Fotis E. Psomopoulos

Publication Activity (10 Years)

Years Active: 2010-2024
Publications (10 Years): 33

Top Topics

Protein Sequences

Machine Learning

Cloud Computing

Top Venues

PLoS Comput. Biol.

Publications

Vladimir Makarov, Christophe Chabbert, Elina Koletou, Fotis E. Psomopoulos, Natalja Kurbatova, Samuel A. Ramirez, Chas Nelson, Prashant Natarajan, Bikalpa Neupane
Good machine learning practices: Learnings from the modern pharmaceutical discovery enterprise. Comput. Biol. Medicine 177 (2024)
Styliani-Christina Fragkouli, Dhwani Solanki, Leyla Jael Castro, Fotis E. Psomopoulos, Núria Queralt-Rosinach, Davide Cirillo, Lisa C. Crossman
Synthetic data: How could it be used for infectious disease research? CoRR (2024)
Robert M. Waterhouse, Anne-Françoise Adam-Blondon, Bachir Balech, Endre Barta, Katharina F. Heil, Graham M. Hughes, Lars S. Jermiin, Matús Kalas, Jerry Lanfear, Evangelos Pafilis, Aristotelis C. Papageorgiou, Fotis E. Psomopoulos, Niels Raes, Josephine Burgin, Toni Gabaldón
The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity. F1000Research 12 (2023)
Konstantinos A Kyritsis, Nikolaos Pechlivanis, Fotis E. Psomopoulos
Software pipelines for RNA-Seq, ChIP-Seq and germline variant calling analyses in common workflow language (CWL). Frontiers Bioinform. 3 (2023)
Olga L. Giraldo, Renato Alves, Dimitrios Bampalikis, José M. Fernández, Eva Martin Del Pico, Fotis E. Psomopoulos, Nelson Quiñones, Dhwani Solanki, Allegra Via, Leyla Jael Castro
A metadata analysis for machine-actionable Software Management Plans. SWAT4HCLS (2023)
Saskia Hiltemann, Helena Rasche, Simon L. Gladman, Hans-Rudolf Hotz, Delphine Larivière, Daniel J. Blankenberg, Pratik D. Jagtap, Thomas Wollmann, Anthony Bretaudeau, Nadia Goué, Timothy J. Griffin, Coline Royaux, Yvan Le Bras, Subina P. Mehta, Anna Syme, Frederik Coppens, Bert Droesbeke, Nicola Soranzo, Wendi A. Bacon, Fotis E. Psomopoulos, Cristóbal Gallardo-Alba, John Davis, Melanie Christine Föll, Matthias Fahrner, Maria A. Doyle, Beatriz Serrano-Solano, Anne Fouilloux, Peter van Heusden, Wolfgang Maier, Dave Clements, Florian Heyl, The Galaxy Team, Björn A. Grüning, Bérénice Batut
Galaxy Training: A powerful framework for teaching! PLoS Comput. Biol. 19 (1) (2023)
Leyla Jael Castro, Dietrich Rebholz-Schuhmann, Nelson Quiñones, Dimitrios Bampalikis, Olga L. Giraldo, Eva Martin Del Pico, Allegra Via, Dhwani Solanki, Lukas Geist, Fotis E. Psomopoulos, Renato Alves, José María Fernández González
A metadata schema for machine-actionable Software Management Plans. DaMaLOS (2023)
E. A. Huerta, Ben Blaiszik, L. Catherine Brinson, Kristofer E. Bouchard, Daniel Diaz, Caterina Doglioni, Javier M. Duarte, Murali Emani, Ian T. Foster, Geoffrey C. Fox, Philip C. Harris, Lukas Heinrich, Shantenu Jha, Daniel S. Katz, Volodymyr V. Kindratenko, Christine R. Kirkpatrick, Kati Lassila-Perini, Ravi K. Madduri, Mark S. Neubauer, Fotis E. Psomopoulos, Avik Roy, Oliver Rübel, Zhizhen Zhao, Ruike Zhu
FAIR for AI: An interdisciplinary, international, inclusive, and diverse community building perspective. CoRR (2022)
Laura Zaragoza-Infante, Valentin Junet, Nikos Pechlivanis, Styliani-Christina Fragkouli, Serovpe Amprachamian, Triantafyllia Koletsa, Anastasia Chatzidimitriou, Maria Papaioannou, Kostas Stamatopoulos, Andreas Agathangelidis, Fotis E. Psomopoulos
IgIDivA: immunoglobulin intraclonal diversification analysis. Briefings Bioinform. 23 (5) (2022)
Daniel S. Katz, Fotis E. Psomopoulos, Leyla Jael Castro
Working Towards Understanding the Role of FAIR for Machine Learning. DaMaLOS (2021)
Kim T. Gurwitz, Prakash Singh Gaur, Louisa J. Bellis, Lee D. Larcombe, Eva Alloza, Balint Laszlo Balint, Alexander Botzki, Jure Dimec, Victoria Dominguez Del Angel, Pedro L. Fernandes, Eija Korpelainen, Roland Krause, Mateusz Kuzak, Loredana Le Pera, Brane Leskosek, Jessica M. Lindvall, Diana Marek, Paula Andrea Martínez, Tuur Muyldermans, Ståle Nygård, Patricia M. Palagi, Hedi Peterson, Fotis E. Psomopoulos, Vojtech Spiwok, Celia W. G. van Gelder, Allegra Via, Marko Vidak, Daniel Wibberg, Sarah L. Morgan, Gabriella Rustici
A framework to assess the quality and impact of bioinformatics training across ELIXIR. PLoS Comput. Biol. 16 (7) (2020)
Maria Th. Kotouza, Fotis E. Psomopoulos, Pericles A. Mitkas
A dockerized framework for hierarchical frequency-based document clustering on cloud computing infrastructures. J. Cloud Comput. 9 (2020)
Anna-Lena Lamprecht, Leyla J. García, Mateusz Kuzak, Carlos Martinez-Ortiz, Ricardo Arcila, Eva Martin Del Pico, Victoria Dominguez Del Angel, Stephanie van de Sandt, Jon C. Ison, Paula Andrea Martínez, Peter McQuilton, Alfonso Valencia, Jennifer L. Harrow, Fotis E. Psomopoulos, Josep Lluis Gelpí, Neil P. Chue Hong, Carole A. Goble, Salvador Capella-Gutiérrez
Towards FAIR principles for research software. Data Sci. 3 (1) (2020)
Leyla J. García, Michelle Barker, Neil P. Chue Hong, Fotis E. Psomopoulos, Jennifer L. Harrow, Daniel S. Katz, Mateusz Kuzak, Paula Andrea Martínez, Allegra Via
Software as a first-class citizen in research. DaMaLOS (2020)
Ian Walsh, Dmytro Fishman, Dario Garcia-Gasulla, Tiina Titma, Jen Harrow, Fotis E. Psomopoulos, Silvio C. E. Tosatto
Recommendations for machine learning validation in biology. CoRR (2020)
Maria Th. Kotouza, Katerina Gemenetzi, Chrysi Galigalidou, Elisavet Vlachonikola, Nikolaos Pechlivanis, Andreas Agathangelidis, Raphael Sandaltzopoulos, Pericles A. Mitkas, Kostas Stamatopoulos, Anastasia Chatzidimitriou, Fotis E. Psomopoulos
TRIP - T cell receptor/immunoglobulin profiler. BMC Bioinform. 21 (1) (2020)
Leyla J. García, Bérénice Batut, Melissa L. Burke, Mateusz Kuzak, Fotis E. Psomopoulos, Ricardo Arcila, Teresa K. Attwood, Niall Beard, Denise Carvalho-Silva, Alexandros C. Dimopoulos, Victoria Dominguez Del Angel, Michel Dumontier, Kim T. Gurwitz, Roland Krause, Peter McQuilton, Loredana Le Pera, Sarah L. Morgan, Päivi Rauste, Allegra Via, Pascal Kahlem, Gabriella Rustici, Celia W. G. van Gelder, Patricia M. Palagi
Ten simple rules for making training materials FAIR. PLoS Comput. Biol. 16 (5) (2020)
Athanassios M. Kintsakis, Fotis E. Psomopoulos, Pericles A. Mitkas
Reinforcement Learning based scheduling in a workflow management system. Eng. Appl. Artif. Intell. 81 (2019)
Maria Th. Kotouza, Fotis E. Psomopoulos, Pericles A. Mitkas
A Dockerized String Analysis Workflow for Big Data. ADBIS (Short Papers and Workshops) (2019)
Mingfang Wu, Fotis E. Psomopoulos, Siri Jodha Khalsa, Anita de Waard
Data Discovery Paradigms: User Requirements and Recommendations for Data Repositories. Data Sci. J. 18 (2019)
Maria Th. Kotouza, Konstantinos N. Vavliakis, Fotis E. Psomopoulos, Pericles A. Mitkas
A Hierarchical Multi-Metric Framework for Item Clustering. BDCAT (2018)
Mateusz Kuzak, Jen Harrow, Rafael C. Jimenez, Paula Andrea Martínez, Fotis E. Psomopoulos, Radka Svobodová Vareková, Allegra Via
Lesson Development for Open Source Software Best Practices Adoption. eScience (2018)
Sotirios-Filippos Tsarouchis, Maria Th. Kotouza, Fotis E. Psomopoulos, Pericles A. Mitkas
A Multi-metric Algorithm for Hierarchical Clustering of Same-Length Protein Sequences. AIAI (Workshops) (2018)
Kathleen Gregory, Siri Jodha Khalsa, William K. Michener, Fotis E. Psomopoulos, Anita de Waard, Mingfang Wu
Eleven quick tips for finding research data. PLoS Comput. Biol. 14 (4) (2018)
Fotis E. Psomopoulos, Dimitrios M. Vitsios, Shakuntala Baichoo, Christos A. Ouzounis
BioPAXViz: a cytoscape application for the visual exploration of metabolic pathway evolution. Bioinform. 33 (9) (2017)
Athanassios M. Kintsakis, Fotis E. Psomopoulos, Andreas L. Symeonidis, Pericles A. Mitkas
Hermes: Seamless delivery of containerized bioinformatics workflows in hybrid cloud (HTC) environments. SoftwareX 6 (2017)
Emmanouil G. Tsardoulias, Athanassios M. Kintsakis, Konstantinos Panayiotou, Aristeidis G. Thallas, Sofia E. Reppou, George Karagiannis, Miren Iturburu, Stratos Arampatzis, Cezary Zielinski, Vincent Prunet, Fotis E. Psomopoulos, Andreas L. Symeonidis, Pericles A. Mitkas
Towards an integrated robotics architecture for social inclusion - The RAPP paradigm. Cogn. Syst. Res. 43 (2017)
Cezary Zielinski, Maciej Stefanczyk, Tomasz Kornuta, Maksym Figat, Wojciech Dudek, Wojciech Szynkiewicz, Wlodzimierz Kasprzak, Jan Figat, Marcin Szlenk, Tomasz Winiarski, Konrad Banachowicz, Teresa Zielinska, Emmanouil G. Tsardoulias, Andreas L. Symeonidis, Fotis E. Psomopoulos, Athanassios M. Kintsakis, Pericles A. Mitkas, Aristeidis G. Thallas, Sofia E. Reppou, George Karagiannis, Konstantinos Panayiotou, Vincent Prunet, Manuel Serrano, Jean-Pierre Merlet, Stratos Arampatzis, Alexandros Gkiokas, Lazaros Penteridis, Ilias Trochidis, David Daney, Miren Iturburu
Variable structure robot control systems: The RAPP approach. Robotics Auton. Syst. 94 (2017)
Emmanouil Stergiadis, Athanassios M. Kintsakis, Fotis E. Psomopoulos, Pericles A. Mitkas
A Scalable Grid Computing Framework for Extensible Phylogenetic Profile Construction. AIAI (2016)
Athanassios M. Kintsakis, Fotis E. Psomopoulos, Pericles A. Mitkas
Data-aware optimization of bioinformatics workflows in hybrid clouds. J. Big Data 3 (2016)
Sofia Reppou, Emmanouil G. Tsardoulias, Athanassios M. Kintsakis, Andreas L. Symeonidis, Pericles A. Mitkas, Fotis E. Psomopoulos, George Karagiannis, Cezary Zielinski, Vincent Prunet, Jean-Pierre Merlet, Miren Iturburu, Alexandros Gkiokas
RAPP: A Robotic-Oriented Ecosystem for Delivering Smart User Empowering Applications for Older People. Int. J. Soc. Robotics 8 (4) (2016)
Dimitrios M. Vitsios, Fotis E. Psomopoulos, Pericles A. Mitkas, Christos A. Ouzounis
Inference of Pathway Decomposition Across Multiple Species Through Gene Clustering. Int. J. Artif. Intell. Tools 24 (1) (2015)
Olga T. Vrousgou, Fotis E. Psomopoulos, Pericles A. Mitkas
A Grid-Enabled Modular Framework for Efficient Sequence Analysis Workflows. EANN (2015)
Fotis E. Psomopoulos, Pericles A. Mitkas
Algebraic Interpretations Towards Clustering Protein Homology Data. AIAI Workshops (2014)
Fotis E. Psomopoulos, Pericles A. Mitkas
Multi-Level Clustering of Phylogenetic Profiles. Int. J. Artif. Intell. Tools 21 (5) (2012)
Dimitrios M. Vitsios, Fotis E. Psomopoulos, Pericles A. Mitkas, Christos A. Ouzounis
Multi-genome Core Pathway Identification through Gene Clustering. AIAI (2) (2012)
Fotis E. Psomopoulos, Pericles A. Mitkas
Multi Level Clustering of Phylogenetic Profiles. BIBE (2010)
Fotis E. Psomopoulos, Pericles A. Mitkas
Bioinformatics algorithm development for Grid environments. J. Syst. Softw. 83 (7) (2010)