Early cardiac hypertrophy induced by thyroxine is accompanied by an increase in VEGF-A expression but not by an increase in capillary density.Virchows Archiv : an international journal of pathologyMore Details
    16043419 Angiogenesis and cardioprotection after TNFalpha-inducer-Tolpa Peat Preparation treatment in rat's hearts after experimental myocardial infarction in vivo.Vascular pharmacologyMore Details
    15831818 Novel mitogenic effect of adenosine on coronary artery smooth muscle cells: role for the A1 adenosine receptor.Circulation researchMore Details
    15709911 Antisense therapy for restenosis following percutaneous coronary intervention.Expert opinion on biological therapyMore Details
    15723685 Biology of the smooth muscle cells in human atherosclerosis."APMIS : acta pathologica, microbiologica, et immunologica Scandinavica"More Details
    15915003 Blood pressure-independent ETA and AT1 receptor blocker effects on the coronaries of rats harboring human renin and angiotensinogen genes.Kidney & blood pressure researchMore Details
    15364800 Different quantitative apoptotic traits in coronary atherosclerotic plaques from patients with stable angina pectoris and acute coronary syndromes.CirculationMore Details
    15306217 "Long-term effects of polymer-based, slow-release, sirolimus-eluting stents in a porcine coronary model."Cardiovascular researchMore Details
    15528935 "Pathogen burden, inflammation, proliferation and apoptosis in human in-stent restenosis. Tissue characteristics compared to primary atherosclerosis."Journal of vascular researchMore Details
    15541402 "Dominant negative insulin-like growth factor-1 receptor inhibits neointimal formation through suppression of vascular smooth muscle cell migration and proliferation, and induction of apoptosis."Biochemical and biophysical research communicationsMore Details
    15063786 Local delivery of E2F decoy oligodeoxynucleotides using ultrasound with microbubble agent (Optison) inhibits intimal hyperplasia after balloon injury in rat carotid artery model.Biochemical and biophysical research communicationsMore Details
    12659678 Preclinical evaluation of inducible nitric oxide synthase lipoplex gene therapy for inhibition of stent-induced vascular neointimal lesion formation.Human gene therapyMore Details
    12533836 "Myocytes positive for in situ markers for DNA breaks in human hearts which are hypertrophic, but neither failed nor dilated: a manifestation of cardiac hypertrophy rather than failure."The Journal of pathologyMore Details
    10720843 Contribution of proliferating leukocytes to phenotypic change in smooth muscle cells during the development of coronary arteriosclerosis in transplanted hearts.European surgical research. Europaische chirurgische Forschung. RecherchesMore Details

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



    PPI interactions

    There were totally 193 unique genes interacted with PCNA. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    GADD45A Two-hybrid7973727|10973963|7973727|10828065|10828065,7973727,7478510 No
    XRCC1 Affinity Capture-Western15107487|15107487|20227374 CHD related
    FEN1 Reconstituted Complex12853968|9545252|9305916|8876181|11313979|17115032|15576034|15576034|22592530|22556262 No
    WRN Affinity Capture-Western12633936|10871373|12750383 CHD related
    DNMT1 Affinity Capture-Western10888872|9302295|20613874|9302295,12354094 No
    HDAC1 Affinity Capture-Western11929879|14988403 CHD related
    POLDIP2 Two-hybrid12522211 No
    RFC2 Reconstituted Complex9228079|8093561|12171929 No
    RFC4 Reconstituted Complex9228079|12171929|12171929|22939629|10051561,12171929 No
    RFC5 Reconstituted Complex9228079|12171929 No
    PCNA Co-purification9545252|15805117|15805117|8861913,7673244 CHD related
    CDC6 Two-hybrid9566895 No
    MCL1 Affinity Capture-Western10978339|10978339|10978339 No
    POLD2 Reconstituted Complex11986310|11328591 No
    APEX1 Reconstituted Complex11601988|11601988,10559261 CHD related
    CHTF18 Affinity Capture-MS12171929|12171929 No
    POLE Affinity Capture-MS12171929|20227374 No
    POLD1 Affinity Capture-MS12171929|15805117|14988403|20227374|11328591|11328591|12171929,12403614 No
    PRKDC Affinity Capture-MS12171929 No
    RUVBL2 Affinity Capture-MS12171929 No
    MYBBP1A Affinity Capture-MS12171929 No
    XRCC6 Affinity Capture-MS12171929|12171929|11239001|11239001,12171929 No
    ANXA2 Affinity Capture-MS12171929|12171929|20849852 No
    MSH2 Affinity Capture-MS12171929|12171929,8858149 No
    RPA1 Affinity Capture-MS12171929|20227374|11254741 CHD related
    LIG1 Affinity Capture-MS12171929|12171929,10559261 No
    UBC Affinity Capture-Western18719106|18316726|18284681|17395554|16226749|20064529|20227374|20305653|22203964|21690293|22592530|22692198|15149598 No
    KIAA0101 Two-hybrid11313979|16288740 No
    Polk Reconstituted Complex18162470|18162470 No
    ING2 Affinity Capture-Western19730436 No
    EGFR Affinity Capture-Western17115032 CHD related
    DDX11 Affinity Capture-Western18499658 No
    CHEK1 Affinity Capture-Western18448427 No
    BAZ1B Reconstituted Complex15543136 No
    MBD1 Affinity Capture-Western15327775 No
    SETDB1 Affinity Capture-Western15327775 No
    POLB Affinity Capture-Western14988403 No
    FANCL Affinity Capture-Western20937699 No
    FANCA Affinity Capture-Western20937699 No
    FANCE Affinity Capture-Western20937699 No
    ATAD5 Reconstituted Complex20147293|20147293 No
    FANCD2 Affinity Capture-Western19704162 No
    SUMO1 Co-crystal Structure21167178 No
    MDM2 Affinity Capture-Western20733054 CHD related
    GAPDH Affinity Capture-MS20849852|20849852 No
    ALDOA Affinity Capture-MS20849852|20849852 No
    ENO1 Affinity Capture-MS20849852|20849852 CHD related
    SPAG1 Affinity Capture-MS20849852 No
    PGK1 Affinity Capture-MS20849852|20849852 No
    PGAM1 Affinity Capture-MS20849852|20849852 No
    RPSA Affinity Capture-MS20849852 No
    CA2 Affinity Capture-MS20849852 No
    PRDX6 Affinity Capture-MS20849852 No
    MDH2 Affinity Capture-MS20849852 CHD related
    KRT7 Affinity Capture-MS20849852 No
    PPIA Affinity Capture-MS20849852 CHD related
    EEF1A1 Affinity Capture-MS20849852 No
    GCK Reconstituted Complex20849852 CHD related
    GPI Reconstituted Complex20849852 No
    PFKM Reconstituted Complex20849852 No
    TPI1 Reconstituted Complex20849852 No
    PKLR Reconstituted Complex20849852 No
    LDHA Reconstituted Complex20849852 CHD related
    RPA2 Affinity Capture-Western11254741 No
    RPA3 Affinity Capture-Western11254741 No
    DHX9 Affinity Capture-Western11254741 No
    CDK5 Affinity Capture-Western11254741|7949095 No
    TOP1 Affinity Capture-Western11254741 No
    RAD9A Affinity Capture-Western12400013 No
    EXO1 Co-localization14676842 No
    DTL Affinity Capture-Western21725088 No
    REV1 Affinity Capture-Western21690293|21690293 No
    POLI Co-crystal Structure18931444|15342632|15342632|11724965 No
    DCLRE1A Affinity Capture-Western20385554 No
    FOXO3 Affinity Capture-Western22451935 CHD related
    CDK1 in vitro7949095 CHD related
    UNG in vitro10393198,12171929 No
    HUS1 Two-hybrid11077446|11077446|11077446 No
    CDKN1A Two-hybrid16189514|12930846|9465025|8861913|11313979|17588519|16474839|16082198|18086887|20606006|11559705|20605778|22383522 CHD related
    GADD45G Reconstituted Complex11022036|11022036|10455148|11022036,10455148 No
    Gadd45b Reconstituted Complex10828065|10828065|10828065 No
    PARP1 Affinity Capture-Western12930846|20303835|20303835|20302655 CHD related
    CCNA2 Affinity Capture-Western12853968 CHD related
    RFC3 Affinity Capture-Western12766176 No
    EP300 Affinity Capture-Western11268218|11268218|12937166|12937166|18263614|18263614|11268218 CHD related
    CDK4 Affinity Capture-Western8259215|8101826 CHD related
    CCNO Reconstituted Complex10393198|10393198,12171929 No
    RFC1 Affinity Capture-Western12192049|8861969|8999859 No
    POLH Two-hybrid11585903|11585903|20159558|20159558|20159558|16763556|22989887|23042605|11585903,16763556 No
    CDKN1C Two-hybrid9465025|9465025|9465025|9465025 No
    KCTD13 Reconstituted Complex11593007|11593007 No
    POLD3 Reconstituted Complex11595739|16000169|16763556|11595739,12171929,10219083,16763556 No
    ERCC5 Reconstituted Complex9305916 No
    POLL Reconstituted Complex11784855|12081642|12368291,12081642,11784855,16174846 No
    XRCC5 Affinity Capture-Western12393188|12171929,12393188 No
    CCND1 Reconstituted Complex7908906|8101826|7903056 CHD related
    CCND3 Reconstituted Complex7908906 No
    APEX2 Affinity Capture-Western11376153|11376153|11376153 No
    YBX1 Reconstituted Complex9927044|9927044 CHD related
    CDC25C Two-hybrid11896603 No
    MSH3 Far Western11274057|11274057|11005803|11274057,11005803,12171929 No
    MSH6 Far Western11274057|11274057|11005803|22232658|22939629|11005803,12171929,11274057 No
    ING1 Co-fractionation11682605|11682605|16288740|11682605,12015309 No
    DNTT Two-hybrid11554927|11554927|11554927|11554927 No
    CHAF1A Reconstituted Complex10648606|19822659|16826239|16826239|21209461|21209461|10648606,16826239 No
    MUTYH Affinity Capture-Western11092888|11092888|11092888 No
    CDK2 Affinity Capture-Western10930425|7903056|21319273 No
    SMARCA4 Co-fractionation9443979 No
    OTUB1 Affinity Capture-MS18954305 No
    CLSPN Affinity Capture-Western18451105 No
    TIMELESS Affinity Capture-Western18451105 No
    HLTF Affinity Capture-Western18316726 No
    CDT1 Affinity Capture-MS18162579|18162579|18162579|16407242|16362051|16482215|16407252,16482215 No
    PMS2 Affinity Capture-MS17148452 No
    DDB1 Affinity Capture-MS16964240 No
    CUL4A Affinity Capture-MS16964240|16861890 No
    AIRE Affinity Capture-MS20085707 No
    Poli Reconstituted Complex16357261|16357261 No
    DMAP1 Affinity Capture-Western19845771 No
    ELP3 Affinity Capture-Western19834596 No
    MGMT Affinity Capture-Western16226712 No
    SETD8 Affinity Capture-Western18319261|18319261|18166648|21035370|21035370|22556262|22556262 No
    RAD18 Biochemical Activity20675655|21858012|20600238|20064529|15359278|15359278|15359278|17720710|17720710|21227930|21967848|17108083|18245774 No
    FAN1 Affinity Capture-MS20603015 No
    IL17RB Biochemical Activity20129063 No
    CCL2 Affinity Capture-Western21383955 CHD related
    SETMAR Affinity Capture-Western20457750 No
    POLN Affinity Capture-Western19995904 No
    WDR48 Reconstituted Complex18082604 No
    USP1 Biochemical Activity16531995|22989887|22987070 No
    ERCC6 Affinity Capture-Western20541997 No
    MAPK15 Affinity Capture-Western20733054 No
    UBE2B Biochemical Activity20064529|15359278 No
    RYK Affinity Capture-MS21875946 No
    L3MBTL1 Affinity Capture-Western21149733 No
    POLK Affinity Capture-Western20227374|22157819 No
    MME Affinity Capture-MS17342744 No
    HDAC5 Affinity Capture-MS21081666 No
    KAT5 Affinity Capture-Western21045206 No
    UHRF2 Far Western21952639 No
    CDKN2A Affinity Capture-MS17955473|17955473 CHD related
    HUWE1 Biochemical Activity22203964 No
    PIDD Affinity Capture-MS21415862|21415862 No
    ABL1 Affinity Capture-Western22238610 No
    RAD21 Affinity Capture-MS22145905 No
    SMARCAD1 Reconstituted Complex21549307|21549307 No
    E2F3 Affinity Capture-Western22157815 No
    CCNB1 Affinity Capture-Western7903056 No
    KDM5C Affinity Capture-Western21996408 No
    POLR2A Affinity Capture-Western21880767 No
    C1orf124 Co-localization22681887|22681887|22902628|22902628|22894931|23042607|23042607|22987070|23042605|23042605|22987070 No
    CBX1 PCA22617335 No
    HIST2H3C Affinity Capture-Western22387026 No
    RNF8 Biochemical Activity18948756|18948756 No
    SIRT1 Biochemical Activity22318606|22318606 CHD related
    UBE2A Biochemical Activity17108083 No
    APC Affinity Capture-Western21664290 No
    fen1-A Affinity Capture-Western19595719 No
    TP53 Affinity Capture-Western16861890 CHD related
    CUL4B Affinity Capture-Western16861890 No
    PPP1CC Affinity Capture-Western17274640 No
    PARK2 Affinity Capture-Western19285961 No
    TFAP4 Affinity Capture-MS19505873|19505873 No
    CUL3 Affinity Capture-MS21145461 No
    CUL5 Affinity Capture-MS21145461 No
    CUL2 Affinity Capture-MS21145461 No
    CUL1 Affinity Capture-MS21145461 No
    Rev1 Reconstituted Complex16982685 No
    SLX4 Affinity Capture-MS22902628 No
    TNFAIP1 Affinity Capture-Western19851886|19851886 No
    UBE2D3 Biochemical Activity22989887 No
    KCTD10 Affinity Capture-Western19125419 No
    RBBP8 Reconstituted Complex19342888|19342888|19342888|19342888 No
    SHPRH Biochemical Activity17108083 No
    UBD Affinity Capture-MS22797925 No
    POLA1 Co-fractionation22939629 No
    NHP2L1 Co-fractionation22939629 No
    LAMP2 Co-fractionation22939629 CHD related
    CHAF1B Co-fractionation22939629 No
    BABAM1 Co-fractionation22939629 No
    HSP90B1 Co-fractionation22939629 No
    PTMA in vitro11310559 No
    SUB1 yeast 2-hybrid11313979 No
    CDK6 in vivo9667749 No
    DNTTIP2 in vitro12786946 No
    DSCC1 in vivo12766176 No
    POLM in vitro11724965 No
    CHTF8 in vivo12766176 No
    TCOF1 in vitro12171929 No
    POLD4 in vitro;yeast 2-hybrid16510448 No
    SEC23IP in vitro16510448 No
    UBB in vivo15149598 No
    PPP1CA in vitro;in vivo17274640 No


    Involved FDA drugs

    There was no drug associated with PCNA