Publications

* first or co-first author ✉ corresponding author (project supervision)
Eleftherios Bochalis, Michail Patsakis, Nikol Chantzi, Ioannis Mouratidis, Dionysios V Chartoumpekis, Ilias Georgakopoulos-Soares (2025). Taxonomic quasi-primes: peptides charting lineage-specific adaptations and disease-relevant loci. Protein Science.
DOI
Nikol Chantzi, Candace SY Chan, Michail Patsakis, Akshatha Nayak, Austin Montgomery, Ioannis Mouratidis, Ilias Georgakopoulos-Soares (2025). Ribosomal DNA arrays are the most H-DNA rich element in the human genome. NAR Genomics and Bioinformatics.
DOI
Emmanouil Panagiotou, Ioannis Athanasios Vathiotis, Austin Montgomery, Camille Moeckel, Mirsini Livanou, Michail Mastrogeorgiou, Athanasios Trimis, Ioannis Trontzas, Nikolaos Konstantinos Syrigos, Ioannis Mouratidis, et al. (2025). Real-world survival outcomes with first-line chemoimmunotherapy and biomarker analysis in extensive-stage small-cell lung cancer. Clinical and Translational Oncology.
DOI
Christos Papalitsas, Ioannis Mouratidis, Michail Patsakis, Evangelos Stogiannos, Ilias Georgakopoulos-Soares, Grigorios Koulouras (2025). Quantum implementation of multi-pattern string matching for k-mer detection. bioRxiv.
DOI
Nikol Chantzi, Akshatha Nayak, Fotis A Baltoumas, Eleni Aplakidou, Shiau Wei Liew, Jesslyn Elvaretta Galuh, Michail Patsakis, Austin Montgomery, Camille Moeckel, Ioannis Mouratidis, et al. (2025). Quadrupia provides a comprehensive catalog of G-quadruplexes across genomes from the tree of life. Genome research.
DOI
Jingjing Zhao, Fotis A Baltoumas, Maxwell A Konnaris, Ioannis Mouratidis, Zhe Liu, Jasmine Sims, Vikram Agarwal, Georgios A Pavlopoulos, Ilias Georgakopoulos-Soares, Nadav Ahituv (2025). MPRAbase a Massively Parallel Reporter Assay database. Genome Research.
DOI
Michail Patsakis, Ioannis Mouratidis, Ilias Georgakopoulos-Soares (2025). Minimum-Cost Synthetic Genome Planning: An Algorithmic Framework. arXiv preprint arXiv:2509.06234.
arXiv
Michail Patsakis, Kimonas Provatas, Fotis A Baltoumas, Nikol Chantzi, Ioannis Mouratidis, Georgios A Pavlopoulos, Ilias Georgakopoulos-Soares (2025). MAFin: motif detection in multiple alignment files. Bioinformatics.
DOI
Michail Patsakis, Kimonas Provatas, Aris Karatzikos, Charalampos Koilakos, Ioannis Mouratidis, Ilias Georgakopoulos-Soares (2025). MAFcounter: an efficient tool for counting the occurrences of k-mers in MAF files. BMC bioinformatics.
DOI ✉
Ilias Georgakopoulos-Soares, Ofer Yizhar-Barnea, Ioannis Mouratidis, Candace SY Chan, Michail Patsakis, Akshatha Nayak, Rachael Bradley, Mayank Mahajan, Jasmine Sims, Dianne Laboy Cintron, et al. (2025). Leveraging sequences missing from the human genome to diagnose cancer. Communications Medicine.
DOI *