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BioHackathon 2015: Semantics of data for life sciences and reproducible research.
Vos RA, Katayama T, Mishima H, Kawano S, Kawashima S, Kim JD, Moriya Y, Tokimatsu T, Yamaguchi A, Yamamoto Y, Wu H, Amstutz P, Antezana E, Aoki NP, Arakawa K, Bolleman JT, Bolton E, Bonnal RJP, Bono H, Burger K, Chiba H, Cohen KB, Deutsch EW, Fernández-Breis JT, Fu G, Fujisawa T, Fukushima A, García A, Goto N, Groza T, Hercus C, Hoehndorf R, Itaya K, Juty N, Kawashima T, Kim JH, Kinjo AR, Kotera M, Kozaki K, Kumagai S, Kushida T, Lütteke T, Matsubara M, Miyamoto J, Mohsen A, Mori H, Naito Y, Nakazato T, Nguyen-Xuan J, Nishida K, Nishida N, Nishide H, Ogishima S, Ohta T, Okuda S, Paten B, Perret JL, Prathipati P, Prins P, Queralt-Rosinach N, Shinmachi D, Suzuki S, Tabata T, Takatsuki T, Taylor K, Thompson M, Uchiyama I, Vieira B, Wei CH, Wilkinson M, Yamada I, Yamanaka R, Yoshitake K, Yoshizawa AC, Dumontier M, Kosaki K, Takagi T. Vos RA, et al. F1000Res. 2020 Feb 24;9:136. doi: 10.12688/f1000research.18236.1. eCollection 2020. F1000Res. 2020. PMID: 32308977 Free PMC article.
The Orthology Ontology: development and applications.
Fernández-Breis JT, Chiba H, Legaz-García Mdel C, Uchiyama I. Fernández-Breis JT, et al. J Biomed Semantics. 2016 Jun 4;7(1):34. doi: 10.1186/s13326-016-0077-x. J Biomed Semantics. 2016. PMID: 27259657 Free PMC article.
The gene regulation knowledge commons: the action area of GREEKC.
Kuiper M, Bonello J, Fernández-Breis JT, Bucher P, Futschik ME, Gaudet P, Kulakovskiy IV, Licata L, Logie C, Lovering RC, Makeev VJ, Orchard S, Panni S, Perfetto L, Sant D, Schulz S, Vercruysse S, Zerbino DR, Lægreid A; GRECO Consortium. Kuiper M, et al. Biochim Biophys Acta Gene Regul Mech. 2022 Jan;1865(1):194768. doi: 10.1016/j.bbagrm.2021.194768. Epub 2021 Oct 30. Biochim Biophys Acta Gene Regul Mech. 2022. PMID: 34757206 Free article.
Ten Years of Collaborative Progress in the Quest for Orthologs.
Linard B, Ebersberger I, McGlynn SE, Glover N, Mochizuki T, Patricio M, Lecompte O, Nevers Y, Thomas PD, Gabaldón T, Sonnhammer E, Dessimoz C, Uchiyama I; QFO Consortium. Linard B, et al. Mol Biol Evol. 2021 Jul 29;38(8):3033-3045. doi: 10.1093/molbev/msab098. Mol Biol Evol. 2021. PMID: 33822172 Free PMC article.
Formalization of gene regulation knowledge using ontologies and gene ontology causal activity models.
Juanes Cortés B, Vera-Ramos JA, Lovering RC, Gaudet P, Laegreid A, Logie C, Schulz S, Roldán-García MDM, Kuiper M, Fernández-Breis JT. Juanes Cortés B, et al. Biochim Biophys Acta Gene Regul Mech. 2021 Nov-Dec;1864(11-12):194766. doi: 10.1016/j.bbagrm.2021.194766. Epub 2021 Oct 25. Biochim Biophys Acta Gene Regul Mech. 2021. PMID: 34710644 Free article.
Analysis of readability and structural accuracy in SNOMED CT.
Abad-Navarro F, Quesada-Martínez M, Duque-Ramos A, Fernández-Breis JT. Abad-Navarro F, et al. BMC Med Inform Decis Mak. 2020 Dec 15;20(Suppl 10):284. doi: 10.1186/s12911-020-01291-y. BMC Med Inform Decis Mak. 2020. PMID: 33319711 Free PMC article.
64 results