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Harmonizing semantic annotations for computational models in biology.
Neal ML, König M, Nickerson D, Mısırlı G, Kalbasi R, Dräger A, Atalag K, Chelliah V, Cooling MT, Cook DL, Crook S, de Alba M, Friedman SH, Garny A, Gennari JH, Gleeson P, Golebiewski M, Hucka M, Juty N, Myers C, Olivier BG, Sauro HM, Scharm M, Snoep JL, Touré V, Wipat A, Wolkenhauer O, Waltemath D. Neal ML, et al. Brief Bioinform. 2019 Mar 22;20(2):540-550. doi: 10.1093/bib/bby087. Brief Bioinform. 2019. PMID: 30462164 Free PMC article. Review.
Model annotation and discovery with the Physiome Model Repository.
Sarwar DM, Kalbasi R, Gennari JH, Carlson BE, Neal ML, Bono B, Atalag K, Hunter PJ, Nickerson DP. Sarwar DM, et al. BMC Bioinformatics. 2019 Sep 6;20(1):457. doi: 10.1186/s12859-019-2987-y. BMC Bioinformatics. 2019. PMID: 31492098 Free PMC article.
Qualitative causal analyses of biosimulation models.
Neal ML, Gennari JH, Cook DL. Neal ML, et al. CEUR Workshop Proc. 2016 Aug;1747:http://ceur-ws.org/Vol-1747/IT604_ICBO2016.pdf. Epub 2016 Nov 29. CEUR Workshop Proc. 2016. PMID: 28804276 Free PMC article.