{"entity": "researcher", "timestamp": "2026-09-23T21:22:02.878Z", "family": "Psomopoulos", "given": "Fotis", "initials": "F", "orcid": "0000-0002-0222-4273", "affiliations": ["Institute of Applied Biosciences (INAB), Center for Research and Technology Hellas (CERTH), Thessaloniki, Greece."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/90789e7b723a4c85a5fc1d19b3c46ca3.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/90789e7b723a4c85a5fc1d19b3c46ca3"}}, "publications": [{"entity": "publication", "iuid": "f52f8a7a64c241d1bde3df479d0344fb", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/f52f8a7a64c241d1bde3df479d0344fb.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/f52f8a7a64c241d1bde3df479d0344fb"}}, "title": "Toward a unified approach: Considerations for bioinformatic and sequencing activities & data in wastewater surveillance of biologic public health threats.", "authors": [{"family": "Psomopoulos", "given": "Fotis", "initials": "F", "orcid": "0000-0002-0222-4273", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/90789e7b723a4c85a5fc1d19b3c46ca3.json"}}, {"family": "O'Cathail", "given": "Colman", "initials": "C"}, {"family": "Anastasiadou", "given": "Natasa", "initials": "N", "orcid": "0009-0003-2908-7656", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/baefd49097964b27b9a7e14f8946ac6b.json"}}, {"family": "Cocuzza", "given": "Clementina", "initials": "C", "orcid": "0000-0001-6166-1134", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/66c3c22a20d44690b7aa54fd88b2054c.json"}}, {"family": "Cuypers", "given": "Wim L", "initials": "WL"}, {"family": "Idowu", "given": "Olateju", "initials": "O"}, {"family": "Kyritsis", "given": "Konstantinos", "initials": "K"}, {"family": "Lauer", "given": "Katharina B", "initials": "KB"}, {"family": "Lavitrano", "given": "Marialuisa", "initials": "M", "orcid": "0000-0003-4852-1318", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5a84b7656d254782a9e0436a20683441.json"}}, {"family": "Leoni", "given": "Gabriele", "initials": "G", "orcid": "0000-0002-4899-5284", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a01a26ed1e634bb3823f4b1be7cafcef.json"}}, {"family": "Liu", "given": "Ju-Ling", "initials": "JL", "orcid": "0000-0002-5366-7461", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/47995323c22a4674b9bbc66a7b88ad7d.json"}}, {"family": "Macori", "given": "Guerrino", "initials": "G"}, {"family": "Mannar\u00e0", "given": "Giulio", "initials": "G"}, {"family": "Manuel", "given": "Douglas G", "initials": "DG", "orcid": "0000-0003-0912-0845", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f1f925ac6d644a4b9138c5b027c220be.json"}}, {"family": "Martinelli", "given": "Marianna", "initials": "M", "orcid": "0000-0003-2273-6986", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0cb06e55f6c14f319c742acdfdf5c4c4.json"}}, {"family": "Musumeci", "given": "Rosario", "initials": "R", "orcid": "0000-0003-0143-3601", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/24f26f6ce7974695a94c4b96ca08f92e.json"}}, {"family": "Neves", "given": "Aitana", "initials": "A", "orcid": "0000-0002-3984-6842", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/13cda16afb8f47f18b47542f76e546ef.json"}}, {"family": "Pechlivanis", "given": "Nikos", "initials": "N", "orcid": "0000-0003-2502-612X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ad55105f6f094546ab4f24a789b5a94f.json"}}, {"family": "Petrillo", "given": "Mauro", "initials": "M", "orcid": "0000-0002-6782-4704", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ee3cb672d7584081ae0ca267e6da6526.json"}}, {"family": "Ragoussis", "given": "Jiannis", "initials": "J", "orcid": "0000-0002-8515-0934", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4bff962f3eda4295854b5fa12f1188c5.json"}}, {"family": "Rahman", "given": "Nadim", "initials": "N"}, {"family": "\u00d6jefors Stark", "given": "Katarina", "initials": "K", "orcid": "0000-0001-7970-7778", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f3b5ea711d8647849e659ca72a278247.json"}}, {"family": "Thomson", "given": "Mathew", "initials": "M", "orcid": "0000-0002-8155-3840", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d5252b8e3c8e4c3e9dc452dbf4af7b49.json"}}, {"family": "Wade", "given": "Matthew J", "initials": "MJ", "orcid": "0000-0001-9824-7121", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2b24c7e0130140cc905803d4a44c6222.json"}}, {"family": "Wright", "given": "Michael", "initials": "M"}, {"family": "ELIXIR Wastewater Surveillance Working Group", "given": "", "initials": ""}], "type": "letter", "published": "2026-07-06", "journal": {"title": "Open Res Eur", "issn": "2732-5121", "volume": "5", "pages": "267", "issn-l": null}, "abstract": "Genomic technologies such as PCR and next-generation sequencing (NGS) have greatly advanced public health surveillance, especially during COVID-19, by enabling detailed tracking of pathogen spread, origins, and variants. While PCR is vital for targeted detection, falling NGS costs have made large-scale, high-throughput sequencing more feasible, supporting broader pathogen monitoring-including the detection of vaccine escape variants and new strains. Applying NGS to wastewater offers valuable population-level insights but faces challenges such as variable sample complexity, the need for skilled staff, suitable platforms, and robust IT infrastructure. Although there are currently a lot of efforts towards defining guidelines for sampling, analysis, and integrating wastewater data into public health policy, such as the recently published International Cookbook for Wastewater Practitioners, they often lack universal applicability, emphasizing the analytical approaches in favour of the NGS-based approaches. However, standardising protocols for sampling, sequencing, and analysis is crucial to ensure reliable, comparable data across surveillance systems worldwide. Pilot studies and continuous refinement are recommended to overcome implementation hurdles and fully realise the benefits of NGS in wastewater surveillance. This work attempts to outline these challenges and opportunities across the entire wastewater surveillance workflow, from data generation to reporting, and provide some concrete suggestions and considerations across the spectrum of activities. We further highlight that the infrastructure, funding and government-policy context in which surveillance operates acts as an enabling condition for these activities, and that technical standardisation alone is unlikely to deliver durable, comparable surveillance in its absence.", "doi": "10.12688/openreseurope.20934.3", "pmid": "42718542", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC13550913"}], "notes": [], "created": "2026-09-23T14:54:49.504Z", "modified": "2026-09-23T14:54:49.997Z"}, {"entity": "publication", "iuid": "5fc68a8254ca4f92bbec9227ed21e7f0", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/5fc68a8254ca4f92bbec9227ed21e7f0.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/5fc68a8254ca4f92bbec9227ed21e7f0"}}, "title": "A framework to assess the quality and impact of bioinformatics training across ELIXIR.", "authors": [{"family": "Gurwitz", "given": "Kim T", "initials": "KT", "orcid": "0000-0003-1992-5073", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d60b46f142cc499590b1e01116be0ada.json"}}, {"family": "Singh Gaur", "given": "Prakash", "initials": "P", "orcid": "0000-0003-3272-628X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5a450d35bd9e4782b3fdb4863e2ac3f2.json"}}, {"family": "Bellis", "given": "Louisa J", "initials": "LJ", "orcid": "0000-0001-9581-870X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8c9845f4eec643b393800d7fab19c935.json"}}, {"family": "Larcombe", "given": "Lee", "initials": "L", "orcid": "0000-0003-3150-6445", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/25e33df3dae840e29834473eeab6a477.json"}}, {"family": "Alloza", "given": "Eva", "initials": "E", "orcid": "0000-0001-8385-9336", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/689d453b280e4a6d92f9ce2b6a3e416c.json"}}, {"family": "Balint", "given": "Balint Laszlo", "initials": "BL"}, {"family": "Botzki", "given": "Alexander", "initials": "A", "orcid": "0000-0001-6691-4233", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8fa68e29c93f4ac590c075d2d74ae829.json"}}, {"family": "Dimec", "given": "Jure", "initials": "J", "orcid": "0000-0002-9525-9028", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ae1de4d5d97c4cc2bfa00e2b7a625a68.json"}}, {"family": "Dominguez Del Angel", "given": "Victoria", "initials": "V", "orcid": "0000-0002-5514-6651", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9b58d737aa5741b39bfb13121aaab6f4.json"}}, {"family": "Fernandes", "given": "Pedro L", "initials": "PL", "orcid": "0000-0003-2124-0241", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/43868bcd280e4e949f3f82fc94ca25d8.json"}}, {"family": "Korpelainen", "given": "Eija", "initials": "E"}, {"family": "Krause", "given": "Roland", "initials": "R", "orcid": "0000-0001-9938-7126", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ce39b6a8ab614d989c38b1731bd2f613.json"}}, {"family": "Kuzak", "given": "Mateusz", "initials": "M", "orcid": "0000-0003-0087-6021", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9ba8e256af9b495f845e2320d0327de2.json"}}, {"family": "Le Pera", "given": "Loredana", "initials": "L", "orcid": "0000-0002-0076-9878", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/67b4ce08fd2a483d830589ffda1de1ed.json"}}, {"family": "Lesko\u0161ek", "given": "Brane", "initials": "B", "orcid": "0000-0001-5202-2349", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d4051af8eee64c73927849e76ce2a9c1.json"}}, {"family": "Lindvall", "given": "Jessica M", "initials": "JM", "orcid": "0000-0002-5042-8481", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c278fdf51da04602952b17cb762aa8d3.json"}}, {"family": "Marek", "given": "Diana", "initials": "D", "orcid": "0000-0002-9812-6351", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9a050cbf1f54f4db6d80bf8f8be8dda.json"}}, {"family": "Martinez", "given": "Paula A", "initials": "PA", "orcid": "0000-0002-8990-1985", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/269b0755ea474684b4be34dc0869c2d2.json"}}, {"family": "Muyldermans", "given": "Tuur", "initials": "T", "orcid": "0000-0002-3926-7293", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/40c4053a79ec40c099f5a8e28bd47a8f.json"}}, {"family": "Nyg\u00e5rd", "given": "St\u00e5le", "initials": "S"}, {"family": "Palagi", "given": "Patricia M", "initials": "PM", "orcid": "0000-0001-9062-6303", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/05346c95d17d474e8308bc9b7eca0048.json"}}, {"family": "Peterson", "given": "Hedi", "initials": "H", "orcid": "0000-0001-9951-5116", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ca7101716d7e455bacfbdb3334fb9fa3.json"}}, {"family": "Psomopoulos", "given": "Fotis", "initials": "F", "orcid": "0000-0002-0222-4273", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/90789e7b723a4c85a5fc1d19b3c46ca3.json"}}, {"family": "Spiwok", "given": "Vojtech", "initials": "V", "orcid": "0000-0001-8108-2033", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/af938583c97a447eb7e4296dda31e46b.json"}}, {"family": "van Gelder", "given": "Celia W G", "initials": "CWG", "orcid": "0000-0002-0223-2329", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/25d688d318f74221bc35ce7cf6e839c0.json"}}, {"family": "Via", "given": "Allegra", "initials": "A"}, {"family": "Vidak", "given": "Marko", "initials": "M", "orcid": "0000-0001-7901-3936", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a094068615e648e5a17c3c0f77779e6a.json"}}, {"family": "Wibberg", "given": "Daniel", "initials": "D", "orcid": "0000-0002-1331-4311", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a325b0df89644451bdda9c167a36b7f8.json"}}, {"family": "Morgan", "given": "Sarah L", "initials": "SL", "orcid": "0000-0001-9528-8323", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cb13f958b85a4488a8f2bfd2d7303828.json"}}, {"family": "Rustici", "given": "Gabriella", "initials": "G", "orcid": "0000-0003-3085-1271", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9778fe2d4f70485f9b0f823a86ee6a6e.json"}}], "type": "journal article", "published": "2020-07-00", "journal": {"title": "PLoS Comput Biol", "issn": "1553-7358", "volume": "16", "issue": "7", "pages": "e1007976", "issn-l": "1553-734X"}, "abstract": "ELIXIR is a pan-European intergovernmental organisation for life science that aims to coordinate bioinformatics resources in a single infrastructure across Europe; bioinformatics training is central to its strategy, which aims to develop a training community that spans all ELIXIR member states. In an evidence-based approach for strengthening bioinformatics training programmes across Europe, the ELIXIR Training Platform, led by the ELIXIR EXCELERATE Quality and Impact Assessment Subtask in collaboration with the ELIXIR Training Coordinators Group, has implemented an assessment strategy to measure quality and impact of its entire training portfolio. Here, we present ELIXIR's framework for assessing training quality and impact, which includes the following: specifying assessment aims, determining what data to collect in order to address these aims, and our strategy for centralised data collection to allow for ELIXIR-wide analyses. In addition, we present an overview of the ELIXIR training data collected over the past 4 years. We highlight the importance of a coordinated and consistent data collection approach and the relevance of defining specific metrics and answer scales for consortium-wide analyses as well as for comparison of data across iterations of the same course.", "doi": "10.1371/journal.pcbi.1007976", "pmid": "32702016", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC7377377"}, {"db": "pii", "key": "PCOMPBIOL-D-19-01778"}], "notes": [], "created": "2026-09-23T12:04:36.495Z", "modified": "2026-09-23T12:04:37.223Z"}]}