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: CFD

    Description: complement factor D (adipsin)

    Entrez Gene ID: 1675

    SwissProt Acc Number: P00746

    RefSeq: NM_001928

    It was supported literatures to be a novel CHD related gene:

    .."Here we consider three potential pathways linking complement activation to progression of atherosclerosis: (1) complement activation on artificial surfaces depends on their physicochemical characteristics, the effect of which is amplified because of the accumulation of complement factor D;"..

    From PMID: 11169025, in Journal Kidney Int Suppl. , 2001


    References

    There were 22 potential papers with CFD and CHD.

    PMIDTitleJournalsDetails
    23453845 Hemodynamic impacts of various types of stenosis in the left coronary artery bifurcation: a patient-specific analysis.Physica medica : PM : an international journal devoted to the applications ofMore Details
    22704601 Evaluation of functional severity of coronary artery disease and fluid dynamics' influence on hemodynamic parameters: A review.Physica medica : PM : an international journal devoted to the applications ofMore Details
    23676893 Computational fluid dynamic simulations of image-based stented coronary bifurcation models."Journal of the Royal Society, Interface / the Royal Society"More Details
    24110575 Area stenosis associated with non-invasive fractional flow reserve obtained from coronary CT images.Conference proceedings : ... Annual International Conference of the IEEEMore Details
    21369918 Viscous flow simulation in a stenosis model using discrete particle dynamics: a comparison between DPD and CFD.Biomechanics and modeling in mechanobiologyMore Details
    22108921 Avoiding the clamp during off-pump coronary artery bypass reduces cerebral embolic events: results of a prospective randomized trial.Interactive cardiovascular and thoracic surgeryMore Details
    22032711 Diagnosis of ischemia-causing coronary stenoses by noninvasive fractional flow reserve computed from coronary computed tomographic angiograms. Results from the prospective multicenter DISCOVER-FLOW (Diagnosis of Ischemia-Causing Stenoses Obtained Via Noninvasive Fractional Flow Reserve) study.Journal of the American College of CardiologyMore Details
    20150685 Vortex formation and recirculation zones in left anterior descending artery stenoses: computational fluid dynamics analysis.Physics in medicine and biologyMore Details
    20162466 Patient-specific computational fluid dynamics: structured mesh generation from coronary angiography.Medical & biological engineering & computingMore Details
    20211464 Predicting neointimal hyperplasia in stented arteries using time-dependant computational fluid dynamics: a review.Computers in biology and medicineMore Details
    19688262 Boundary conditions in simulation of stenosed coronary arteries."Cardiovascular engineering (Dordrecht, Netherlands)"More Details
    19964091 3D numerical simulation of coronary blood flow and its effect on endothelial cell activation.Conference proceedings : ... Annual International Conference of the IEEEMore Details
    19164062 Assessment of the effects of increasing levels of physiological realism in the computational fluid dynamics analyses of implanted coronary stents.Conference proceedings : ... Annual International Conference of the IEEEMore Details
    17905256 Numerical modelling of simulated blood flow in idealized composite arterial coronary grafts: transient flow.Journal of biomechanicsMore Details
    17061068 In-vivo flow simulation in coronary arteries based on computed tomography datasets: feasibility and initial results.European radiologyMore Details
    17286206 DPIV prediction of flow induced platelet activation-comparison to numerical predictions.Annals of biomedical engineeringMore Details
    17897460 Flow and wall shear stress in end-to-side and side-to-side anastomosis of venous coronary artery bypass grafts.Biomedical engineering onlineMore Details
    16828103 Numerical modeling of simulated blood flow in idealized composite arterial coronary grafts: steady state simulations.Journal of biomechanicsMore Details
    16774680 In-vivo coronary flow profiling based on biplane angiograms: influence of geometric simplifications on the three-dimensional reconstruction and wall shear stress calculation.Biomedical engineering onlineMore Details
    17945604 Calculation of wall shear stress in left coronary artery bifurcation for pulsatile flow using two-dimensional computational fluid dynamics.Conference proceedings : ... Annual International Conference of the IEEEMore Details
    15922767 Geometry guided data averaging enables the interpretation of shear stress related plaque development in human coronary arteries.Journal of biomechanicsMore Details
    15745458 Computational model of blood flow in the aorto-coronary bypass graft.Biomedical engineering onlineMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with CFD. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CFD in vitro2023254,8289289 CHD related
    HDHD2 yeast 2-hybrid16169070 No
    SERPINF2 Reconstituted Complex12080056|12080056 CHD related
    UBC Affinity Capture-MS21890473|21906983 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB03058Isatoic Anhydride
    experimentalDB04459"3,4-Dichloroisocoumarin"