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https://hdl.handle.net/123456789/967| Τύπος: | Άρθρο σε επιστημονικό περιοδικό |
| Τίτλος: | 0s and 1s in marine molecular research: a regional HPC perspective |
| Συγγραφέας: | [EL] Ζαφειρόπουλος, Χαράλαμπος[EN] Zafeiropoulos, Charalampos [EL] Γιώτη, Αναστασία[EN] Gioti, Anastasia [EL] Νινιδάκης, Στέλιος[EN] Ninidakis, Stelios [EL] Ποτηράκης, Αντώνης[EN] Potirakis, Antonis [EL] Παραγκαμιάν, Σάββας[EN] Paragkamian, Savvas [EN] Angelova, Nelina [EL] Αντωνίου, Αγλαΐα[EN] Antoniou, Aglaia [EL] Δάνης, Θεόδωρος[EN] Danis, Theodoros [EL] Καϊτετζίδου, Ελισάβετ[EN] Kaitetzidou, Elisavet [EL] Κασαπίδης, Παναγιώτης[EN] Kasapidis, Panagiotis [EN] Kristoffersen, Jon Bent [EL] Παπαδογιάννης, Βασίλειος[EN] Papadogiannis, Vasileios [EL] Παυλούδη, Χριστίνα[EN] Pavloudi, Christina [EN] Ha, Quoc Viet [EN] Lagnel, Jacques [EL] Παττακός, Νίκος[EN] Pattakos, Nikolaos [EL] Περαντινός, Γεώργιος[EN] Perantinos, George [EL] Σιδηροκαστρίτης, Δημήτρης[EN] Sidirokastritis, Dimitris [EL] Βαβίλης, Παναγιώτης[EN] Vavilis, Panagiotis [EL] Κωτούλας, Γεώργιος[EN] Kotoulas, Georgios [EL] Μανουσάκη, Τερέζα[EN] Manousaki, Tereza [EL] Σαρροπούλου, Έλενα[EN] Sarropoulou, Elena [EL] Τσιγκενόπουλος, Κωνσταντίνος[EN] Tsigenopoulos, Constantinos [EL] Αρβανιτίδης, Χρήστος[EN] Arvanitidis, Christos [EL] Μαγουλάς, Αντώνιος[EN] Magoulas, Antonios [EL] Παφίλης, Ευάγγελος[EN] Pafilis, Evangelos |
| Ημερομηνία: | 20/07/2021 |
| Περίληψη: | High-performance computing (HPC) systems have become indispensable for modern marine research, providing support to an increasing number and diversity of users. Pairing with the impetus offered by high-throughput methods to key areas such as non-model organism studies, their operation continuously evolves to meet the corresponding computational challenges. Here, we present a Tier 2 (regional) HPC facility, operating for over a decade at the Institute of Marine Biology, Biotechnology, and Aquaculture of the Hellenic Centre for Marine Research in Greece. Strategic choices made in design and upgrades aimed to strike a balance between depth (the need for a few high-memory nodes) and breadth (a number of slimmer nodes), as dictated by the idiosyncrasy of the supported research. Qualitative computational requirement analysis of the latter revealed the diversity of marine fields, methods, and approaches adopted to translate data into knowledge. In addition, hardware and software architectures, usage statistics, policy, and user management aspects of the facility are presented. Drawing upon the last decade’s experience from the different levels of operation of the Institute of Marine Biology, Biotechnology, and Aquaculture HPC facility, a number of lessons are presented; these have contributed to the facility’s future directions in light of emerging distribution technologies (e.g., containers) and Research Infrastructure evolution. In combination with detailed knowledge of the facility usage and its upcoming upgrade, future collaborations in marine research and beyond are envisioned. |
| Γλώσσα: | Αγγλικά |
| Σελίδες: | 12 |
| DOI: | 10.1093/gigascience/giab053 |
| EISSN: | 2047-217X |
| Θεματική κατηγορία: | [EL] Ιατρική, άλλοι τομείς[EN] Medicine, miscellaneous |
| Λέξεις-κλειδιά: | marine research; high performance computing; containerization; computational requirements; high-throughput sequencing; research infrastructures; biodiversity; biotechnology; Aquaculture |
| Κάτοχος πνευματικών δικαιωμάτων: | © The Author(s) 2021 |
| Όροι και προϋποθέσεις δικαιωμάτων: | Published by Oxford University Press GigaScience. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
| Ηλεκτρονική διεύθυνση του τεκμηρίου στον εκδότη: | https://academic.oup.com/gigascience/article/10/8/giab053/6353916?login=true |
| Ηλεκτρονική διεύθυνση περιοδικού: | https://academic.oup.com/gigascience |
| Τίτλος πηγής δημοσίευσης: | GigaScience |
| Τεύχος: | 8 |
| Τόμος: | 10 |
| Σελίδες τεκμηρίου (στην πηγή): | 1-12 |
| Σημειώσεις: | Funding for the Institute of Marine Biology, Biotechnology and Aquaculture high-performance computing facility was made available through the MARBIGEN project No. FP7-REGPOT-2010- 1, the LifeWatchGreece Research Infrastructure (MIS 384676), and the Centre for the Study and Sustainable Exploitation of Marine Biological Resources (CMBR; MIS 5002670) Research Infrastructure, which is implemented under the action “Reinforcement of the Research and Innovation Infrastructure,” funded by the Operational Programme Competitiveness, Entrepreneurship, and Innovation (NSRF 2014–2020) and co-financed by Greece and the European Union (European Regional Development Fund). |
| Εμφανίζεται στις συλλογές: | Μεταδιδακτορικοί ερευνητές |
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| Δημοσιεύσεις-2-13.pdf | 1.97 MB | Adobe PDF | Δημοσιευμένη/του Εκδότη |  | Δείτε/ανοίξτε |