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45 results
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In silico screening of archaeal tRNA-encoding genes having multiple introns with bulge-helix-bulge splicing motifs.
Sugahara J, Yachie N, Arakawa K, Tomita M. Sugahara J, et al. Among authors: yachie n. RNA. 2007 May;13(5):671-81. doi: 10.1261/rna.309507. Epub 2007 Mar 16. RNA. 2007. PMID: 17369313 Free PMC article.
Computational analysis of microRNA targets in Caenorhabditis elegans.
Watanabe Y, Yachie N, Numata K, Saito R, Kanai A, Tomita M. Watanabe Y, et al. Among authors: yachie n. Gene. 2006 Jan 3;365:2-10. doi: 10.1016/j.gene.2005.09.035. Epub 2005 Dec 13. Gene. 2006. PMID: 16356665
Prediction of non-coding and antisense RNA genes in Escherichia coli with Gapped Markov Model.
Yachie N, Numata K, Saito R, Kanai A, Tomita M. Yachie N, et al. Gene. 2006 May 10;372:171-81. doi: 10.1016/j.gene.2005.12.034. Epub 2006 Mar 24. Gene. 2006. PMID: 16564143
Alignment-based approach for durable data storage into living organisms.
Yachie N, Sekiyama K, Sugahara J, Ohashi Y, Tomita M. Yachie N, et al. Biotechnol Prog. 2007 Mar-Apr;23(2):501-5. doi: 10.1021/bp060261y. Epub 2007 Jan 25. Biotechnol Prog. 2007. PMID: 17253725
SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level.
Sugahara J, Yachie N, Sekine Y, Soma A, Matsui M, Tomita M, Kanai A. Sugahara J, et al. Among authors: yachie n. In Silico Biol. 2006;6(5):411-8. In Silico Biol. 2006. PMID: 17274770
Bioinformatic analysis of post-transcriptional regulation by uORF in human and mouse.
Matsui M, Yachie N, Okada Y, Saito R, Tomita M. Matsui M, et al. Among authors: yachie n. FEBS Lett. 2007 Sep 4;581(22):4184-8. doi: 10.1016/j.febslet.2007.07.057. Epub 2007 Aug 3. FEBS Lett. 2007. PMID: 17692847
Computational analysis of microRNA-mediated antiviral defense in humans.
Watanabe Y, Kishi A, Yachie N, Kanai A, Tomita M. Watanabe Y, et al. Among authors: yachie n. FEBS Lett. 2007 Oct 2;581(24):4603-10. doi: 10.1016/j.febslet.2007.08.049. Epub 2007 Aug 31. FEBS Lett. 2007. PMID: 17825824
Permuted tRNA genes expressed via a circular RNA intermediate in Cyanidioschyzon merolae.
Soma A, Onodera A, Sugahara J, Kanai A, Yachie N, Tomita M, Kawamura F, Sekine Y. Soma A, et al. Among authors: yachie n. Science. 2007 Oct 19;318(5849):450-3. doi: 10.1126/science.1145718. Science. 2007. PMID: 17947580
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales.
Sugahara J, Kikuta K, Fujishima K, Yachie N, Tomita M, Kanai A. Sugahara J, et al. Among authors: yachie n. Mol Biol Evol. 2008 Dec;25(12):2709-16. doi: 10.1093/molbev/msn216. Epub 2008 Oct 1. Mol Biol Evol. 2008. PMID: 18832079
In silico analysis of phosphoproteome data suggests a rich-get-richer process of phosphosite accumulation over evolution.
Yachie N, Saito R, Sugahara J, Tomita M, Ishihama Y. Yachie N, et al. Mol Cell Proteomics. 2009 May;8(5):1061-71. doi: 10.1074/mcp.M800466-MCP200. Epub 2009 Jan 9. Mol Cell Proteomics. 2009. PMID: 19136663 Free PMC article.
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