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Machine learning accelerates MD-based binding pose prediction between ligands and proteins.
Terayama K, Iwata H, Araki M, Okuno Y, Tsuda K. Terayama K, et al. Among authors: tsuda k. Bioinformatics. 2018 Mar 1;34(5):770-778. doi: 10.1093/bioinformatics/btx638. Bioinformatics. 2018. PMID: 29040432 Free PMC article.
AVAILABILITY AND IMPLEMENTATION: Code and data are available on GitHub at https://github.com/tsudalab/bpbi. CONTACT: terayama@cbms.k.u-tokyo.ac.jp or tsuda@k.u-tokyo.ac.jp. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.. …
AVAILABILITY AND IMPLEMENTATION: Code and data are available on GitHub at https://github.com/tsudalab/bpbi. CONTACT: terayama@cbms.k. …
Modeling splicing sites with pairwise correlations.
Arita M, Tsuda K, Asai K. Arita M, et al. Among authors: tsuda k. Bioinformatics. 2002;18 Suppl 2:S27-34. doi: 10.1093/bioinformatics/18.suppl_2.s27. Bioinformatics. 2002. PMID: 12385980
SlideSort: all pairs similarity search for short reads.
Shimizu K, Tsuda K. Shimizu K, et al. Among authors: tsuda k. Bioinformatics. 2011 Feb 15;27(4):464-70. doi: 10.1093/bioinformatics/btq677. Epub 2010 Dec 9. Bioinformatics. 2011. PMID: 21148542 Free PMC article.
Discovering combinatorial interactions in survival data.
Duverle DA, Takeuchi I, Murakami-Tonami Y, Kadomatsu K, Tsuda K. Duverle DA, et al. Among authors: tsuda k. Bioinformatics. 2013 Dec 1;29(23):3053-9. doi: 10.1093/bioinformatics/btt532. Epub 2013 Sep 13. Bioinformatics. 2013. PMID: 24037215 Free PMC article.
RNA inverse folding using Monte Carlo tree search.
Yang X, Yoshizoe K, Taneda A, Tsuda K. Yang X, et al. Among authors: tsuda k. BMC Bioinformatics. 2017 Nov 6;18(1):468. doi: 10.1186/s12859-017-1882-7. BMC Bioinformatics. 2017. PMID: 29110632 Free PMC article.
1,319 results