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.

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  • 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.

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  • 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: ABCC6

    Description: "ATP-binding cassette, sub-family C (CFTR/MRP), member 6"

    Entrez Gene ID: 368

    SwissProt Acc Number: O95255

    RefSeq: NM_001079528

    It was suspected to be CHD related:

    ..The R1141X loss-of-function mutation of the ABCC6 gene is a strong genetic risk factor for coronary artery disease...

    From PMID: 19929409, in Journal Genet Test Mol Biomarkers. , 2010


    References

    There were 13 potential papers with ABCC6 and CHD.

    PMIDTitleJournalsDetails
    23807484 Atorvastatin counteracts aberrant soft tissue mineralization in a mouse model of pseudoxanthoma elasticum (Abcc6(-)/(-))."Journal of molecular medicine (Berlin, Germany)"More Details
    23935882 Pseudoxanthoma elasticum: cardiac findings in patients and Abcc6-deficient mouse model.PloS oneMore Details
    23408347 The vascular phenotype in Pseudoxanthoma elasticum and related disorders: contribution of a genetic disease to the understanding of vascular calcification.Frontiers in geneticsMore Details
    21210805 Pseudoxanthoma elasticum and sudden death.Journal of forensic sciencesMore Details
    20018285 Pseudoxanthoma elasticum and familial hypercholesterolemia: a deleterious combination of cardiovascular risk factors.AtherosclerosisMore Details
    19929409 The R1141X loss-of-function mutation of the ABCC6 gene is a strong genetic risk factor for coronary artery disease.Genetic testing and molecular biomarkersMore Details
    20855565 Common genetic variation in multiple metabolic pathways influences susceptibility to low HDL-cholesterol and coronary heart disease.Journal of lipid researchMore Details
    19298904 "Pseudoxanthoma elasticum: genetics, clinical manifestations and therapeutic approaches."Survey of ophthalmologyMore Details
    16854481 Acute myocardial infarction and a new ABCC6 mutation in a 16-year-old boy with pseudoxanthoma elasticum.International journal of cardiologyMore Details
    16763870 [Pseudoxanthoma elasticum].Der Ophthalmologe : Zeitschrift der Deutschen Ophthalmologischen GesellschaftMore Details
    15837081 Patients with premature coronary artery disease who carry the ABCC6 R1141X mutation have no Pseudoxanthoma Elasticum phenotype.International journal of cardiologyMore Details
    15367534 Intravascular ultrasound findings of coronary wall morphology in a patient with pseudoxanthoma elasticum.Heart (British Cardiac Society)More Details
    14631379 Assessment of a rapid-cycle PCR assay for the identification of the recurrent c.3421C>T mutation in the ABCC6 gene in pseudoxanthoma elasticum patients.Laboratory investigation; a journal of technical methods and pathologyMore Details

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



    PPI interactions

    There was NO PPI interaction information about ABCC6



    Involved FDA drugs

    There was no drug associated with ABCC6