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Discriminative discovery of transcription factor binding sites from location data.
Kawada Y, Sakakibara Y. Kawada Y, et al. Proc IEEE Comput Syst Bioinform Conf. 2005:86-9. doi: 10.1109/csb.2005.30. Proc IEEE Comput Syst Bioinform Conf. 2005. PMID: 16447966
The Dugesia ryukyuensis database as a molecular resource for studying switching of the reproductive system.
Ishizuka H, Maezawa T, Kawauchi J, Nodono H, Hirao Y, Nishimura O, Nakagawa H, Sekii K, Tasaka K, Tarui H, Agata K, Hoshi M, Kobayashi K, Sakakibara Y, Matsumoto M. Ishizuka H, et al. Zoolog Sci. 2007 Jan;24(1):31-7. doi: 10.2108/zsj.24.31. Zoolog Sci. 2007. PMID: 17409714
Highly redundant sequences encoded granulin and actin, which are expressed in the whole body, and other redundant sequences encoded a Vasa-like protein, which is known to be a component of germ-line cells and is expressed in the ovary, and Y-protein, which is expressed in …
Highly redundant sequences encoded granulin and actin, which are expressed in the whole body, and other redundant sequences encoded a Vasa-l …
Genome-wide searching with base-pairing kernel functions for noncoding RNAs: computational and expression analysis of snoRNA families in Caenorhabditis elegans.
Morita K, Saito Y, Sato K, Oka K, Hotta K, Sakakibara Y. Morita K, et al. Nucleic Acids Res. 2009 Feb;37(3):999-1009. doi: 10.1093/nar/gkn1054. Epub 2009 Jan 7. Nucleic Acids Res. 2009. PMID: 19129214 Free PMC article.
Accurate identification of orthologous segments among multiple genomes.
Hachiya T, Osana Y, Popendorf K, Sakakibara Y. Hachiya T, et al. Bioinformatics. 2009 Apr 1;25(7):853-60. doi: 10.1093/bioinformatics/btp070. Epub 2009 Feb 2. Bioinformatics. 2009. PMID: 19188192
Improvement of structure conservation index with centroid estimators.
Okada Y, Sato K, Sakakibara Y. Okada Y, et al. Pac Symp Biocomput. 2010:88-97. doi: 10.1142/9789814295291_0011. Pac Symp Biocomput. 2010. PMID: 19908361
Murasaki: a fast, parallelizable algorithm to find anchors from multiple genomes.
Popendorf K, Tsuyoshi H, Osana Y, Sakakibara Y. Popendorf K, et al. PLoS One. 2010 Sep 24;5(9):e12651. doi: 10.1371/journal.pone.0012651. PLoS One. 2010. PMID: 20885980 Free PMC article.
Robust and accurate prediction of noncoding RNAs from aligned sequences.
Saito Y, Sato K, Sakakibara Y. Saito Y, et al. BMC Bioinformatics. 2010 Oct 15;11 Suppl 7(Suppl 7):S3. doi: 10.1186/1471-2105-11-S7-S3. BMC Bioinformatics. 2010. PMID: 21106125 Free PMC article.
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