Toyoda T - Search Results

1

Positional correlation analysis improves reconstruction of full-length transcripts and alternative isoforms from noisy array signals or short reads.

Kawaguchi S, Iida K, Harada E, Hanada K, Matsui A, Okamoto M, Shinozaki K, Seki M, Toyoda T. Kawaguchi S, et al. Among authors: toyoda t. Bioinformatics. 2012 Apr 1;28(7):929-37. doi: 10.1093/bioinformatics/bts065. Epub 2012 Feb 13. Bioinformatics. 2012. PMID: 22332235 Free PMC article.

2

sORF finder: a program package to identify small open reading frames with high coding potential.

Hanada K, Akiyama K, Sakurai T, Toyoda T, Shinozaki K, Shiu SH. Hanada K, et al. Among authors: toyoda t. Bioinformatics. 2010 Feb 1;26(3):399-400. doi: 10.1093/bioinformatics/btp688. Epub 2009 Dec 14. Bioinformatics. 2010. PMID: 20008477

3

ARTADE2DB: improved statistical inferences for Arabidopsis gene functions and structure predictions by dynamic structure-based dynamic expression (DSDE) analyses.

Iida K, Kawaguchi S, Kobayashi N, Yoshida Y, Ishii M, Harada E, Hanada K, Matsui A, Okamoto M, Ishida J, Tanaka M, Morosawa T, Seki M, Toyoda T. Iida K, et al. Among authors: toyoda t. Plant Cell Physiol. 2011 Feb;52(2):254-64. doi: 10.1093/pcp/pcq202. Epub 2011 Jan 12. Plant Cell Physiol. 2011. PMID: 21227933 Free PMC article.

4

Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences.

Iida K, Seki M, Sakurai T, Satou M, Akiyama K, Toyoda T, Konagaya A, Shinozaki K. Iida K, et al. Among authors: toyoda t. Nucleic Acids Res. 2004 Sep 27;32(17):5096-103. doi: 10.1093/nar/gkh845. Print 2004. Nucleic Acids Res. 2004. PMID: 15452276 Free PMC article.

5

RARGE: a large-scale database of RIKEN Arabidopsis resources ranging from transcriptome to phenome.

Sakurai T, Satou M, Akiyama K, Iida K, Seki M, Kuromori T, Ito T, Konagaya A, Toyoda T, Shinozaki K. Sakurai T, et al. Among authors: toyoda t. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D647-50. doi: 10.1093/nar/gki014. Nucleic Acids Res. 2005. PMID: 15608280 Free PMC article.

6

Tiling array-driven elucidation of transcriptional structures based on maximum-likelihood and Markov models.

Toyoda T, Shinozaki K. Toyoda T, et al. Plant J. 2005 Aug;43(4):611-21. doi: 10.1111/j.1365-313X.2005.02470.x. Plant J. 2005. PMID: 16098113 Free article.

7

RARTF: database and tools for complete sets of Arabidopsis transcription factors.

Iida K, Seki M, Sakurai T, Satou M, Akiyama K, Toyoda T, Konagaya A, Shinozaki K. Iida K, et al. Among authors: toyoda t. DNA Res. 2005;12(4):247-56. doi: 10.1093/dnares/dsi011. DNA Res. 2005. PMID: 16769687 Free article.

8

Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array.

Matsui A, Ishida J, Morosawa T, Mochizuki Y, Kaminuma E, Endo TA, Okamoto M, Nambara E, Nakajima M, Kawashima M, Satou M, Kim JM, Kobayashi N, Toyoda T, Shinozaki K, Seki M. Matsui A, et al. Among authors: toyoda t. Plant Cell Physiol. 2008 Aug;49(8):1135-49. doi: 10.1093/pcp/pcn101. Epub 2008 Jul 13. Plant Cell Physiol. 2008. PMID: 18625610

9

Alterations of lysine modifications on the histone H3 N-tail under drought stress conditions in Arabidopsis thaliana.

Kim JM, To TK, Ishida J, Morosawa T, Kawashima M, Matsui A, Toyoda T, Kimura H, Shinozaki K, Seki M. Kim JM, et al. Among authors: toyoda t. Plant Cell Physiol. 2008 Oct;49(10):1580-8. doi: 10.1093/pcp/pcn133. Epub 2008 Sep 8. Plant Cell Physiol. 2008. PMID: 18779215

10

Identification of the candidate genes regulated by RNA-directed DNA methylation in Arabidopsis.

Kurihara Y, Matsui A, Kawashima M, Kaminuma E, Ishida J, Morosawa T, Mochizuki Y, Kobayashi N, Toyoda T, Shinozaki K, Seki M. Kurihara Y, et al. Among authors: toyoda t. Biochem Biophys Res Commun. 2008 Nov 21;376(3):553-7. doi: 10.1016/j.bbrc.2008.09.046. Epub 2008 Sep 19. Biochem Biophys Res Commun. 2008. PMID: 18805399

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