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: F2

    Description: coagulation factor II (thrombin)

    Entrez Gene ID: 2147

    SwissProt Acc Number: P00734

    RefSeq: NM_000506

    It was suspected to be CHD related:

    ..F2R genetic variants may influence the natural history of CHD in patients at high risk of cardiovascular events...

    From PMID: 17347481, in Journal Arterioscler Thromb Vasc Biol , 2007


    References

    There were 10 potential papers with F2 and CHD.

    PMIDTitleJournalsDetails
    22388798 Gene panels to help identify subgroups at high and low risk of coronary heart disease among those randomized to antihypertensive treatment: the GenHAT study.Pharmacogenetics and genomicsMore Details
    22498810 Using bioinformatics and systems genetics to dissect HDL-cholesterol genetics in an MRL/MpJ x SM/J intercross.Journal of lipid researchMore Details
    21037482 The effects of a cardiac rehabilitation program tailored for women on their perceptions of health: a randomized clinical trial.Journal of cardiopulmonary rehabilitation and preventionMore Details
    20626623 The association of factor V Leiden with myocardial infarction is replicated in 1880 patients with premature disease.Journal of thrombosis and haemostasis : JTHMore Details
    19422815 "Rapid triplex asymmetric real-time PCR hybridization probe assay for the joint genotyping of F2, F5 and F12."Clinical biochemistryMore Details
    17683517 The Mediterranean paradox for susceptibility factors in coronary heart disease extends to genetics.Annals of human geneticsMore Details
    17245365 Sildenafil reduces L-NAME-induced severe hypertension and worsening of myocardial ischaemia-reperfusion damage in the rat.British journal of pharmacologyMore Details
    17901562 Potentially reduced exposure cigarettes accelerate atherosclerosis: evidence for the role of nicotine.Cardiovascular toxicologyMore Details
    12529249 Effects of peroxynitrite on sarcoplasmic reticulum Ca2+ pump in pig coronary artery smooth muscle.American journal of physiology. Cell physiologyMore Details
    14557872 Evidence for substantial effect modification by gender in a large-scale genetic association study of the metabolic syndrome among coronary heart disease patients.Human geneticsMore Details

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



    PPI interactions

    There were totally 41 unique genes interacted with F2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SERPINE1 Reconstituted Complex12709053|10543954 CHD related
    FGA Co-crystal Structure1587268|2133223,1587268,2742826 CHD related
    SERPIND1 Co-crystal Structure12169660|2760054 CHD related
    CPB2 Reconstituted Complex8663147|10777524 CHD related
    THBD Reconstituted Complex8663147 CHD related
    F5 Reconstituted Complex9032460 CHD related
    SERPING1 Reconstituted Complex11460008 No
    SERPINC1 in vitro3800906,11927130,7238875 No
    PROC in vitro2544585 CHD related
    AMBP in vivo9183005 No
    PROS1 in vitro12490286 CHD related
    F2R in vivo10644723,12563219,9058715,10978167 CHD related
    AANAT in vitro11427721 No
    AKR7A2 in vitro;in vivo9576847 No
    HGFAC in vitro8226803 No
    ST13 in vitro11687574 No
    SPP1 in vivo11375993 CHD related
    PROZ in vitro2040612,1872862 No
    PLAU in vivo10996659,8428004 CHD related
    F2 in vitro8071320 CHD related
    F2RL1 in vitro10978167 No
    F13A1 in vitro9546612 CHD related
    ITGA2B Reconstituted Complex11487023|11487023 CHD related
    PLAT Co-crystal Structure10543954 CHD related
    SERPINB6 Reconstituted Complex8415716 No
    THBS1 Reconstituted Complex2435757|2435757 CHD related
    SERPINE2 in vitro12106474 No
    C6 in vitro3192535 No
    KNG1 in vitro1652157 No
    GP1BA in vitro2933256,11024046 CHD related
    F9 in vitro15039440 No
    SERPINB8 in vitro9402754 No
    SERPINA5 in vitro12878585 No
    F2RL2 in vitro12732212 No
    F2RL3 in vitro12732212 CHD related
    F11 in vitro1652157 No
    IGFBP3 in vitro;in vivo8843739,7538844 CHD related
    GP5 in vitro9129030 No
    IGFBP5 in vitro9528953,9883900 CHD related
    F8 in vitro10350471 No
    GGCX in vitro3944102,10556651 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00001LepirudinFor the treatment of heparin-induced thrombocytopeniaB01AE02
    approvedDB00006BivalirudinB01AE06
    approvedDB00055Drotrecogin alfaFor reduction of mortality in patients with severe sepsis.B01AD10
    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
    approvedDB00278Argatroban"Argatroban is indicated for prevention and treatment of thrombosis caused by heparin induced thrombocytopenia (HIT). It is also indicated for use in patients with, or at risk for, HIT who are undergoing percutaneous coronary intervention."B01AE03
    approvedDB01123ProflavineTopical antiseptic used mainly in wound dressings.D08AA02
    experimentalDB01766Beta-(2-Naphthyl)-Alanine
    experimentalDB01767Hemi-Babim
    experimentalDB021932-(2-Hydroxy-Phenyl)-1h-Benzoimidazole-5-Carboxamidine
    experimentalDB02351Hirulog
    experimentalDB02723"4-Oxo-2-Phenylmethanesulfonyl-Octahydro-Pyrrolo[1,2-a]Pyrazine-6-Carboxylic Acid [1-(N-Hydroxycarbamimidoyl)-Piperidin-4-Ylmethyl]-Amide"
    experimentalDB031364-Iodobenzo[B]Thiophene-2-Carboxamidine
    experimentalDB03159CRA_8696
    experimentalDB03847Gamma-Carboxy-Glutamic Acid
    experimentalDB038656-Chloro-2-(2-Hydroxy-Biphenyl-3-Yl)-1h-Indole-5-Carboxamidine
    experimentalDB04136Lysophosphotidylserine
    experimentalDB04591"N-{2,2-DIFLUORO-2-[(2R)-PIPERIDIN-2-YL]ETHYL}-2-[2-(1H-1,2,4-TRIAZOL-1-YL)BENZYL][1,3]OXAZOLO[4,5-C]PYRIDIN-4-AMINE"
    experimentalDB04697TRANS-4-(GUANIDINOMETHYL)-CYCLOHEXANE-L-YL-D-3-CYCLOHEXYLALANYL-L-AZETIDINE-2-YL-D-TYROSINYL-L-HOMOARGININAMIDE
    experimentalDB04722"2-(3-CHLORO-6-{[2,2-DIFLUORO-2-(1-OXIDOPYRIDIN-2-YL)ETHYL]AMINO}-1-OXIDOPYRIDIN-2-YL)-N-[1-(3-CHLOROPHENYL)ETHYL]ACETAMIDE"
    experimentalDB047711-GUANIDINO-4-(N-NITRO-BENZOYLAMINO-L-LEUCYL-L-PROLYLAMINO)BUTANE
    experimentalDB047721-GUANIDINO-4-(N-PHENYLMETHANESULFONYL-L-LEUCYL-L-PROLYLAMINO)BUTANE
    approvedDB04786Suramin"For treatment of human sleeping sickness, onchocerciasis and other diseases caused by trypanosomes and worms."P01CX02
    approved;withdrawnDB04898XimelagatranFor the treatment of acute deep vein thrombosis.B01AE05
    approvedDB06695Dabigatran etexilate"Dabigatran is indicated for the prevention of venous thromboembolic events in patients who have undergone elective hip or knee replacement surgery (based on RE-NOVATE, RE-MODEL, and RE-MOBILIZE trials). In 2010, it was approved in the US and Canada for prevention of stroke and systemic embolism in patients with atrial fibrillation (approval based on the RE-LY trial). Contraindications: severe renal impairment (CrCL < 30 ml/min); haemorrhagic manifestations, bleeding diathesis or spontaneous or pharmacologic impairment of haemostasis; lesions at risk of clinically significant bleeding (e.g. extensive cerebral infarction (haemorrhagic or ischemic) in the last 6 months, active peptic ulcer disease); concomitant treatment with P-glycoprotein inhibitors (e.g. oral ketoconazole, verapamil); and those with known hypersensitivity to dabigatran, dabigatran etexilate or any ingredient used in the formulation or component of the container. "B01AE07
    experimentalDB06838methyl L-phenylalaninate
    experimentalDB06841D-phenylalanyl-N-[(1S)-4-{[amino(iminio)methyl]amino}-1-(chloroacetyl)butyl]-L-prolinamide
    experimentalDB06845(S)-N-(4-carbamimidoylbenzyl)-1-(2-(cyclopentylamino)ethanoyl)pyrrolidine-2-carboxamide
    experimentalDB06850(S)-N-(4-carbamimidoylbenzyl)-1-(2-(cyclohexylamino)ethanoyl)pyrrolidine-2-carboxamide
    experimentalDB06853N-cycloheptylglycyl-N-(4-carbamimidoylbenzyl)-L-prolinamide
    experimentalDB068542-(2-HYDROXY-BIPHENYL)-1H-BENZOIMIDAZOLE-5-CARBOXAMIDINE
    experimentalDB06858N-cyclooctylglycyl-N-(4-carbamimidoylbenzyl)-L-prolinamide
    experimentalDB06859N-ALLYL-5-AMIDINOAMINOOXY-PROPYLOXY-3-CHLORO-N-CYCLOPENTYLBENZAMIDE
    experimentalDB068616-(2-HYDROXY-CYCLOPENTYL)-7-OXO-HEPTANAMIDINE
    experimentalDB068656-CARBAMIMIDOYL-2-[2-HYDROXY-6-(4-HYDROXY-PHENYL)-INDAN-1-YL]-HEXANOIC ACID
    experimentalDB068666-CARBAMIMIDOYL-2-[2-HYDROXY-5-(3-METHOXY-PHENYL)-INDAN-1-YL]-HEXANOIC ACID
    experimentalDB06868N-(3-chlorobenzyl)-1-(4-methylpentanoyl)-L-prolinamide
    experimentalDB068691-[2-AMINO-2-CYCLOHEXYL-ACETYL]-PYRROLIDINE-3-CARBOXYLIC ACID 5-CHLORO-2-(2-ETHYLCARBAMOYL-ETHOXY)-BENZYLAMIDE
    experimentalDB068781-[(2R)-2-aminobutanoyl]-N-(3-chlorobenzyl)-L-prolinamide
    experimentalDB06911D-leucyl-N-(3-chlorobenzyl)-L-prolinamide
    experimentalDB06919D-phenylalanyl-N-(3-chlorobenzyl)-L-prolinamide
    experimentalDB069291-butanoyl-N-(4-carbamimidoylbenzyl)-L-prolinamide
    experimentalDB06936N-(4-carbamimidoylbenzyl)-1-(4-methylpentanoyl)-L-prolinamide
    experimentalDB06942N-(4-carbamimidoylbenzyl)-1-(3-phenylpropanoyl)-L-prolinamide
    experimentalDB069471-[(2R)-2-aminobutanoyl]-N-(4-carbamimidoylbenzyl)-L-prolinamide
    experimentalDB06996D-leucyl-N-(4-carbamimidoylbenzyl)-L-prolinamide
    experimentalDB07005D-phenylalanyl-N-{4-[amino(iminio)methyl]benzyl}-L-prolinamide
    experimentalDB07016"(3R)-8-(dioxidosulfanyl)-3-methyl-1,2,3,4-tetrahydroquinoline"
    experimentalDB07027D-phenylalanyl-N-(3-fluorobenzyl)-L-prolinamide
    experimentalDB07083beta-phenyl-D-phenylalanyl-N-propyl-L-prolinamide
    experimentalDB07088(S)-N-(4-carbamimidoylbenzyl)-1-(2-(cyclopentyloxy)ethanoyl)pyrrolidine-2-carboxamide
    experimentalDB07091(S)-N-(4-carbamimidoylbenzyl)-1-(2-(cyclohexyloxy)ethanoyl)pyrrolidine-2-carboxamide
    experimentalDB07095(S)-N-(4-carbamimidoylbenzyl)-1-(3-cyclopentylpropanoyl)pyrrolidine-2-carboxamide
    experimentalDB071052-[2-(4-CHLORO-PHENYLSULFANYL)-ACETYLAMINO]-3-(4-GUANIDINO-PHENYL)-PROPIONAMIDE
    experimentalDB07120"N4-(N,N-DIPHENYLCARBAMOYL)-AMINOGUANIDINE"
    experimentalDB07128"N7-BUTYL-N2-(5-CHLORO-2-METHYLPHENYL)-5-METHYL[1,2,4]TRIAZOLO[1,5-A]PYRIMIDINE-2,7-DIAMINE"
    experimentalDB07131(S)-N-(4-carbamimidoylbenzyl)-1-(3-cyclohexylpropanoyl)pyrrolidine-2-carboxamide
    experimentalDB07133D-phenylalanyl-N-(3-methylbenzyl)-L-prolinamide
    experimentalDB07143D-phenylalanyl-N-benzyl-L-prolinamide
    experimentalDB07165N-(5-CHLORO-BENZO[B]THIOPHEN-3-YLMETHYL)-2-[6-CHLORO-OXO-3-(2-PYRIDIN-2-YL-ETHYLAMINO)-2H-PYRAZIN-1-YL]-ACETAMIDE
    experimentalDB071903-cyclohexyl-D-alanyl-N-(3-chlorobenzyl)-L-prolinamide
    experimentalDB07211(2R)-2-(5-CHLORO-2-THIENYL)-N-{(3S)-1-[(1S)-1-METHYL-2-MORPHOLIN-4-YL-2-OXOETHYL]-2-OXOPYRROLIDIN-3-YL}PROPENE-1-SULFONAMIDE
    experimentalDB072772-(5-CHLORO-2-THIENYL)-N-{(3S)-1-[(1S)-1-METHYL-2-MORPHOLIN-4-YL-2-OXOETHYL]-2-OXOPYRROLIDIN-3-YL}ETHANESULFONAMIDE
    experimentalDB072782-(5-CHLORO-2-THIENYL)-N-{(3S)-1-[(1S)-1-METHYL-2-MORPHOLIN-4-YL-2-OXOETHYL]-2-OXOPYRROLIDIN-3-YL}ETHENESULFONAMIDE
    experimentalDB07279N-ETHYL-N-ISOPROPYL-3-METHYL-5-{[(2S)-2-(PYRIDIN-4-YLAMINO)PROPYL]OXY}BENZAMIDE
    experimentalDB07353"4-(2,5-DIAMINO-5-HYDROXY-PENTYL)-PHENOL"
    experimentalDB073662-[N'-(4-AMINO-BUTYL)-HYDRAZINOCARBONYL]-PYRROLIDINE-1-CARBOXYLIC ACID BENZYL ESTER
    experimentalDB073765-(DIMETHYLAMINO)-1-NAPHTHALENESULFONIC ACID(DANSYL ACID)
    experimentalDB074001-ETHOXYCARBONYL-D-PHE-PRO-2(4-AMINOBUTYL)HYDRAZINE
    experimentalDB074404-TERT-BUTYLBENZENESULFONIC ACID
    experimentalDB07461"3-AMINO-3-BENZYL-9-CARBOXAMIDE[4.3.0]BICYCLO-1,6-DIAZANONAN-2-ONE"
    experimentalDB075084-(5-BENZENESULFONYLAMINO-1-METHYL-1H-BENZOIMIDAZOL-2-YLMETHYL)-BENZAMIDINE
    experimentalDB07515"1-(2-{[(6-AMINO-2-METHYLPYRIDIN-3-YL)METHYL]AMINO}ETHYL)-6-CHLORO-3-[(2,2-DIFLUORO-2-PYRIDIN-2-YLETHYL)AMINO]-1,4-DIHYDROPYRAZIN-2-OL"
    experimentalDB07521"6-CHLORO-1-(2-{[(5-CHLORO-1-BENZOTHIEN-3-YL)METHYL]AMINO}ETHYL)-3-[(2-PYRIDIN-2-YLETHYL)AMINO]-1,4-DIHYDROPYRAZIN-2-OL"
    experimentalDB07522"N-[(2R,3S)-3-AMINO-2-HYDROXY-4-PHENYLBUTYL]NAPHTHALENE-2-SULFONAMIDE"
    experimentalDB07527"N-[(2R,3S)-3-AMINO-2-HYDROXY-4-PHENYLBUTYL]-4-METHOXY-2,3,6-TRIMETHYLBENZENESULFONAMIDE"
    experimentalDB07548"2-(6-CHLORO-3-{[2,2-DIFLUORO-2-(2-PYRIDINYL)ETHYL]AMINO}-2-OXO-1(2H)-PYRAZINYL)-N-[(2-FLUORO-6-PYRIDINYL)METHYL]ACETAMIDE"
    experimentalDB07549"2-(6-CHLORO-3-{[2,2-DIFLUORO-2-(2-PYRIDINYL)ETHYL]AMINO}-2-OXO-1(2H)-PYRAZINYL)-N-[(2-FLUORO-3-METHYL-6-PYRIDINYL)METHYL]ACETAMIDE"
    experimentalDB07550"2-(6-CHLORO-3-{[2,2-DIFLUORO-2-(1-OXIDO-2-PYRIDINYL)ETHYL]AMINO}-2-OXO-1(2H)-PYRAZINYL)-N-[(2-FLUOROPHENYL)METHYL]ACETAMIDE"
    experimentalDB076393-(7-DIAMINOMETHYL-NAPHTHALEN-2-YL)-PROPIONIC ACID ETHYL ESTER
    experimentalDB07658AC-(D)PHE-PRO-BOROLYS-OH
    experimentalDB07659AC-(D)PHE-PRO-BOROHOMOLYS-OH
    experimentalDB07660AC-(D)PHE-PRO-BOROHOMOORNITHINE-OH
    experimentalDB07665"N-[2-(carbamimidamidooxy)ethyl]-2-{6-cyano-3-[(2,2-difluoro-2-pyridin-2-ylethyl)amino]-2-fluorophenyl}acetamide"
    experimentalDB077183-(4-HYDROXY-PHENYL)PYRUVIC ACID
    experimentalDB07741"4-(1R,3AS,4R,8AS,8BR)-[1-DIFLUOROMETHYL-2-(4-FLUOROBENZYL)-3-OXODECAHYDROPYRROLO[3,4-A]PYRROLIZIN-4-YL]BENZAMIDINE"
    experimentalDB07796"(3ASR,4RS,8ASR,8BRS)-4-(2-(4-FLUOROBENZYL)-1,3-DIOXODEACAHYDROPYRROLO[3,4-A] PYRROLIZIN-4-YL)BENZAMIDINE"
    experimentalDB078094-({[4-(3-METHYLBENZOYL)PYRIDIN-2-YL]AMINO}METHYL)BENZENECARBOXIMIDAMIDE
    experimentalDB078971-(HYDROXYMETHYLENEAMINO)-8-HYDROXY-OCTANE
    experimentalDB07934[[CYCLOHEXANESULFONYL-GLYCYL]-3[PYRIDIN-4-YL-AMINOMETHYL]ALANYL]PIPERIDINE
    experimentalDB07944N-{3-METHYL-5-[2-(PYRIDIN-4-YLAMINO)-ETHOXY]-PHENYL}-BENZENESULFONAMIDE
    experimentalDB07946"N-[2-({[amino(imino)methyl]amino}oxy)ethyl]-2-{6-chloro-3-[(2,2-difluoro-2-phenylethyl)amino]-2-fluorophenyl}acetamide"
    experimentalDB080614-[3-(4-CHLOROPHENYL)-1H-PYRAZOL-5-YL]PIPERIDINE
    experimentalDB08062"3-(4-CHLOROPHENYL)-5-(METHYLTHIO)-4H-1,2,4-TRIAZOLE"
    experimentalDB08152{(2S)-1-[N-(tert-butoxycarbonyl)glycyl]pyrrolidin-2-yl}methyl (3-chlorophenyl)acetate
    experimentalDB08187METHYL-PHE-PRO-AMINO-CYCLOHEXYLGLYCINE
    experimentalDB082542-NAPHTHALENESULFONIC ACID
    experimentalDB08422[PHENYLALANINYL-PROLINYL]-[2-(PYRIDIN-4-YLAMINO)-ETHYL]-AMINE
    experimentalDB08546"4-[(3AS,4R,7R,8AS,8BR)-2-(1,3-BENZODIOXOL-5-YLMETHYL)-7-HYDROXY-1,3-DIOXODECAHYDROPYRROLO[3,4-A]PYRROLIZIN-4-YL]BENZENECARBOXIMIDAMIDE"
    experimentalDB08624BENZOTHIAZOLE