| | Other Issues: previous | next | latest | archiveResearch Reconstructing phylogenies from noisy quartets in polynomial time with a high success probability Gang Wu, Ming-Yang Kao, Guohui Lin, and Jia-Huai You Algorithms Mol Biol. 2008; 3: 1. Published online 2008 January 24. doi: 10.1186/1748-7188-3-1.PMCID: PMC2267719 Learning from positive examples when the negative class is undetermined- microRNA gene identification Malik Yousef, Segun Jung, Louise C Showe, and Michael K Showe Algorithms Mol Biol. 2008; 3: 2. Published online 2008 January 28. doi: 10.1186/1748-7188-3-2.PMCID: PMC2248178 A scoring matrix approach to detecting miRNA target sites Simon Moxon, Vincent Moulton, and Jan T Kim Algorithms Mol Biol. 2008; 3: 3. Published online 2008 March 31. doi: 10.1186/1748-7188-3-3.PMCID: PMC2365947 Protein sequence and structure alignments within one framework Gundolf Schenk, Thomas Margraf, and Andrew E Torda Algorithms Mol Biol. 2008; 3: 4. Published online 2008 April 1. doi: 10.1186/1748-7188-3-4.PMCID: PMC2390564 On the optimality of the neighbor-joining algorithm Kord Eickmeyer, Peter Huggins, Lior Pachter, and Ruriko Yoshida Algorithms Mol Biol. 2008; 3: 5. Published online 2008 April 30. doi: 10.1186/1748-7188-3-5.PMCID: PMC2430562 DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment Amarendran R Subramanian, Michael Kaufmann, and Burkhard Morgenstern Algorithms Mol Biol. 2008; 3: 6. Published online 2008 May 27. doi: 10.1186/1748-7188-3-6.PMCID: PMC2430965 A weighted average difference method for detecting differentially expressed genes from microarray data Koji Kadota, Yuji Nakai, and Kentaro Shimizu Algorithms Mol Biol. 2008; 3: 8. Published online 2008 June 26. doi: 10.1186/1748-7188-3-8.PMCID: PMC2464587 Metabolite-based clustering and visualization of mass spectrometry data using one-dimensional self-organizing maps Peter Meinicke, Thomas Lingner, Alexander Kaever, Kirstin Feussner, Cornelia Göbel, Ivo Feussner, Petr Karlovsky, and Burkhard Morgenstern Algorithms Mol Biol. 2008; 3: 9. Published online 2008 June 26. doi: 10.1186/1748-7188-3-9.PMCID: PMC2464586 A stitch in time: Efficient computation of genomic DNA melting bubbles Eivind Tøstesen Algorithms Mol Biol. 2008; 3: 10. Published online 2008 July 17. doi: 10.1186/1748-7188-3-10.PMCID: PMC2553405 "Hook"-calibration of GeneChip-microarrays: Chip characteristics and expression measures Hans Binder, Knut Krohn, and Stephan Preibisch Algorithms Mol Biol. 2008; 3: 11. Published online 2008 August 29. doi: 10.1186/1748-7188-3-11.PMCID: PMC2543012 "Hook"-calibration of GeneChip-microarrays: Theory and algorithm Hans Binder and Stephan Preibisch Algorithms Mol Biol. 2008; 3: 12. Published online 2008 August 29. doi: 10.1186/1748-7188-3-12.PMCID: PMC2546411 Fast algorithms for computing sequence distances by exhaustive substring composition Alberto Apostolico and Olgert Denas Algorithms Mol Biol. 2008; 3: 13. Published online 2008 October 28. doi: 10.1186/1748-7188-3-13.PMCID: PMC2615014 HuMiTar: A sequence-based method for prediction of human microRNA targets Jishou Ruan, Hanzhe Chen, Lukasz Kurgan, Ke Chen, Chunsheng Kang, and Peiyu Pu Algorithms Mol Biol. 2008; 3: 16. Published online 2008 December 22. doi: 10.1186/1748-7188-3-16.PMCID: PMC2631598 Software Articles Noisy: Identification of problematic columns in multiple sequence alignments Andreas WM Dress, Christoph Flamm, Guido Fritzsch, Stefan Grünewald, Matthias Kruspe, Sonja J Prohaska, and Peter F Stadler Algorithms Mol Biol. 2008; 3: 7. Published online 2008 June 24. doi: 10.1186/1748-7188-3-7.PMCID: PMC2464588 Syntenator: Multiple gene order alignments with a gene-specific scoring function Christian Rödelsperger and Christoph Dieterich Algorithms Mol Biol. 2008; 3: 14. Published online 2008 November 6. doi: 10.1186/1748-7188-3-14.PMCID: PMC2590594 |