BSRC "Alexander Fleming" Publications

2025 - (16)

Kimonas Provatas, Nikol Chantzi, Nafsika Amptazi, Michail Patsakis, Akshatha Nayak, Ioannis Mouratidis, Apostolos Zaravinos, Georgios A Pavlopoulos, Ilias Georgakopoulos-Soares. 2025, "invertiaDB: a database of inverted repeats across organismal genomes.", Nucleic Acids Res., 2025 Apr 22; 53(8):gkaf329. doi: 10.1093/nar/gkaf329. [PubMed].

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 Res., 2025 Apr 22: gr.280387.124. doi: 10.1101/gr.280387.124. [PubMed].

Nikopaschou M, Samiotaki M, Stylianaki EA, Król K, Gragera P, Raja A, Aidinis V, Chroni A, Fruci D, Panayotou G, Stratikos E. 2025, "ERAP1 activity modulates the immunopeptidome but also affects the proteome, metabolism and stress responses in cancer cells.", Mol Cell Proteomics. , 2025 Apr 4 :100964. [PubMed].

Stylianaki EA, Magkrioti C, Kaffe E, Matralis AN, Aidinis V. 2025, "Amplex red assay, a standardized in vitro protocol to quantify the efficacy of autotaxin inhibitors.", STAR Protoc. , 2025 Apr 1; 6(2):103721. [PubMed].

Guillaume Dugied, Estelle Mn Laurent, Mikaël Attia, Jean-Pascal Gimeno, Kamel Bachiri, Payman Samavarchi-Tehrani, Flora Donati, Yannis Rahou, Sandie Munier, Faustine Amara, Mélanie Dos Santos, Nicolas Soler, Stevenn Volant, Natalia Pietrosemoli, Anne-Claude Gingras, Georgios A Pavlopoulos, Sylvie van der Werf, Pascal Falter-Braun, Patrick Aloy, Yves Jacob, Anastassia Komarova, Yorgos Sofianatos, Etienne Coyaud, Caroline Demeret. 2025, "Multimodal SARS-CoV-2 interactome sketches the virus-host spatial organization.", Commun Biol., 2025 Mar 26; 8(1):501. doi: 10.1038/s42003-025-07933-z. [PubMed].

Smyrniotis S, Kanellopoulou P, Magkrioti C, Aidinis V. 2025, "An optimized protocol for generating fibrotic murine precision-cut lung slices.", STAR Protoc., 2025 Mar 24; 6(2):103711. [PubMed].

Antonopoulou G, Magkrioti C, Chatzidaki I, Nastos D, Grammenoudi S, Bozonelos K, Aidinis V. 2025, "Generation of New Knock-Out Mouse Strains of Lysophosphatidic Acid Receptor 1.", Int J Mol Sci., 2025 Mar 20; 26(6):2811. [PubMed].

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., 2025 Mar 19: btaf125. doi: 10.1093/bioinformatics/btaf125. [PubMed].

Kanoura A, Giakountis A, Filippopoulou C, Karagiota A, Stamatakis G, Samiotaki M, Panayotou G, Simos G, Chachami G. 2025, "Interaction of TFAP2A with the Ku70/80 complex is crucial for HIF-dependent activation of hypoxia-inducible genes.", FEBS J. , 2025 Feb 24. doi: 10.1111/febs.70025. Online ahead of print. [PubMed].

Tomos I, Kanellopoulou P, Nastos D, Aidinis V. 2025, "Pharmacological targeting of ECM homeostasis, fibroblast activation, and invasion for the treatment of pulmonary fibrosis.", Expert Opin Ther Targets., 2025 Feb 22. [PubMed].

George I Gavriilidis, Vasileios Vasileiou, Stella Dimitsaki, Georgios Karakatsoulis, Antonis Giannakakis, Georgios A Pavlopoulos, Fotis Psomopoulos. 2025, "APNet, an explainable sparse deep learning model to discover differentially active drivers of severe COVID-19", Bioinformatics. , 2025 Feb 8:btaf063. doi: 10.1093/bioinformatics/btaf063. Online ahead of print. [PubMed].

Karakosta C, Samiotaki M, Bisoukis A, Bougioukas KI, Panayotou G, Papaconstantinou D, Moschos MM. 2025, "Differential Signaling Pathways Identified in Aqueous Humor, Anterior Capsule, and Crystalline Lens of Age-Related, Diabetic, and Post-Vitrectomy Cataract.", Proteomes. , 2025 Feb 3; 13(1):7. doi: 10.3390/proteomes13010007. [PubMed].

Spanou S, Makatounakis T, Filippopoulou C, Dougalis G, Stamatakis G, Nikolaou C, Samiotaki M, Chachami G, Papamatheakis J, Kretsovali A. 2025, "Promyelocytic Leukemia Protein (PML) Regulates Stem Cell Pluripotency Through Novel Sumoylation Targets.", Int J Mol Sci., 2025 Jan 28; 26(3):1145. doi: 10.3390/ijms26031145. [PubMed].

Ioannis Mouratidis, Maxwell A Konnaris, Nikol Chantzi, Candace S Y Chan, Michail Patsakis, Kimonas Provatas, Austin Montgomery, Fotis A Baltoumas, Congzhou M Sha, Manvita Mareboina, Georgios A Pavlopoulos, Dionysios V Chartoumpekis, Ilias Georgakopoulos-Soares. 2024, "Identification of the shortest species-specific oligonucleotide sequences", Genome Res., 2025 Jan 31. doi: 10.1101/gr.280070.124. Online ahead of print. [PubMed].

Mathijs P Scholtes, Maryam Akbarzadeh, Alexandros Galaras, J Alberto Nakauma-Gonzáles, Ameneh Bazrafshan, Vandana Solanki, Bram Torenvliet, Leila Beikmohammadi, Valeria Lozovanu, Shahla Romal, Panagiotis Moulos, Nikoleta Vavouraki, Tsung Wai Kan, Mahesh Algoe, Martin E van Royen, Andrea Sacchetti, Thierry P P van den Bosch, Bert Eussen, Annelies de Klein, Geert J L H van Leenders, Joost L Boormans, Pantelis Hatzis, Robert-Jan Palstra, Tahlita C M Zuiverloon, Tokameh Mahmoudi. 2025, "Integrative analysis of patient-derived tumoroids and ex vivo organoid modeling of ARID1A loss in bladder cancer reveals therapeutic molecular targets", Cancer Lett., 2025 Jan 29:217506. doi: 10.1016/j.canlet.2025.217506. Online ahead of print. [PubMed].

Mouratidis I, Konnaris M, Chantzi N, Chan CSY, Patsakis M, Provatas K, Montgomery A, Baltoumas FA, Sha CM, Mareboina M, Pavlopoulos GA, Chartoumpekis DV, Georgakopoulos-Soares I. 2025, "Identification of the shortest species-specific oligonucleotide sequences.", Genome Res., 2025 Jan 2: gr.280070.124. doi: 10.1101/gr.280070.124. Epub ahead of print. [PubMed].