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The bio.tools registry of software tools and data resources for the life sciences.
Ison J, Ienasescu H, Chmura P, Rydza E, Ménager H, Kalaš M, Schwämmle V, Grüning B, Beard N, Lopez R, Duvaud S, Stockinger H, Persson B, Vařeková RS, Raček T, Vondrášek J, Peterson H, Salumets A, Jonassen I, Hooft R, Nyrönen T, Valencia A, Capella S, Gelpí J, Zambelli F, Savakis B, Leskošek B, Rapacki K, Blanchet C, Jimenez R, Oliveira A, Vriend G, Collin O, van Helden J, Løngreen P, Brunak S. Ison J, et al. Among authors: kalas m. Genome Biol. 2019 Aug 12;20(1):164. doi: 10.1186/s13059-019-1772-6. Genome Biol. 2019. PMID: 31405382 Free PMC article.
The EMBRACE web service collection.
Pettifer S, Ison J, Kalas M, Thorne D, McDermott P, Jonassen I, Liaquat A, Fernández JM, Rodriguez JM; INB-Partners; Pisano DG, Blanchet C, Uludag M, Rice P, Bartaseviciute E, Rapacki K, Hekkelman M, Sand O, Stockinger H, Clegg AB, Bongcam-Rudloff E, Salzemann J, Breton V, Attwood TK, Cameron G, Vriend G. Pettifer S, et al. Among authors: kalas m. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W683-8. doi: 10.1093/nar/gkq297. Epub 2010 May 12. Nucleic Acids Res. 2010. PMID: 20462862 Free PMC article.
BioXSD: the common data-exchange format for everyday bioinformatics web services.
Kalas M, Puntervoll P, Joseph A, Bartaseviciūte E, Töpfer A, Venkataraman P, Pettifer S, Bryne JC, Ison J, Blanchet C, Rapacki K, Jonassen I. Kalas M, et al. Bioinformatics. 2010 Sep 15;26(18):i540-6. doi: 10.1093/bioinformatics/btq391. Bioinformatics. 2010. PMID: 20823319 Free PMC article.
Tools and data services registry: a community effort to document bioinformatics resources.
Ison J, Rapacki K, Ménager H, Kalaš M, Rydza E, Chmura P, Anthon C, Beard N, Berka K, Bolser D, Booth T, Bretaudeau A, Brezovsky J, Casadio R, Cesareni G, Coppens F, Cornell M, Cuccuru G, Davidsen K, Vedova GD, Dogan T, Doppelt-Azeroual O, Emery L, Gasteiger E, Gatter T, Goldberg T, Grosjean M, Grüning B, Helmer-Citterich M, Ienasescu H, Ioannidis V, Jespersen MC, Jimenez R, Juty N, Juvan P, Koch M, Laibe C, Li JW, Licata L, Mareuil F, Mičetić I, Friborg RM, Moretti S, Morris C, Möller S, Nenadic A, Peterson H, Profiti G, Rice P, Romano P, Roncaglia P, Saidi R, Schafferhans A, Schwämmle V, Smith C, Sperotto MM, Stockinger H, Vařeková RS, Tosatto SC, de la Torre V, Uva P, Via A, Yachdav G, Zambelli F, Vriend G, Rost B, Parkinson H, Løngreen P, Brunak S. Ison J, et al. Among authors: kalas m. Nucleic Acids Res. 2016 Jan 4;44(D1):D38-47. doi: 10.1093/nar/gkv1116. Epub 2015 Nov 3. Nucleic Acids Res. 2016. PMID: 26538599 Free PMC article.
ReGaTE: Registration of Galaxy Tools in Elixir.
Doppelt-Azeroual O, Mareuil F, Deveaud E, Kalaš M, Soranzo N, van den Beek M, Grüning B, Ison J, Ménager H. Doppelt-Azeroual O, et al. Among authors: kalas m. Gigascience. 2017 Jun 1;6(6):1-4. doi: 10.1093/gigascience/gix022. Gigascience. 2017. PMID: 28402416 Free PMC article.
Norwegian e-Infrastructure for Life Sciences (NeLS).
Tekle KM, Gundersen S, Klepper K, Bongo LA, Raknes IA, Li X, Zhang W, Andreetta C, Mulugeta TD, Kalaš M, Rye MB, Hjerde E, Antony Samy JK, Fornous G, Azab A, Våge DI, Hovig E, Willassen NP, Drabløs F, Nygård S, Petersen K, Jonassen I. Tekle KM, et al. Among authors: kalas m. F1000Res. 2018 Jun 29;7:ELIXIR-968. doi: 10.12688/f1000research.15119.1. eCollection 2018. F1000Res. 2018. PMID: 30271575 Free PMC article. Review.
Community curation of bioinformatics software and data resources.
Ison J, Ménager H, Brancotte B, Jaaniso E, Salumets A, Raček T, Lamprecht AL, Palmblad M, Kalaš M, Chmura P, Hancock JM, Schwämmle V, Ienasescu HI. Ison J, et al. Among authors: kalas m. Brief Bioinform. 2020 Sep 25;21(5):1697-1705. doi: 10.1093/bib/bbz075. Brief Bioinform. 2020. PMID: 31624831 Free PMC article.
biotoolsSchema: a formalized schema for bioinformatics software description.
Ison J, Ienasescu H, Rydza E, Chmura P, Rapacki K, Gaignard A, Schwämmle V, van Helden J, Kalaš M, Ménager H. Ison J, et al. Among authors: kalas m. Gigascience. 2021 Jan 27;10(1):giaa157. doi: 10.1093/gigascience/giaa157. Gigascience. 2021. PMID: 33506265 Free PMC article.
Bioimage analysis workflows: community resources to navigate through a complex ecosystem.
Paul-Gilloteaux P, Tosi S, Hériché JK, Gaignard A, Ménager H, Marée R, Baecker V, Klemm A, Kalaš M, Zhang C, Miura K, Colombelli J. Paul-Gilloteaux P, et al. Among authors: kalas m. F1000Res. 2021 Apr 26;10:320. doi: 10.12688/f1000research.52569.1. eCollection 2021. F1000Res. 2021. PMID: 34136134 Free PMC article.
43 results