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A New Bioinformatic Pipeline to Address the Most Common Requirements in RNA-seq Data Analysis

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9th International Conference on Practical Applications of Computational Biology and Bioinformatics

Part of the book series: Advances in Intelligent Systems and Computing ((AISC,volume 375))

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Abstract

Many bioinformatic programs have been developed to analyze data from RNA-seq experiments. These programs are widely used and often included in computational pipelines. Nevertheless, there does not seem to be a precise definition of what constitutes a proper workflow for this kind of data. We present here a new workflow that takes into account the most common requirements for RNA-seq analysis, and that is implemented as an automatic pipeline to perform an efficient and complete evaluation.

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Acknowledgements

This work was partially funded by the [14VI05] Contract-Programme from the University of Vigo. Also, it was supported by the European Union’s Seventh Framework Programme FP7/REGPOT-2012-2013.1 under grant agreement n° 316265 (BIOCAPS), the Agrupamento INBIOMED from DXPCTSUG-FEDER “unha maneira de facer Europa” (2012/273) and the “Platform of integration of intelligent techniques for analysis of biomedical information” project (TIN2013-47153-C3-3-R) from the Spanish Ministry of Economy and Competitiveness.

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Authors and Affiliations

  1. Bioinformatics Unit, Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), 3rd Melchor Fernández Almagro St, 28029, Madrid, Spain

    Osvaldo Graña & David G. Pisano

  2. Structural Computational Biology Group, Structural Biology and BioComputing Programme, Spanish National Cancer Research Centre (CNIO), 3rd Melchor Fernández Almagro St, 28029, Madrid, Spain

    Miriam Rubio-Camarillo

  3. ESEI - Escuela Superior de Ingeniería Informática Edificio Politécnico, Campus Universitario as Lagoas S/N Universidad de Vigo, 32004, Ourense, Spain

    Florentino Fdez-Riverola & Daniel Glez-Peña

Authors
  1. Osvaldo Graña
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  2. Miriam Rubio-Camarillo
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  3. Florentino Fdez-Riverola
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  4. David G. Pisano
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  5. Daniel Glez-Peña
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Corresponding author

Correspondence to Daniel Glez-Peña .

Editor information

Editors and Affiliations

  1. Fellowship for the Interpretation of Genomes, Burr Ridge, Illinois, USA

    Ross Overbeek

  2. Centre of Biological Engineering, Department of Informatics, University of Minho, Braga, Portugal

    Miguel P. Rocha

  3. Department of Informatics, University of Vigo, ESEI: Escuela Superior de Ingeniería Informática, Ourense, Spain

    Florentino Fdez-Riverola

  4. Departamento de Informática y Automática, University of Salamanca, Facultad de Ciencias, Salamanca, Spain

    Juan F. De Paz

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Graña, O., Rubio-Camarillo, M., Fdez-Riverola, F., Pisano, D.G., Glez-Peña, D. (2015). A New Bioinformatic Pipeline to Address the Most Common Requirements in RNA-seq Data Analysis. In: Overbeek, R., Rocha, M., Fdez-Riverola, F., De Paz, J. (eds) 9th International Conference on Practical Applications of Computational Biology and Bioinformatics. Advances in Intelligent Systems and Computing, vol 375. Springer, Cham. https://doi.org/10.1007/978-3-319-19776-0_13

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  • DOI: https://doi.org/10.1007/978-3-319-19776-0_13

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-19775-3

  • Online ISBN: 978-3-319-19776-0

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