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: CX3CL1

    Description: chemokine (C-X3-C motif) ligand 1

    Entrez Gene ID: 6376

    SwissProt Acc Number: P78423

    RefSeq: NM_002996

    It was suspected to be CHD related:

    .."The CX3CR1 gene encodes the fractalkine (CX3CL1) receptor and has two coding single-nucleotide polymorphisms, V249I and T280M, linked to a lower risk of other inflammatory diseases such as coronary artery disease (CAD) and asthma."..

    From PMID: 20523302, in Journal Obesity (Silver Spring) , 2011


    References

    There were 9 potential papers with CX3CL1 and CHD.

    PMIDTitleJournalsDetails
    22313962 A role for cytomegalovirus-specific CD4+CX3CR1+ T cells and cytomegalovirus-induced T-cell immunopathology in HIV-associated atherosclerosis."AIDS (London, England)"More Details
    20523302 Association of common polymorphisms in the fractalkine receptor (CX3CR1) with obesity."Obesity (Silver Spring, Md.)"More Details
    19587779 "Search for an association between V249I and T280M CX3CR1 genetic polymorphisms, endothelial injury and preeclampsia: the ECLAXIR study."PloS oneMore Details
    17456471 Atherogenic lipids induce adhesion of human coronary artery smooth muscle cells to macrophages by up-regulating chemokine CX3CL1 on smooth muscle cells in a TNFalpha-NFkappaB-dependent manner.The Journal of biological chemistryMore Details
    16809547 CX3CR1 deficiency confers protection from intimal hyperplasia after arterial injury."Arteriosclerosis, thrombosis, and vascular biology"More Details
    16224053 "Expression of fractalkine (CX3CL1) and its receptor, CX3CR1, is elevated in coronary artery disease and is reduced during statin therapy.""Arteriosclerosis, thrombosis, and vascular biology"More Details
    12969992 Fractalkine in vascular biology: from basic research to clinical disease."Arteriosclerosis, thrombosis, and vascular biology"More Details
    14581400 Smooth muscle cells in human atherosclerotic plaques express the fractalkine receptor CX3CR1 and undergo chemotaxis to the CX3C chemokine fractalkine (CX3CL1).CirculationMore Details
    12697743 Chemokine receptor mutant CX3CR1-M280 has impaired adhesive function and correlates with protection from cardiovascular disease in humans.The Journal of clinical investigationMore Details

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



    PPI interactions

    There were totally 2 unique genes interacted with CX3CL1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CX3CR1 Co-crystal Structure9931005|9931005,9390561 CHD related
    CX3CL1 Co-crystal Structure10770945|10770945 CHD related


    Involved FDA drugs

    There was no drug associated with CX3CL1