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: HSF1

    Description: heat shock transcription factor 1

    Entrez Gene ID: 3297

    SwissProt Acc Number: Q00613

    RefSeq: NM_005526

    It was supported literatures to be a novel CHD related gene:

    ..The results suggest that HSF-1 is involved in glycated LDL-induced upregulation of PAI-1 in subconfluent vascular endothelial cells through the binding of HSF1 to PAI-1 promoter. ..

    From PMID: 17259369, in Journal Diabetes. , 2007


    References

    There were 1 potential papers with HSF1 and CHD.

    PMIDTitleJournalsDetails
    17259369 Involvement of heat shock factor-1 in glycated LDL-induced upregulation of plasminogen activator inhibitor-1 in vascular endothelial cells.DiabetesMore Details

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



    PPI interactions

    There were totally 63 unique genes interacted with HSF1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SYMPK Two-hybrid14707147|14707147 No
    HSF2 Affinity Capture-Western12813038|12813038 No
    RALBP1 Two-hybrid12621024|12621024|12621024 No
    SMARCA4 Affinity Capture-Western11486022|20353823 No
    HSPA4 Reconstituted Complex9222609|1628823|14532117 No
    FKBP5 Reconstituted Complex9222609 No
    FKBP4 Reconstituted Complex9222609 No
    PPID Reconstituted Complex9222609 No
    PTGES3 Reconstituted Complex9222609 No
    HSPA1A Affinity Capture-Western9499401|9499401|21784850|1628823,9699716 CHD related
    DNAJB1 Reconstituted Complex9499401 No
    TBP Reconstituted Complex11005381 No
    GTF2B Reconstituted Complex11005381|15604728 No
    CEBPB Affinity Capture-Western11801594|11801594 No
    XRCC5 Reconstituted Complex9325337 No
    PRKDC Reconstituted Complex9325337 No
    HSPA8 Reconstituted Complex7639722|16293251 CHD related
    XRCC6 Reconstituted Complex11162511 No
    SIRT1 Affinity Capture-Western19229036 CHD related
    MTA1 Reconstituted Complex17922035|17922035 No
    CHD3 Affinity Capture-Western17922035 No
    FILIP1 Two-hybrid21784850|21784850|21784850 No
    TAF9 Reconstituted Complex10821850 No
    STUB1 Affinity Capture-Western16293251|14532117 No
    PCGF2 Affinity Capture-Western18211895 No
    BTRC Affinity Capture-Western18794143 No
    MAD2L1 Affinity Capture-Western18794143 No
    DAXX Two-hybrid15016915 No
    HSF1 in vitro;in vivo12865437 CHD related
    CREBBP in vitro;in vivo14960326 No
    YWHAE in vitro15364926 No
    MAPKAPK2 in vitro;in vivo16278218 No
    NCOA6 Affinity Capture-Western14960326|14960326 No
    HSP90AA1 Affinity Capture-Western12621024|11583998 CHD related
    SMARCB1 Co-fractionation11486022 No
    ENO2 Two-hybrid16169070|16169070 No
    STAT1 Affinity Capture-Western9880553|9880553 CHD related
    HSBP1 Affinity Capture-Western9649501|9649501 No
    HDAC1 Affinity Capture-Western19793920 CHD related
    HDAC2 Affinity Capture-Western19793920 CHD related
    CDC20 Affinity Capture-Western18059335|18059335|18794143 No
    SUMO2 Affinity Capture-Western19597476|21693764|19471022 No
    SUMO3 Affinity Capture-Western19597476|15576338 No
    SUMO1 Affinity Capture-Western19597476|12665592,12646186 No
    HSPB1 Affinity Capture-Western19597476|19597476 No
    HSPB2 Affinity Capture-Western19597476|19597476 No
    Zwint Affinity Capture-MS20360068 No
    UBC Affinity Capture-MS21139048 No
    UBE2I Biochemical Activity19684601 No
    PLK1 Affinity Capture-Western18794143|18794143 No
    DENND5B Co-fractionation22939629 No
    MAPK1 Affinity Capture-Western10747973|10747973 CHD related
    MAPK8 Reconstituted Complex10747973|10747973 CHD related
    CSNK2A1 in vitro12659875 CHD related
    TAF1 in vitro11005381 No
    SUB1 in vitro11005381 No
    GTF2A2 in vitro;in vivo11005381 No
    MAPK3 in vitro;in vivo8940068 CHD related
    MAPK9 in vivo11527157 CHD related
    GSK3A in vitro;in vivo12665592 No
    CAMK2A in vitro;in vivo11447121 CHD related
    TAF7 in vitro11005381 No
    REPS1 in vitro;in vivo;yeast 2-hybrid12621024 No


    Involved FDA drugs

    There was no drug associated with HSF1