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: ICAM1

    Description: intercellular adhesion molecule 1

    Entrez Gene ID: 3383

    SwissProt Acc Number: P05362

    RefSeq: NM_000201

    It was suspected to be CHD related:

    .."ICAM1 variations have been associated with plasma soluble ICAM1 concentrations and inflammatory conditions, including atherosclerosis."..

    From PMID: 17962597, in Journal Stroke.? , 2007


    References

    There were 11 potential papers with ICAM1 and CHD.

    PMIDTitleJournalsDetails
    23667179 Identification of CAD candidate genes in GWAS loci and their expression in vascular cells.Journal of lipid researchMore Details
    22203486 Intercellular adhesion molecule 1 gene K469E polymorphism is associated with coronary heart disease risk: a meta-analysis involving 12 studies.Molecular biology reportsMore Details
    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
    22780915 A novel multiplex polymerase chain reaction assay for profile analyses of gene expression in peripheral blood.BMC cardiovascular disordersMore Details
    21192737 "Chlamydia pneumoniae heat shock protein 60 enhances expression of ERK, TLR-4 and IL-8 in atheromatous plaques of coronary artery disease patients."Immunological investigationsMore Details
    20606121 Relation of platelet and leukocyte inflammatory transcripts to body mass index in the Framingham heart study.CirculationMore Details
    22371740 Genetic variability and the risk of myocardial infarction in Poles under 45 years of age.Archives of medical science : AMSMore Details
    19048183 Interactions between rs5498 polymorphism in the ICAM1 gene and traditional risk factors influence susceptibility to coronary artery disease.Clinical and experimental medicineMore Details
    19506932 The effect of fatty or lean fish intake on inflammatory gene expression in peripheral blood mononuclear cells of patients with coronary heart disease.European journal of nutritionMore Details
    17962597 "Intercellular adhesion molecule 1 (ICAM1) Lys56Met and Gly241Arg gene variants, plasma-soluble ICAM1 concentrations, and risk of incident cardiovascular events in 23,014 initially healthy white women."Stroke; a journal of cerebral circulationMore Details
    16043164 "Contemporaneous carrier-state of two or three ""proatherosclerotic"" variants of APOE, ICAM1, PPARA and PAI-1 genes differentiate CAD patients from healthy individuals."Clinica chimica acta; international journal of clinical chemistryMore Details

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



    PPI interactions

    There were totally 14 unique genes interacted with ICAM1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ITGAL Reconstituted Complex11279101|11786177 No
    IL2RA Affinity Capture-Western1976256|1976256 CHD related
    ICAM1 in vitro12526797 CHD related
    SLC3A2 in vivo12716892 No
    FGG in vitro;in vivo7822297 CHD related
    ITGB2 Reconstituted Complex10352278|7642561,11279101 CHD related
    EZR Reconstituted Complex9705328|9705328 No
    ITGAM Reconstituted Complex12208882 CHD related
    Tubb4b Affinity Capture-MS20360068 No
    UBC Affinity Capture-MS21906983 No
    SPN in vitro1683685 No
    EGFR in vivo16799092 CHD related
    IL2RG in vivo1976256 No
    MSN in vitro;in vivo12082081 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00108NatalizumabFor treatment of multiple sclerosis.L04AA23
    approvedDB08818Hyaluronan"Used to treat knee pain in patients with joint inflammation (osteoarthritis). It is usually used in patients who have not responded to other treatments such as acetaminophen, exercise, or physical therapy. Sodium hyaluronate may also be used in plastic surgery to reduce wrinkles on the face or as a filler in other parts of the body. May be used in ophthalmology to assist in the extraction of cataracts, the implantation of intraocular lenses, corneal transplants, glaucoma filtration, retinal attachment and in the treatment of dry eyes. Finally, Sodium hyaluronate is also used to coat the bladder lining in treating interstitial cystitis."R01AX09;S01KA01;D03AX05;M09AX01