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Improving identific...
Improving identification of differentially expressed genes by integrative analysis of Affymetrix and Illumina arrays
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- Elo, Laura L. (författare)
- Department of Mathematics, University of Turku, Turku, Finland; Turku Centre for Biotechnology, Turku, Finland
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- Katajamaa, Mikko (författare)
- Turku Centre for Biotechnology, Turku, Finland
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- Lund, Riikka (författare)
- Turku Centre for Biotechnology, Turku, Finland
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- Oresic, Matej, 1967- (författare)
- Turku Centre for Biotechnology, Turku, Finland; VTT Biotechnology, Espoo, Finland
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- Lahesmaa, Riitta (författare)
- Turku Centre for Biotechnology, Turku, Finland
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- Aittokallio, Tero (författare)
- Department of Mathematics, University of Turku, Turku, Finland; Turku Centre for Biotechnology, Turku, Finland; Systems Biology Unit, Institut Pasteur, Paris, France
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(creator_code:org_t)
- Mary Ann Liebert, 2006
- 2006
- Engelska.
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Ingår i: Omics. - : Mary Ann Liebert. - 1536-2310 .- 1557-8100. ; 10:3, s. 369-380
- Relaterad länk:
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Together with the widely used Affymetrix microarrays, the recently introduced Illumina platform has become a cost-effective alternative for genome-wide studies. To efficiently use data from both array platforms, there is a pressing need for methods that allow systematic integration of multiple datasets, especially when the number of samples is small. To address these needs, we introduce a meta-analytic procedure for combining Affymetrix and Illumina data in the context of detecting differentially expressed genes between the platforms. We first investigate the effect of different expression change estimation procedures within the platforms on the agreement of the most differentially expressed genes. Using the best estimation methods, we then show the benefits of the integrative analysis in producing reproducible results across bootstrap samples. In particular, we demonstrate its biological relevance in identifying small but consistent changes during T helper 2 cell differentiation.
Ämnesord
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Publikations- och innehållstyp
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- art (ämneskategori)
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