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: F7

    Description: coagulation factor VII (serum prothrombin conversion accelerator)

    Entrez Gene ID: 2155

    SwissProt Acc Number: P08709

    RefSeq: NM_000131

    It was suspected to be CHD related:

    ..Factor VII (FVII) is an independent risk factor for coronary artery disease...

    From PMID: 17044869, in Journal Ann Hum Genet , 2006


    References

    There were 6 potential papers with F7 and CHD.

    PMIDTitleJournalsDetails
    24267260 Quantitative and qualitative pleiotropic differences between Simvastatin single and Vytorin combination therapy in hypercholesterolemic subjects.AtherosclerosisMore Details
    22315437 Promoter methylation in coagulation F7 gene influences plasma FVII concentrations and relates to coronary artery disease.Journal of medical geneticsMore Details
    22703881 "Genetic associations for activated partial thromboplastin time and prothrombin time, their gene expression profiles, and risk of coronary artery disease."American journal of human geneticsMore Details
    20735728 "Haplotype and genotype effects of the F7 gene on circulating factor VII, coagulation activation markers and incident coronary heart disease in UK men."Journal of thrombosis and haemostasis : JTHMore Details
    19336475 Integrated associations of genotypes with multiple blood biomarkers linked to coronary heart disease risk.Human molecular geneticsMore Details
    17044869 "The effects of three factor VII polymorphisms on factor VII coagulant levels in healthy Singaporean Chinese, Malay and Indian newborns."Annals of human geneticsMore Details

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



    PPI interactions

    There were totally 10 unique genes interacted with F7. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    F7 in vitro8598903,10430872,9925787,10544046,11470437 CHD related
    F3 Reconstituted Complex12787023 CHD related
    F10 Biochemical Activity11560488|11560488 No
    USP49 Affinity Capture-MS19615732 No
    UIMC1 Affinity Capture-MS19615732 No
    DMWD Affinity Capture-MS19615732 No
    F9 in vitro2248955 No
    ALB in vivo15174051 CHD related
    GGCX in vitro8647260 No
    HPN in vitro7814421 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00036Coagulation factor VIIaFor treatment of hemorrhagic complications in hemophilia A and B
    approvedDB00100Coagulation Factor IXFor treatment of hemophilia (Christmas disease).B02BD04
    approved;nutraceuticalDB00170Menadione"The primary known function of vitamin K is to assist in the normal clotting of blood, but it may also play a role in normal bone calcification."B02BA02
    experimentalDB04590(2R)-({4-[AMINO(IMINO)METHYL]PHENYL}AMINO){5-ETHOXY-2-FLUORO-3-[(3R)-TETRAHYDROFURAN-3-YLOXY]PHENYL}ACETICACID
    experimentalDB045933-({1-[3-CARBAMIMIDOYL-1-(4-CARBAMIMIDOYL-BENZYLCARBAMOYL)-PROPYLCARBAMOYL]-2-METHYL-BUTYLSULFAMOYL}-METHYL)-BENZOIC ACID
    experimentalDB046062-[2-ETHANESULFONYLAMINO-3-(5-PROPOXY-1H-INDOL-3-YL)-PROPIONYLAMINO]-PENTANEDIOIC ACID 5-AMIDE 1-(4-CARBAMIMIDOYL-BENZYLAMIDE)
    experimentalDB047582-[2-ETHANESULFONYLAMINO-3-(1H-INDOL-3-YL)-PROPIONYLAMINO]-PENTANEDIOIC ACID 5-AMIDE 1-(4-CARBAMIM IDOYL-BENZYLAMIDE)
    experimentalDB04767N-[1-(4-CARBAMIMIDOYL-BENZYLCARBAMOYL)-3-METHYLSULFANYL-PROPYL]-3-HYDROXY-2-PROPOXYAMINO-BUTYRAMID
    experimentalDB072072-(4-HYDROXY-5-PHENYL-1H-PYRAZOL-3-YL)-1H-BENZOIMIDAZOLE-5-CARBOXAMIDINE
    experimentalDB07247"[2'-HYDROXY-3'-(1H-PYRROLO[3,2-C]PYRIDIN-2-YL)-BIPHENYL-3-YLMETHYL]-UREA"
    experimentalDB073765-(DIMETHYLAMINO)-1-NAPHTHALENESULFONIC ACID(DANSYL ACID)
    experimentalDB08232"{5-(5-AMINO-1H-PYRROLO[3,2-B]PYRIDIN-2-YL)-6-HYDROXY-3'-NITRO-BIPHENYL-3-YL]-ACETIC ACID"