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On the Reproducibility of MiRNA-Seq Differential Expression Analyses in Neuropsychiatric Diseases

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Practical Applications of Computational Biology & Bioinformatics, 15th International Conference (PACBB 2021) (PACBB 2021)

Part of the book series: Lecture Notes in Networks and Systems ((LNNS,volume 325))

Abstract

MiRNAs are attracting considerable interest as potential biomarkers on neuropsychiatric diseases due to their expression plasticity. In the last decade, a large number of studies have been published in this regard with promising results; however, there is widespread concern about the reproducibility of these results. This study aims to compare the differentially expressed miRNAs reported by 5 recent studies of neuropsychiatric diseases, with those obtained through the miARma-Seq pipeline [1]. In general, we found a low reproducibility (0–74%), and some variations related to the software used for the differential expression analysis. Our results support the idea that miRNAs reported as potential biomarkers in neuropsychiatric diseases are strongly correlated with the analytical methodology and the biological references used; nonetheless, further research is needed to establish the magnitude of this problem and spot its main causes.

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Acknowledgements

This work was supported by Instituto de Salud Carlos III through the project PI18/01311 (co-funded by European Regional Development Fund, “A way to make Europe”) and by a Ramon & Cajal grant [RYC2014-15246] to RCA-B. National funding by FCT, Foundation for Science and Technology (Portugal), through the individual scientific employment program-contract with Hugo López-Fernández (2020.00515.CEECIND). The authors would like to thank Galicia Sur Health Research Institute, Galicia Sur Biomedical Foundation, and the Area Sanitaria de Vigo for their support.

Author information

Authors and Affiliations

  1. Translational Neuroscience Group-CIBERSAM, Galicia Sur Health Research Institute (IIS Galicia Sur), Área Sanitaria de Vigo-Hospital Álvaro Cunqueiro, SERGAS-UVIGO, 36213, Vigo, Spain

    Daniel Pérez-Rodríguez & Roberto C. Agís-Balboa

  2. NeuroEpigenetics Lab. University Hospital Complex of Vigo, SERGAS-UVIGO, 36213, Vigo, Spain

    Daniel Pérez-Rodríguez & Roberto C. Agís-Balboa

  3. Instituto de Investigação E Inovação Em Saúde (I3S), Universidade Do Porto, Rua Alfredo Allen, 208, 4200-135, Porto, Portugal

    Hugo López-Fernández

  4. Instituto de Biologia Molecular E Celular (IBMC), Rua Alfredo Allen, 208, 4200-135, Porto, Portugal

    Hugo López-Fernández

  5. Department of Computer Science, CINBIO, Universidade de Vigo, ESEI – Escuela Superior de Ingeniería Informática, 32004, Ourense, Spain

    Hugo López-Fernández

  6. SING Research Group, Galicia Sur Health Research Institute (IIS Galicia Sur), SERGAS-UVIGO, Vigo, Spain

    Hugo López-Fernández

Authors
  1. Daniel Pérez-Rodríguez
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  2. Hugo López-Fernández
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  3. Roberto C. Agís-Balboa
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Corresponding author

Correspondence to Hugo López-Fernández .

Editor information

Editors and Affiliations

  1. Department de Informática, Universidade do Minho, Braga, Portugal

    Miguel Rocha

  2. Superior de Ingeniería Informática, Universidade de Vigo, Escuela, Ourense, Spain

    Florentino Fdez-Riverola

  3. Department of Genetics and Genomics, United Arab Emirates University, Abu Dhabi, United Arab Emirates

    Mohd Saberi Mohamad

  4. BISITE, Digital Innovation Hub, University of Salamanca, Salamanca, Salamanca, Spain

    Roberto Casado-Vara

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Pérez-Rodríguez, D., López-Fernández, H., Agís-Balboa, R.C. (2022). On the Reproducibility of MiRNA-Seq Differential Expression Analyses in Neuropsychiatric Diseases. In: Rocha, M., Fdez-Riverola, F., Mohamad, M.S., Casado-Vara, R. (eds) Practical Applications of Computational Biology & Bioinformatics, 15th International Conference (PACBB 2021). PACBB 2021. Lecture Notes in Networks and Systems, vol 325. Springer, Cham. https://doi.org/10.1007/978-3-030-86258-9_5

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