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GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed.

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اقرأ أكثر حفظ في قائمتي
  • معلومة اضافية
    • Publisher Information:
      eScholarship, University of California 2008-12-18
    • نبذة مختصرة :
      BackgroundThe amount of gene expression data in the public repositories, such as NCBI Gene Expression Omnibus (GEO) has grown exponentially, and provides a gold mine for bioinformaticians, but has not been easily accessible by biologists and clinicians.ResultsWe developed an automated approach to annotate and analyze all GEO data sets, including 1,515 GEO data sets from 231 microarray types across 42 species, and performed 12,658 group versus group comparisons of 24 GEO-specified types. We then built GeneChaser, a web server that enables biologists and clinicians without bioinformatics skills to easily identify biological and clinical conditions in which a gene or set of genes was differentially expressed. GeneChaser displays these conditions in graphs, gives statistical comparisons, allows sort/filter functions and provides access to the original studies.We performed a single gene search for Nanog and a multiple gene search for Nanog, Oct4, Sox2 and LIN28, confirmed their roles in embryonic stem cell development, identified several drugs that regulate their expression, and suggested their potential roles in sex determination, abnormal sperm morphology, malaria infection, and cancer.ConclusionWe demonstrated that GeneChaser is a powerful tool to elucidate information on function, transcriptional regulation, drug-response and clinical implications for genes of interest.
    • الموضوع:
      Spermatozoa; Animals; Humans; Mice; Malaria; Neoplasms; Oligonucleotide Array Sequence Analysis; Gene Expression Profiling; Computational Biology; Gene Expression; Gene Expression Regulation; Models; Genetic; Computer Simulation; Internet; Male; Mathematical Sciences; Biological Sciences; Information and Computing Sciences; Bioinformatics; article
    • Availability:
      Open access content. Open access content
      public
    • Note:
      application/pdf
      BMC bioinformatics vol 9, iss 1, 548 1471-2105
    • Other Numbers:
      CDLER oai:escholarship.org:ark:/13030/qt9b20z8p5
      qt9b20z8p5
      https://escholarship.org/uc/item/9b20z8p5
      https://escholarship.org/
      1287349792
    • Contributing Source:
      UC MASS DIGITIZATION
      From OAIster®, provided by the OCLC Cooperative.
    • الرقم المعرف:
      edsoai.on1287349792
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