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Phylogenomics with paralogs.
Hellmuth M, Wieseke N, Lechner M, Lenhof HP, Middendorf M, Stadler PF. Hellmuth M, et al. Among authors: middendorf m. Proc Natl Acad Sci U S A. 2015 Feb 17;112(7):2058-63. doi: 10.1073/pnas.1412770112. Epub 2015 Feb 2. Proc Natl Acad Sci U S A. 2015. PMID: 25646426 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: middendorf m. Bioinformatics. 2007 Nov 1;23(21):2957-8. doi: 10.1093/bioinformatics/btm468. Epub 2007 Sep 25. Bioinformatics. 2007. PMID: 17895271
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: middendorf m. 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
Folding kinetics of large RNAs.
Geis M, Flamm C, Wolfinger MT, Tanzer A, Hofacker IL, Middendorf M, Mandl C, Stadler PF, Thurner C. Geis M, et al. Among authors: middendorf m. J Mol Biol. 2008 May 23;379(1):160-73. doi: 10.1016/j.jmb.2008.02.064. Epub 2008 Mar 6. J Mol Biol. 2008. PMID: 18440024
Extended shapes for the combinatorial design of RNA sequences.
Hellmuth M, Merkle D, Middendorf M. Hellmuth M, et al. Among authors: middendorf m. Int J Comput Biol Drug Des. 2009;2(4):371-84. doi: 10.1504/IJCBDD.2009.030767. Epub 2009 Jan 4. Int J Comput Biol Drug Des. 2009. PMID: 20090177
MITOS: improved de novo metazoan mitochondrial genome annotation.
Bernt M, Donath A, Jühling F, Externbrink F, Florentz C, Fritzsch G, Pütz J, Middendorf M, Stadler PF. Bernt M, et al. Among authors: middendorf m. Mol Phylogenet Evol. 2013 Nov;69(2):313-9. doi: 10.1016/j.ympev.2012.08.023. Epub 2012 Sep 7. Mol Phylogenet Evol. 2013. PMID: 22982435
71 results