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: CCL5

    Description: chemokine (C-C motif) ligand 5

    Entrez Gene ID: 6352

    SwissProt Acc Number: P13501

    RefSeq: NM_002985

    It was suspected to be CHD related:

    ..CC chemokine CCL5 plays a central role impacting infarct size and post-infarction heart failure in mice...

    From PMID: 21606075, in Journal Eur?Heart?J. , 2012


    References

    There were 9 potential papers with CCL5 and CHD.

    PMIDTitleJournalsDetails
    24118494 Increased pro-atherogenic monocyte-platelet crosstalk in monocyte subpopulations of patients with stable coronary artery disease.Journal of internal medicineMore Details
    23925450 Treatment with the CC chemokine-binding protein Evasin-4 improves post-infarction myocardial injury and survival in mice.Thrombosis and haemostasisMore Details
    23906684 Genetic associations with coronary heart disease: meta-analyses of 12 candidate genetic variants.GeneMore Details
    23188791 Genetic polymorphisms associated with carotid artery intima-media thickness and coronary artery calcification in women of the Kronos Early Estrogen Prevention Study.Physiological genomicsMore Details
    21606075 CC chemokine CCL5 plays a central role impacting infarct size and post-infarction heart failure in mice.European heart journalMore Details
    22162987 "RANTES/CCL5 and risk for coronary events: results from the MONICA/KORA Augsburg case-cohort, Athero-Express and CARDIoGRAM studies."PloS oneMore Details
    20702809 High-density lipoproteins suppress chemokines and chemokine receptors in vitro and in vivo."Arteriosclerosis, thrombosis, and vascular biology"More Details
    19140875 The additive contribution from inflammatory genetic markers on the severity of cardiovascular disease.Scandinavian journal of immunologyMore Details
    16424368 Interleukin 12 induces T-cell recruitment into the atherosclerotic plaque.Circulation researchMore Details

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



    PPI interactions

    There were totally 18 unique genes interacted with CCL5. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SDC1 Affinity Capture-Western14637022|14637022 CHD related
    SDC4 Affinity Capture-Western14637022 CHD related
    CCR5 Affinity Capture-Western14637022|11449371|11116158 CHD related
    IL8 Reconstituted Complex11509627 CHD related
    CCL2 Phenotypic Enhancement11350939 CHD related
    CCR1 Reconstituted Complex11449371|11116158 CHD related
    PIGR in vivo11509627 No
    GRB2 in vivo9009162 CHD related
    DARC in vitro;in vivo12081195,17416748 No
    CCL5 in vitro7542919,8576227,9889151 CHD related
    Igfbp7 Reconstituted Complex12847218 No
    CCBP2 Reconstituted Complex9405404|9405404 No
    CCR3 Reconstituted Complex8642344|9289016,8642344 CHD related
    CCR4 Reconstituted Complex8573157|12270118,8573157 CHD related
    VCAN Reconstituted Complex11083865 CHD related
    DPP4 in vitro9516414,11390394 CHD related
    CCRL1 in vitro9469451 No
    PF4 in vitro15459010 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02322Heparin Disaccharide I-S
    experimentalDB02353Heparin Disaccharide Iii-S