Publications

Scientific Journal Publications

  1. Corthesy, J., Theofilatos, K., Mavroudi, S., Macron, C., Cominetti, O., Remlawi, M., ... & Dayon, L. (2018). An adaptive pipeline to maximize isobaric tagging data in large-scale MS-based proteomics. Journal of proteome research. DOI: http://dx.doi.org/10.1021/acs.jproteome.8b00110.
  2. Korfiati, A., Theofilatos, K., Alexakos, C., & Mavroudi, S. (2017). InSyBio ncRNASeq: A web tool for analyzing non-coding RNAs. EMBnet. journal, 23, e882. DOI: http://dx.doi.org/10.14806/ej.23.0.882.
  3. Theofilatos, K., Dimitrakopoulos, C., Alexakos, C., Korfiati, A., Likothanassis, S., & Mavroudi, S. (2016). InSyBio BioNets: an efficient tool for network-based biomarker discovery. EMBnet. journal, 22, e871. DOI: http://dx.doi.org/10.14806/ej.22.0.871.
  4. Dimitrakopoulos, C., Theofilatos, K., Pegkas, A., Likothanassis, S. and Mavroudi, S. (2016). Predicting overlapping protein complexes from weighted protein interaction graphs by gradually expanding dense neighborhoods. Artificial intelligence in medicine, 71, 62-69. DOI: https://doi.org/10.1016/j.artmed.2016.05.006.
  5. Nikitaki, Z., et al. (2016). "Systemic mechanisms and effects of ionizing radiation: A new ‘old’ paradigm of how the bystanders and distant can become the players." Seminars in cancer biology. Academic Press. DOI: https://dx.doi.org/10.1016/j.semcancer.2016.02.002.
  6. Theofilatos, K., Likothanassis, S., & Mavroudi, S. (2015). Quo vadis Computational analysis of PPI data or why the future isn't here yet. Frontiers in genetics, 6, 289. DOI: https://doi.org/10.3389/fgene.2015.00289.

Scientific Conference Articles

  1. Stavridis, M., Korfiati, A., Theofilatos, K., Sakellaropoulos, G., & Mavroudi, S. (2018). Non-coding RNA sequences identification and classification using a multi-class and multi-label ensemble technique. Accepted in the 14th International Conference on Artificial Intelligence Applications and Innovations, 25-27 May 2018, Rhodes, Greece.
  2. Theofilatos, K., et al. (2017). Deciphering the impact of radiation therapies in molecular level using biological network based bioinformatics technique, In Proceedings of the CPRIT Innovations in Cancer Prevention and Research, Austin, USA November 2017.
  3. Grafanaki, K, et al. (2017). Dissecting the effect of a novel synthetic retinoid-polyamine conjugate on mRNA and miRNA expression profiles of HaCaT cells. In Proceedings of the CPRIT Innovations in Cancer Prevention and Research, Austin, USA November 2017.
  4. Corthésy, J., and Theofilatos, K., et al. (2017). Using a “Quantify then Identify” metabolomic-based pipeline to maximize quantitative proteomic data processing, In Proceedings of the 5th International Conference on Analytical Proteomics (ICAP 2017), 3-6 July 2017, Caparica, Portugal.
  5. Tseritzoglou-Thoma, M., Theofilatos, K., Tsitsouli, E., Panges-Tserres, G., Alexakos, C., Moschopoulos, C., Alexopoulos, G., Giannoulis, K., Likothanassis, S., & Mavroudi, S. (2016). Superclusteroid 2.0: A Web Tool for Processing Big Biological Networks. In IFIP International Conference on Artificial Intelligence Applications and Innovations (pp. 623-633). DOI: https://dx.doi.org/10.1007/978-3-319-44944-9_55.
  6. Michail, C., Korfiati, A., Theofilatos, K., Likothanassis, S., & Mavroudi, S. (2016). On the Computational Prediction of miRNA Promoters. In IFIP International Conference on Artificial Intelligence Applications and Innovations (pp. 573-583). Springer International Publishing DOI: https://dx.doi.org/10.1007/978-3-319-44944-9_51.
  7. Corthésy, J., and Theofilatos, K., et al. (2016). Maximizing shotgun proteomics isobaric tagging data output using MS/MS multi-objective optimization algorithm, 64th ASMS Conference on Mass Spectrometry and Allied Topics, American Society for Mass Spectrometry, June 2016 San Antonio, USA.
  8. Retsi, V., Leonti, I.A., Korfiati, A., Theofilatos, K., Likothanassis S., & Mavroudi, S. (2015). Predicting and classifying short non-coding RNAs using a multiclass evolutionary methodology. In Proceedings of the 16th International Conference on Engineering Applications of Neural Networks (INNS) (p. 20). ACM, DOI: https://doi.org/10.1145/2797143.2797179.
  9. Theofilatos, K., Dimitrakopoulos, C., Alexakos, C., Korfiati, A., Likothanassis, S., & Mavroudi, S. (2015). InSyBio BioNets: Utmost efficiency in gene expression data and biological network analysis, In Proceedings of the 10th conference of the Hellenic Society for Computational Biology and Bioinformatics, HSCBB15, October 2015.
  10. Theofilatos, K., Dimitrakopoulos, C., Alexakos, C., Korfiati, A., Likothanassis, S. & Mavroudi, S. (2015). Uncovering Diagnostic Biomarkers for Neurodegenerative Diseases using InSyBio BioNets Tools, 6th Pan-Hellenic Conference of Biomedical Technology (ELEBIT2015), Mai 2015.