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UniBioDicts: Unified access to Biological Dictionaries.
Zobolas J, Touré V, Kuiper M, Vercruysse S. Zobolas J, et al. Among authors: kuiper m. Bioinformatics. 2021 Apr 9;37(1):143-144. doi: 10.1093/bioinformatics/btaa1065. Bioinformatics. 2021. PMID: 33367853 Free PMC article.
Gene Ontology representation for transcription factor functions.
Gaudet P, Logie C, Lovering RC, Kuiper M, Lægreid A, Thomas PD. Gaudet P, et al. Among authors: kuiper m. Biochim Biophys Acta Gene Regul Mech. 2021 Nov-Dec;1864(11-12):194752. doi: 10.1016/j.bbagrm.2021.194752. Epub 2021 Aug 28. Biochim Biophys Acta Gene Regul Mech. 2021. PMID: 34461313 Free article.
ExTRI: Extraction of transcription regulation interactions from literature.
Vazquez M, Krallinger M, Leitner F, Kuiper M, Valencia A, Laegreid A. Vazquez M, et al. Among authors: kuiper m. Biochim Biophys Acta Gene Regul Mech. 2022 Jan;1865(1):194778. doi: 10.1016/j.bbagrm.2021.194778. Epub 2021 Dec 5. Biochim Biophys Acta Gene Regul Mech. 2022. PMID: 34875418 Free article.
The emergence of Semantic Systems Biology.
Antezana E, Mironov V, Kuiper M. Antezana E, et al. Among authors: kuiper m. N Biotechnol. 2013 Mar 25;30(3):286-90. doi: 10.1016/j.nbt.2012.11.008. Epub 2012 Nov 16. N Biotechnol. 2013. PMID: 23165099 Review.
Setting the basis of best practices and standards for curation and annotation of logical models in biology-highlights of the [BC]2 2019 CoLoMoTo/SysMod Workshop.
Niarakis A, Kuiper M, Ostaszewski M, Malik Sheriff RS, Casals-Casas C, Thieffry D, Freeman TC, Thomas P, Touré V, Noël V, Stoll G, Saez-Rodriguez J, Naldi A, Oshurko E, Xenarios I, Soliman S, Chaouiya C, Helikar T, Calzone L. Niarakis A, et al. Among authors: kuiper m. Brief Bioinform. 2021 Mar 22;22(2):1848-1859. doi: 10.1093/bib/bbaa046. Brief Bioinform. 2021. PMID: 32313939 Free PMC article. Review.
A GO catalogue of human DNA-binding transcription factors.
Lovering RC, Gaudet P, Acencio ML, Ignatchenko A, Jolma A, Fornes O, Kuiper M, Kulakovskiy IV, Lægreid A, Martin MJ, Logie C. Lovering RC, et al. Among authors: kuiper m. Biochim Biophys Acta Gene Regul Mech. 2021 Nov-Dec;1864(11-12):194765. doi: 10.1016/j.bbagrm.2021.194765. Epub 2021 Oct 18. Biochim Biophys Acta Gene Regul Mech. 2021. PMID: 34673265
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.
The Gene Ontology resource: enriching a GOld mine.
Gene Ontology Consortium. Gene Ontology Consortium. Nucleic Acids Res. 2021 Jan 8;49(D1):D325-D334. doi: 10.1093/nar/gkaa1113. Nucleic Acids Res. 2021. PMID: 33290552 Free PMC article.
Network and Systems Medicine: Position Paper of the European Collaboration on Science and Technology Action on Open Multiscale Systems Medicine.
Comte B, Baumbach J, Benis A, Basílio J, Debeljak N, Flobak Å, Franken C, Harel N, He F, Kuiper M, Méndez Pérez JA, Pujos-Guillot E, Režen T, Rozman D, Schmid JA, Scerri J, Tieri P, Van Steen K, Vasudevan S, Watterson S, Schmidt HHHW. Comte B, et al. Among authors: kuiper m. Netw Syst Med. 2020 Jul 6;3(1):67-90. doi: 10.1089/nsm.2020.0004. eCollection 2020. Netw Syst Med. 2020. PMID: 32954378 Free PMC article. Review.
73 results