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Title:
Expression Profiling Using Affymetrix GeneChip® Probe Arrays | SpringerLink
Description:
Large-scale microarray expression profiling studies have helped us to understand basic biological processes and to classify and predict the prognosis of cancers; they have also accelerated the identification of new drug targets. Affymetrix GeneChip® probe arrays...
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Keywords {🔍}

affymetrix, expression, genechip, data, analysis, research, probe, arrays, microarray, privacy, cookies, content, processing, information, publish, protocol, access, article, manual, section, search, gene, oligonucleotide, google, scholar, log, journal, cardiac, profiling, schinkebraun, couget, methods, microarrays, hybridization, array, chapter, open, download, fluidics, station, pubmed, usa, press, optional, personal, parties, policy, find, track, cite,

Topics {✒️}

cardiac gene expression protocol schinke-braun high-density oligonucleotide microarrays expression profiling standardized target preparation privacy choices/manage cookies expression index computation affymetrix instrument system affymetrix genechips revealed genome microarrays analyze dna microarray results protocol cite 25mer mismatch oligonucleotide model-based analysis standard assay procedures humana press data analysis fundamentals quality control measures microarray suite user journal finder publish european economic area processing protocols isolating total rna biotin-labeled target removing batch effects 7th international meeting nucleic acids res cvrl/geffen school hybridization oven manual expression level conditions privacy policy usa jennifer low technical variability expression analysis accepting optional cookies oligonucleotide arrays microarray data preferred analysis methods main content log check access ethics access biomedical research genomics research pm/mm design affymetrix human chapter describes chapter log personal data journal publish 11 probe pairs

Schema {🗺️}

ScholarlyArticle:
      headline:Expression Profiling Using Affymetrix GeneChip® Probe Arrays
      pageEnd:40
      pageStart:13
      image:https://media.springernature.com/w153/springer-static/cover/book/978-1-59745-030-0.jpg
      genre:
         Springer Protocols
      isPartOf:
         name:Cardiac Gene Expression
         isbn:
            978-1-59745-030-0
            978-1-58829-352-7
         type:Book
      publisher:
         name:Humana Press
         logo:
            url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
            type:ImageObject
         type:Organization
      author:
            name:Martina Schinke-Braun
            affiliation:
                  name:Novartis Institutes for BioMedical Research
                  address:
                     name:Novartis Institutes for BioMedical Research, Cambridge, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Jennifer A. Couget
            affiliation:
                  name:Harvard University Bauer Center for Genomics Research
                  address:
                     name:Harvard University Bauer Center for Genomics Research, Cambridge, USA
                     type:PostalAddress
                  type:Organization
            type:Person
      keywords:Affymetrix, GeneChip, expression profiling, RNA amplification, RNA quality, Agilent Bioanalyzer, in vitro transcription, heart
      description:Large-scale microarray expression profiling studies have helped us to understand basic biological processes and to classify and predict the prognosis of cancers; they have also accelerated the identification of new drug targets. Affymetrix GeneChip® probe arrays are high-density oligonucleotide microarrays that are available for many prokaryotic and eukaryotic species. Affymetrix human and mouse whole-genome microarrays analyze the expression level of up to 47,000 transcripts and variants. Each transcript is measured by 11 probe pairs, which consist of a perfect match 25mer oligonucleotide (PM) and a 25mer mismatch oligonucleotide (MM) that contains a single base pair mismatch in the central position. The PM/MM design is used for identification and subtraction of nonspecific hybridization and background signals. Advantages of Affymetrix GeneChip arrays include highly standardized array fabrication, as well as standardized target preparation, hybridization, and processing protocols, resulting in low technical variability and good reproducibility between experiments. This chapter describes the standard assay procedures for isolating total RNA from heart tissue, generating a biotin-labeled target for expression analysis, processing of Affymetrix GeneChip probe arrays using the Affymetrix instrument system, and quality control measures.
      datePublished:2007
      isAccessibleForFree:
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Book:
      name:Cardiac Gene Expression
      isbn:
         978-1-59745-030-0
         978-1-58829-352-7
Organization:
      name:Humana Press
      logo:
         url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
         type:ImageObject
      name:Novartis Institutes for BioMedical Research
      address:
         name:Novartis Institutes for BioMedical Research, Cambridge, USA
         type:PostalAddress
      name:Harvard University Bauer Center for Genomics Research
      address:
         name:Harvard University Bauer Center for Genomics Research, Cambridge, USA
         type:PostalAddress
ImageObject:
      url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
Person:
      name:Martina Schinke-Braun
      affiliation:
            name:Novartis Institutes for BioMedical Research
            address:
               name:Novartis Institutes for BioMedical Research, Cambridge, USA
               type:PostalAddress
            type:Organization
      name:Jennifer A. Couget
      affiliation:
            name:Harvard University Bauer Center for Genomics Research
            address:
               name:Harvard University Bauer Center for Genomics Research, Cambridge, USA
               type:PostalAddress
            type:Organization
PostalAddress:
      name:Novartis Institutes for BioMedical Research, Cambridge, USA
      name:Harvard University Bauer Center for Genomics Research, Cambridge, USA
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