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: FOXO1

    Description: forkhead box O1

    This suspected gene is newly curated in the Version 2.0

    It was suspected to be CHD related:

    ..In addition, both Foxo1 and Foxo3 are phosphorylated and consequently inactivated in hearts undergoing hypertrophic growth induced by hemodynamic stress...

    From PMID: 16952979, in Journal Circulation. 2006;114:1159-1168 ,


    References

    There were 4 potential papers with FOXO1 and CHD.

    PMIDTitleJournalsDetails
    22326951 Metabolic stress-induced activation of FoxO1 triggers diabetic cardiomyopathy in mice.The Journal of clinical investigationMore Details
    19786632 MicroRNA 217 modulates endothelial cell senescence via silent information regulator 1.CirculationMore Details
    19059213 Resveratrol protects cardiomyocytes from hypoxia-induced apoptosis through the SIRT1-FoxO1 pathway.Biochemical and biophysical research communicationsMore Details
    15824087 FOXO-dependent expression of the proapoptotic protein Bim: pivotal role for apoptosis signaling in endothelial progenitor cells.FASEB journal : official publication of the Federation of American Societies for More Details

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



    PPI interactions

    There were totally 39 unique genes interacted with FOXO1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CREBBP Two-hybrid10973497|16154098|15220471|15220471 No
    YWHAG Affinity Capture-Western11237865 No
    YWHAZ Affinity Capture-Western11237865 No
    CEBPB Reconstituted Complex11893744 No
    HNF4A Reconstituted Complex12519792 No
    HOXA11 Affinity Capture-Western19727442 No
    SKP2 Affinity Capture-Western15668399 No
    PML Affinity Capture-Western16154098 No
    SIRT1 Affinity Capture-Western16154098|22013015|15692560 CHD related
    SIRT2 Affinity Capture-Western15220471|15220471|20543840 No
    ATG7 Affinity Capture-Western20543840 No
    MDM2 Affinity Capture-Western19321440 CHD related
    RARA Reconstituted Complex11353774|11353774 No
    TXNRD1 Reconstituted Complex11353774 CHD related
    THRB in vitro;in vivo11353774 No
    AR Affinity Capture-Western12482965|12482965|12482965|12482965 CHD related
    SMAD3 Affinity Capture-Western15084259|15084259 CHD related
    SMAD4 Affinity Capture-Western15084259|15084259 No
    SRC Reconstituted Complex10973497|10973497 CHD related
    TSC2 Affinity Capture-Western17077083|17077083|17077083 No
    ESR1 Two-hybrid11435445|11435445|11353774|22266855 CHD related
    HOXA5 Reconstituted Complex12163409|12163409 No
    RFWD2 Affinity Capture-Western18815134 No
    PARP1 Affinity Capture-Western19281796|19281796 CHD related
    LRPPRC Reconstituted Complex17050673 No
    UBC Affinity Capture-Western15668399|13679577|19686743 No
    AKT1 Biochemical Activity16076959|10358014 CHD related
    STUB1 Affinity Capture-Western19483080 No
    NLK Affinity Capture-Western20874444 No
    FHL2 in vitro15692560 No
    CTNNB1 yeast 2-hybrid15905404 CHD related
    FOXG1 in vivo15084259 No
    PPARG in vitro;yeast 2-hybrid12966085 CHD related
    HOXA10 in vitro12493691 No
    G6PC in vitro11672436 No
    PAK1 in vivo10358014,12560069 CHD related
    GSK3B in vivo11980723 CHD related
    CSNK1G1 in vivo11980723 No
    DYRK1A in vitro;in vivo11311120 No


    Involved FDA drugs

    There was no drug associated with FOXO1