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: CXCR4

    Description: chemokine (C-X-C motif) receptor 4

    Entrez Gene ID: 7852

    SwissProt Acc Number: P61073

    RefSeq: NM_001008540

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

    .."CXCR4 plays a crucial role in endogenous remodeling processes after MI, contributing to inflammatory/progenitor cell recruitment and neovascularization, whereas its deficiency limits infarct size and causes adaptation to hypoxic stress."..

    From PMID: 22115649, in Journal J Am Coll Cardiol. , 2011


    References

    There were 30 potential papers with CXCR4 and CHD.

    PMIDTitleJournalsDetails
    22682478 Adiponectin promotes the migration of circulating angiogenic cells through p38-mediated induction of the CXCR4 receptor.International journal of cardiologyMore Details
    23839111 Extracorporeal cardiac shock wave therapy ameliorates myocardial fibrosis by decreasing the amount of fibrocytes after acute myocardial infarction in pigs.Coronary artery diseaseMore Details
    24168792 Expression of stromal cell-derived factor-1 receptors CXCR4 and CXCR7 on circulating platelets of patients with acute coronary syndrome and association with left ventricular functional recovery.European heart journalMore Details
    23291430 Remote ischemic postconditioning enhances cell retention in the myocardium after intravenous administration of bone marrow mesenchymal stromal cells.Journal of molecular and cellular cardiologyMore Details
    23177618 Fibrocytes are associated with the fibrosis of coronary heart disease."Pathology, research and practice"More Details
    23204107 CXC-chemokine receptor 4 antagonist AMD3100 promotes cardiac functional recovery after ischemia/reperfusion injury via endothelial nitric oxide synthase-dependent mechanism.CirculationMore Details
    23223950 CXCR4 positive and angiogenic monocytes in myocardial infarction.Thrombosis and haemostasisMore Details
    24134608 The effect of statin therapy withdrawal on monocyte subsets.European journal of clinical investigationMore Details
    24080960 Panax notoginseng saponins promote endothelial progenitor cell mobilization and attenuate atherosclerotic lesions in apolipoprotein e knockout mice.Cellular physiology and biochemistry : international journal of experimentalMore Details
    22234341 The CXCR4 antagonist POL5551 is equally effective as sirolimus in reducing neointima formation without impairing re-endothelialisation.Thrombosis and haemostasisMore Details
    22115649 Double-edged role of the CXCL12/CXCR4 axis in experimental myocardial infarction.Journal of the American College of CardiologyMore Details
    21855069 Impaired CXCR4 expression and cell engraftment of bone marrow-derived cells from aged atherogenic mice.AtherosclerosisMore Details
    21422919 Exogenous basic fibroblast growth factor promotes cardiac stem cell-mediated myocardial regeneration after miniswine acute myocardial infarction.Coronary artery diseaseMore Details
    21077732 Gene expression profiles following intracoronary injection of mesenchymal stromal cells using a porcine model of chronic myocardial infarction.CytotherapyMore Details
    20347119 Hyperglycemia and oxidized-LDL exert a deleterious effect on endothelial progenitor cell migration in type 2 diabetes mellitus.Thrombosis researchMore Details
    20179608 SDF-1/CXCR4-mediated migration of transplanted bone marrow stromal cells toward areas of heart myocardial infarction through activation of PI3K/Akt.Journal of cardiovascular pharmacologyMore Details
    20118202 Transplantation of cardiac progenitor cell sheet onto infarcted heart promotes cardiogenesis and improves function.Cardiovascular researchMore Details
    21095342 Bone marrow resident and circulating progenitor cells in patients undergoing cardiac surgery.The Annals of thoracic surgeryMore Details
    19715896 Gene expression profiles in a porcine model of infarction: differential expression after intracoronary injection of heterologous bone marrow mesenchymal cells.Transplantation proceedingsMore Details
    19142013 Prostaglandin E positively modulates endothelial progenitor cell homeostasis: an advanced treatment modality for autologous cell therapy.Journal of vascular researchMore Details
    19059114 CXCL12 induction of inducible nitric oxide synthase in human CD8 T cells.The Journal of heart and lung transplantation : the official publication of theMore Details
    16926016 Sequential patterns of chemokine- and chemokine receptor-synthesis following vessel wall injury in porcine coronary arteries.AtherosclerosisMore Details
    17158356 Sphingosine-1-phosphate stimulates the functional capacity of progenitor cells by activation of the CXCR4-dependent signaling pathway via the S1P3 receptor."Arteriosclerosis, thrombosis, and vascular biology"More Details
    17521710 CX3CR1 receptor is up-regulated in monocytes of coronary artery diseased patients: impact of pre-inflammatory stimuli and renin-angiotensin system modulators.Thrombosis researchMore Details
    16456237 Altered chemokine receptor profile on circulating leukocytes in human heart failure.Cell biochemistry and biophysicsMore Details
    16254213 Impaired CXCR4 signaling contributes to the reduced neovascularization capacity of endothelial progenitor cells from patients with coronary artery disease.Circulation researchMore Details
    15956121 Effects of exercise and ischemia on mobilization and functional activation of blood-derived progenitor cells in patients with ischemic syndromes: results of 3 randomized studies.CirculationMore Details
    15569821 Granulocyte colony-stimulating factor mobilizes functional endothelial progenitor cells in patients with coronary artery disease."Arteriosclerosis, thrombosis, and vascular biology"More Details
    15093715 Characterization of two populations of human coronary artery endothelial cells(1).The Journal of surgical researchMore Details
    11504923 HIV envelope gp120 activates human arterial smooth muscle cells.Proceedings of the National Academy of Sciences of the United States of AmericaMore Details

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



    PPI interactions

    There were totally 37 unique genes interacted with CXCR4. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CCR5 Reconstituted Complex12429730 CHD related
    JAK3 Affinity Capture-Western10506573 No
    JAK2 Affinity Capture-Western10506573|10506573 CHD related
    PTPN6 Affinity Capture-Western10506573 No
    ITCH Reconstituted Complex19116316|19116316|19116316|22275353 No
    USP14 Affinity Capture-Western19106094|19106094 No
    UBC Affinity Capture-Western17947233|14602072|11641392|20505072|12488503 No
    HLA-C Affinity Capture-Western18083706|18083706 No
    STAM Co-localization20505072|22275353 No
    CAV1 Co-fractionation22275353 CHD related
    PTPN11 Affinity Capture-Western11157475|11157475 CHD related
    CXCL12 Co-crystal Structure21757744 CHD related
    ST13 Affinity Capture-Western11751889 No
    GNAI1 in vivo10506573 CHD related
    SDC4 in vivo15819887 CHD related
    PTPRC in vivo12519755 CHD related
    VAV1 in vivo15618472 No
    GNA13 in vivo11994484 No
    MYH9 in vitro12421915 No
    CXCR4 in vivo12433920,10506573 CHD related
    ADRBK2 Affinity Capture-Western11668182 No
    PTK2 Affinity Capture-Western11668182 No
    SOCS3 Affinity Capture-Western12163560|12163560 CHD related
    CD4 Affinity Capture-Western10816381|15660419 CHD related
    SUMO4 Affinity Capture-MS16236267 CHD related
    ATP13A2 Two-hybrid22645275 No
    STAT1 in vivo10506573 CHD related
    STAT2 in vivo10506573 No
    STAT3 in vivo10506573 CHD related
    STAT5B in vivo10506573 No
    JAK1 in vivo12163560 CHD related
    SOCS1 in vivo12163560 CHD related
    HSPA8 in vitro;in vivo16365278 CHD related
    DPP4 in vivo11278278 CHD related
    ARRB2 in vivo10644702 No
    CTSG in vitro12531874 No
    ELANE in vitro12531874 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00452Framycetin"For the treatment of bacterial blepharitis, bacterial bonjunctivitis, corneal injuries, corneal ulcers and meibomianitis. For the prophylaxis of ocular infections following foreign body removal"D09AA01;R01AX08;S01AA07
    approvedDB06809PlerixaforUsed in combination with granulocyte-colony stimulating factor (G-CSF) to mobilize hematopoietic stem cells to the peripheral blood for collection and subsequent autologous transplantation in patients with non-Hodgkin’s lymphoma (NHL) and multiple myeloma (MM).L03AX16