Scientific Journal Publications

  1. Stojceski, F., Zaverdas, H., Danani, A. et al. Molecular-level understanding of the aging bone and regeneration mechanisms using computational methods. Osteoporos Int (2026). https://doi.org/10.1007/s00198-026-07903-z
  2. Giuseppe Falvo D’Urso Labate, Chiara Morano, Thomas De Schryver, Harry Zaverdas, Luigi De Napoli, Gionata Fragomeni, Luc Van Hoorebeke, Patrick Segers, Matthieu N. Boone, Konstantinos Theofilatos, Joerg C. Gerlach, Gerardo Catapano; Biomimetic characterization by micro-computed tomography (μCT) of 3D hollow fibre membrane network bioreactors for tissue engineering. Biomater. Sci. 2026; 14 (13): 3436–3448. https://doi.org/10.1039/d6bm00185h
  3. Sirinian, C., de Lastic, A.-L., Zaverdas, H., Nifora, M., Georgakopoulou, D., Samiotaki, M., Argentou, M. I., Peroukidis, S., Degn, S. E., Rusan, M., Theofilatos, K., Mavroudi, S., Papanastasiou, A. D., & Koutras, A. (2026). Dual Role of Cancer Epithelial-Specific TRAF3 in Regulating Breast Cancer Cell Survival and Lymphocyte Activity. International Journal of Molecular Sciences, 27(10), 4414. https://doi.org/10.3390/ijms27104414
  4. Sirinian, C., Marchianò, F., Kenanidou, E., Zaverdas, H., Samiotaki, M., Ioannou, A. M., Theofilatos, K., Argentou, M. I., Degn, S. E., Peroukidis, S., Rusan, M., Zolota, V., Koutras, A., Mavroudi, S., Kourea, H., Ng, C. K. Y., & Papanastasiou, A. D. (2026). Intratumoral collagen correlates with histological grade and patient prognosis in breast cancer. Experimental and Molecular Pathology, 147, 105066. https://doi.org/10.1016/j.yexmp.2026.105066
  5. Zaverdas, H., Stojceski, F., Romero-Zaliz, R. et al. Unravelling the human taste receptor interactome: machine learning and molecular modelling insights into protein-protein interactions. npj Sci Food 9, 113 (2025). https://doi.org/10.1038/s41538-025-00478-9
  6. Androutsos, L., Pallante, L., Bompotas, A. et al. Predicting multiple taste sensations with a multiobjective machine learning method. npj Sci Food 8, 47 (2024). https://doi.org/10.1038/s41538-024-00287-6
  7. Pallante, L., Cannariato, M., Androutsos, L. et al. VirtuousPocketome: a computational tool for screening protein–ligand complexes to identify similar binding sites. Sci Rep 14, 6296 (2024). https://doi.org/10.1038/s41598-024-56893-7
  8. Zompola, A., Korfiati, A., Theofilatos, K., & Mavroudi, S. (2023). Omics-CNN: A comprehensive pipeline for predictive analytics in quantitative omics using one-dimensional convolutional neural networks. Heliyon, 9(11), e21165. https://doi.org/10.1016/j.heliyon.2023.e21165
  9. Panagiotopoulos, K., Korfiati, A., Theofilatos, K., Hurwitz, P., Deriu, M. A., & Mavroudi, S. (2023). MEvA-X: A Hybrid Multi-Objective Evolutionary Tool Using an XGBoost Classifier for Biomarkers Discovery on Biomedical Datasets. Bioinformatics, btad384. DOI: https://doi.org/10.1093/bioinformatics/btad384
  10. Pallante, L., Korfiati, A., Androutsos, L., Stojceski, F., Bompotas, A., Giannikos, I., … & Deriu, M. A. (2022). Toward a general and interpretable umami taste predictor using a multi-objective machine learning approach. Scientific Reports, 12(1), 21735. https://www.nature.com/articles/s41598-022-25935-3
  11. Malavolta, M., Pallante, L., Mavkov, B., Stojceski, F., Grasso, G., Korfiati, A., … & Deriu, M. A. (2022). A survey on computational taste predictors. European Food Research and Technology, 248(9), 2215-2235. https://link.springer.com/article/10.1007/s00217-022-04044-5
  12. Gudin, J., Mavroudi, S., & Korfiati, A. Personalized Pain Therapy: Artificial Intelligence (AI) Utilized to Predict Patient Response to OTC Topical Analgesics. Anesth Pain Res. 2021; 5 (1): 1-11. Correspondence: Peter Hurwitz, Clarity Science LLC, 750.
  13. Grafanaki, K., Skeparnias, I., Kontos, C. K., Anastasakis, D., Korfiati, A., Kyriakopoulos, G., … & Drainas, D. (2021). Pharmacoepigenomics circuits induced by a novel retinoid-polyamine conjugate in human immortalized keratinocytes. The Pharmacogenomics Journal, 21(6), 638-648. https://www.nature.com/articles/s41397-021-00241-9
  14. Pallante, L., Malavolta, M., Grasso, G., Korfiati, A., Mavroudi, S., Mavkov, B., … & Deriu, M. A. (2021). On the human taste perception: Molecular-level understanding empowered by computational methods. Trends in Food Science & Technology, 116, 445-459. DOI: https://doi.org/10.1016/j.tifs.2021.07.013
  15. Giotopoulou, G. A., Ntaliarda, G., Μarazioti, A., Lilis, I., Spiropoulou, N., Kalogianni, F., … & Stathopoulos, G. T. (2021). cAMP response element-binding protein mediates immune-evasion of KRAS-mutant lung adenocarcinoma.
  16. Marazioti, A., Voulgaridis, A., Psallidas, I., Lamort, A., Iliopoulou, M., Krontira, A. C., … & Stathopoulos, G. T. (2020). Clinical identification of malignant pleural effusions.
  17. Gudin, J., Mavroudi, S., Korfiati, A., Theofilatos, K., Dietze, D., & Hurwitz, P. (2020). Reducing opioid prescriptions by identifying responders on topical analgesic treatment using an individualized medicine and predictive analytics approach. Journal of pain research, 13, 1255. DOI: https://www.dovepress.com/reducing-opioid-prescriptions-by-identifying-responders-on-topical-ana-peer-reviewed-article-JPR.
  18. Theofilatos, K., Korfiati, A., Mavroudi, S., Cowperthwaite, M. C., & Shpak, M. (2019). Discovery of stroke-related blood biomarkers from gene expression network models. BMC medical genomics, 12(1), 118. DOI: https://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12920-019-0566-8.
  19. Düzgün, M. B., Theofilatos, K., Georgakilas, A. G., & Pavlopoulou, A. (2019). A Bioinformatic Approach for the Identification of Molecular Determinants of Resistance/Sensitivity to Cancer Thermotherapy. Oxidative Medicine and Cellular Longevity, 2019. DOI: https://www.hindawi.com/journals/omcl/2019/4606219/.
  20. 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.
  21. 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.
  22. 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.
  23. 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.
  24. 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.
  25. 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.
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