Kotera M - Search Results

1

Metabolome-scale prediction of intermediate compounds in multistep metabolic pathways with a recursive supervised approach.

Kotera M, Tabei Y, Yamanishi Y, Muto A, Moriya Y, Tokimatsu T, Goto S. Kotera M, et al. Bioinformatics. 2014 Jun 15;30(12):i165-74. doi: 10.1093/bioinformatics/btu265. Bioinformatics. 2014. PMID: 24931980 Free PMC article.

2

PathPred: an enzyme-catalyzed metabolic pathway prediction server.

Moriya Y, Shigemizu D, Hattori M, Tokimatsu T, Kotera M, Goto S, Kanehisa M. Moriya Y, et al. Among authors: kotera m. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W138-43. doi: 10.1093/nar/gkq318. Epub 2010 Apr 30. Nucleic Acids Res. 2010. PMID: 20435670 Free PMC article.

3

MUCHA: multiple chemical alignment algorithm to identify building block substructures of orphan secondary metabolites.

Kotera M, Tokimatsu T, Kanehisa M, Goto S. Kotera M, et al. BMC Bioinformatics. 2011 Dec 14;12 Suppl 14(Suppl 14):S1. doi: 10.1186/1471-2105-12-S14-S1. BMC Bioinformatics. 2011. PMID: 22373367 Free PMC article.

4

Modular architecture of metabolic pathways revealed by conserved sequences of reactions.

Muto A, Kotera M, Tokimatsu T, Nakagawa Z, Goto S, Kanehisa M. Muto A, et al. Among authors: kotera m. J Chem Inf Model. 2013 Mar 25;53(3):613-22. doi: 10.1021/ci3005379. Epub 2013 Feb 19. J Chem Inf Model. 2013. PMID: 23384306 Free PMC article.

5

Supervised de novo reconstruction of metabolic pathways from metabolome-scale compound sets.

Kotera M, Tabei Y, Yamanishi Y, Tokimatsu T, Goto S. Kotera M, et al. Bioinformatics. 2013 Jul 1;29(13):i135-44. doi: 10.1093/bioinformatics/btt244. Bioinformatics. 2013. PMID: 23812977 Free PMC article.

6

Metabolome-scale de novo pathway reconstruction using regioisomer-sensitive graph alignments.

Yamanishi Y, Tabei Y, Kotera M. Yamanishi Y, et al. Among authors: kotera m. Bioinformatics. 2015 Jun 15;31(12):i161-70. doi: 10.1093/bioinformatics/btv224. Bioinformatics. 2015. PMID: 26072478 Free PMC article.

7

Simultaneous prediction of enzyme orthologs from chemical transformation patterns for de novo metabolic pathway reconstruction.

Tabei Y, Yamanishi Y, Kotera M. Tabei Y, et al. Among authors: kotera m. Bioinformatics. 2016 Jun 15;32(12):i278-i287. doi: 10.1093/bioinformatics/btw260. Bioinformatics. 2016. PMID: 27307627 Free PMC article.

8

E-zyme: predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs.

Yamanishi Y, Hattori M, Kotera M, Goto S, Kanehisa M. Yamanishi Y, et al. Among authors: kotera m. Bioinformatics. 2009 Jun 15;25(12):i179-86. doi: 10.1093/bioinformatics/btp223. Bioinformatics. 2009. PMID: 19477985 Free PMC article.

9

The KEGG databases and tools facilitating omics analysis: latest developments involving human diseases and pharmaceuticals.

Kotera M, Hirakawa M, Tokimatsu T, Goto S, Kanehisa M. Kotera M, et al. Methods Mol Biol. 2012;802:19-39. doi: 10.1007/978-1-61779-400-1_2. Methods Mol Biol. 2012. PMID: 22130871 Free article.

10

GENIES: gene network inference engine based on supervised analysis.

Kotera M, Yamanishi Y, Moriya Y, Kanehisa M, Goto S. Kotera M, et al. Nucleic Acids Res. 2012 Jul;40(Web Server issue):W162-7. doi: 10.1093/nar/gks459. Epub 2012 May 18. Nucleic Acids Res. 2012. PMID: 22610856 Free PMC article.

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