rdf-syntax-grammar
mods:
  schema location: http://www.loc.gov/mods/v3 http://www.loc.gov/standards/mods/v3/mods-3-2.xsd
  title info:
    title: Bioconductor Case Studies
  name:
    name part: Hahne, Florian.
    role:
      role term: creator
    role:
      role term: author.
  name:
    name part: Huber, Wolfgang.
    role:
      role term: author.
  name:
    name part: Gentleman, Robert.
    role:
      role term: author.
  name:
    name part: Falcon, Seth.
    role:
      role term: author.
  name:
    name part: SpringerLink (Online service)
  type of resource: text
  origin info:
    place:
      place term: xxu
    date issued: 2008
    edition: 1.
    issuance: monographic
  language:
    language term: eng
  physical description:
    form: electronic
    form: electronic resource
    reformatting quality: access
    form: remote
    extent: XII, 284 p. online resource.
  abstract: Bioconductor software has become a standard tool for the analysis and comprehension of data from high-throughput genomics experiments. Its application spans a broad field of technologies used in contemporary molecular biology. In this volume, the authors present a collection of cases to apply Bioconductor tools in the analysis of microarray gene expression data. Topics covered include * import and preprocessing of data from various sources * statistical modeling of differential gene expression * biological metadata * application of graphs and graph rendering * machine learning for clustering and classification problems * gene set enrichment analysis Each chapter of this book describes an analysis of real data using hands-on example driven approaches. Short exercises help in the learning process and invite more advanced considerations of key topics. The book is a dynamic document. All the code shown can be executed on a local computer, and readers are able to reproduce every computation, figure, and table. The authors of this book have longtime experience in teaching introductory and advanced courses to the application of Bioconductor software. Florian Hahne is a Postdoc at the Fred Hutchinson Cancer Research Center in Seattle, developing novel methodologies for the analysis of high-throughput cell-biological data. Wolfgang Huber is a research group leader in the European Molecular Biology Laboratory at the European Bioinformatics Institute in Cambridge. He has wide-ranging experience in the development of methods for the analysis of functional genomics experiments. Robert Gentleman is Head of the Program in Computational Biology at the Fred Hutchinson Cancer Research Center in Seattle, and he is one of the two authors of the original R system. Seth Falcon is a member of the R core team and former project manager and developer for the Bioconductor project.
  table of contents: The ALL Dataset -- R and Bioconductor Introduction -- Processing Affymetrix Expression Data -- Two Color Arrays -- Fold Changes, Log Ratios, Background Correction, Shrinkage Estimation, and Variance Stabilization -- Easy Differential Expression -- Differential Expression -- Annotation and Metadata -- Supervised Machine Learning -- Unsupervised Machine Learning -- Using Graphs for Interactome Data -- Graph Layout -- Gene Set Enrichment Analysis -- Hypergeometric Testing Used for Gene Set Enrichment Analysis -- Solutions to Exercises.
  note: by Florian Hahne, Wolfgang Huber, Robert Gentleman, Seth Falcon.
  subject:
    topic: Life sciences
  subject:
    topic: Bioinformatics
  subject:
    topic: Biomathematics
  subject:
    topic: Statistics
  subject:
    topic: Life Sciences
  subject:
    topic: Life Sciences, general
  subject:
    topic: Statistics for Life Sciences, Medicine, Health Sciences
  subject:
    topic: Computational Biology/Bioinformatics
  subject:
    topic: Bioinformatics
  subject:
    topic: Mathematical and Computational Biology
  classification: QH301-705
  classification: 570
  related item:
    title info:
      title: Springer eBooks
  related item:
    title info:
      title: Use R!
  identifier: 9780387772400
  identifier: http://dx.doi.org/10.1007/978-0-387-77240-0
  record info:
    record creation date: 100608
    record change date: 20151204143248.0
    record identifier: 978-0-387-77240-0