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Integrative Construction of Gene Signatures Based on Fusion of Expression and Ontology Information

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Man–Machine Interactions 4

Part of the book series: Advances in Intelligent Systems and Computing ((AISC,volume 391))

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Abstract

Gene signatures are lists of genes used for summarizing high-throughput gene expression profiling experiments. Various routines for obtaining and analyzing gene signatures in molecular biology studies exist, including statistical testing with false discovery corrections and annotations by gene ontology keywords. Despite the presence of well established routines there are still challenges in efficient application of gene signatures, which include gene signature instability, problems in defining optimal sizes and possible unreliability of inference results. Therefore there are continuous attempts towards improving algorithms for constructing meaningful gene signatures. In this paper we are introducing a methodology for constructing gene signatures, based on the fusion of information coming from statistical tests for differential gene expression analysis and resulting from statistical tests for GO terms enrichment analysis. On the basis of the DNA microarray datasets we are demonstrating that the proposed algorithm for fusion of expression and ontology information leads to improvement of the composition of gene signatures.

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Acknowledgments

The authors are grateful to Pawel P. Labaj and Anna Papiez for helpful discussions. The work was financially supported by SUT - BKM/525/RAU-2/2014. Calculations were carried out using the infrastructure supported by POIG.02.03.01-24-099/13 grant: GeCONiI - Upper-Silesian Center for Scientific Computation.

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Authors and Affiliations

  1. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Wojciech Łabaj & Andrzej Polanski

Authors
  1. Wojciech Łabaj
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  2. Andrzej Polanski
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Correspondence to Wojciech Łabaj .

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Editors and Affiliations

  1. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Aleksandra Gruca

  2. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Agnieszka Brachman

  3. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Stanisław Kozielski

  4. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Tadeusz Czachórski

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Łabaj, W., Polanski, A. (2016). Integrative Construction of Gene Signatures Based on Fusion of Expression and Ontology Information. In: Gruca, A., Brachman, A., Kozielski, S., Czachórski, T. (eds) Man–Machine Interactions 4. Advances in Intelligent Systems and Computing, vol 391. Springer, Cham. https://doi.org/10.1007/978-3-319-23437-3_20

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  • DOI: https://doi.org/10.1007/978-3-319-23437-3_20

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-23436-6

  • Online ISBN: 978-3-319-23437-3

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