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Chemical Transformation Motifs-Modelling Pathways as Integer Hyperflows.
Andersen JL, Flamm C, Merkle D, Stadler PF. Andersen JL, et al. Among authors: merkle d. IEEE/ACM Trans Comput Biol Bioinform. 2019 Mar-Apr;16(2):510-523. doi: 10.1109/TCBB.2017.2781724. Epub 2017 Dec 11. IEEE/ACM Trans Comput Biol Bioinform. 2019. PMID: 29990045
Generic strategies for chemical space exploration.
Andersen JL, Flamm C, Merkle D, Stadler PF. Andersen JL, et al. Among authors: merkle d. Int J Comput Biol Drug Des. 2014;7(2-3):225-58. doi: 10.1504/IJCBDD.2014.061649. Epub 2014 May 28. Int J Comput Biol Drug Des. 2014. PMID: 24878732
Generic Context-Aware Group Contributions.
Flamm C, Hellmuth M, Merkle D, Nojgaard N, Stadler PF. Flamm C, et al. Among authors: merkle d. IEEE/ACM Trans Comput Biol Bioinform. 2022 Jan-Feb;19(1):429-442. doi: 10.1109/TCBB.2020.2998948. Epub 2022 Feb 3. IEEE/ACM Trans Comput Biol Bioinform. 2022. PMID: 32750852
Finding the K best synthesis plans.
Fagerberg R, Flamm C, Kianian R, Merkle D, Stadler PF. Fagerberg R, et al. Among authors: merkle d. J Cheminform. 2018 Apr 5;10(1):19. doi: 10.1186/s13321-018-0273-z. J Cheminform. 2018. PMID: 29623440 Free PMC article.
Graph transformation for enzymatic mechanisms.
Andersen JL, Fagerberg R, Flamm C, Fontana W, Kolčák J, Laurent CVFP, Merkle D, Nøjgaard N. Andersen JL, et al. Among authors: merkle d. Bioinformatics. 2021 Jul 12;37(Suppl_1):i392-i400. doi: 10.1093/bioinformatics/btab296. Bioinformatics. 2021. PMID: 34252947 Free PMC article.
CREx: inferring genomic rearrangements based on common intervals.
Bernt M, Merkle D, Ramsch K, Fritzsch G, Perseke M, Bernhard D, Schlegel M, Stadler PF, Middendorf M. Bernt M, et al. Among authors: merkle d. Bioinformatics. 2007 Nov 1;23(21):2957-8. doi: 10.1093/bioinformatics/btm468. Epub 2007 Sep 25. Bioinformatics. 2007. PMID: 17895271
Time-consistent reconciliation maps and forbidden time travel.
Nøjgaard N, Geiß M, Merkle D, Stadler PF, Wieseke N, Hellmuth M. Nøjgaard N, et al. Among authors: merkle d. Algorithms Mol Biol. 2018 Feb 6;13:2. doi: 10.1186/s13015-018-0121-8. eCollection 2018. Algorithms Mol Biol. 2018. PMID: 29441122 Free PMC article.
Evolution of mitochondrial gene orders in echinoderms.
Perseke M, Fritzsch G, Ramsch K, Bernt M, Merkle D, Middendorf M, Bernhard D, Stadler PF, Schlegel M. Perseke M, et al. Among authors: merkle d. Mol Phylogenet Evol. 2008 May;47(2):855-64. doi: 10.1016/j.ympev.2007.11.034. Epub 2007 Dec 15. Mol Phylogenet Evol. 2008. PMID: 18280182
52 results