Masumi Itoh

Masumi Itoh

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Masumi Itoh

Masumi Itoh

Publications by authors named "Masumi Itoh"

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18Publications

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Virtual metagenome reconstruction from 16S rRNA gene sequences.

Nat Commun 2012 ;3:1203

Department of Bioinformatics, College of Life Sciences, Ritsumeikan University, 1-1-1 Nojihigashi, Kusatsu, Shiga 525-8577, Japan.

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http://dx.doi.org/10.1038/ncomms2203DOI Listing
March 2013

KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters.

Nucleic Acids Res 2013 Jan 27;41(Database issue):D353-7. Epub 2012 Nov 27.

Center for Transdisciplinary Research, Niigata University, 1-757 Asahimachi-dori, Chuo-ku, Niigata 951-8585, Japan.

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http://dx.doi.org/10.1093/nar/gks1239DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531156PMC
January 2013

Network analysis of adverse drug interactions.

Genome Inform 2008 ;20:252-9

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto, Japan.

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July 2009

CGAS: comparative genomic analysis server.

Bioinformatics 2009 Apr 13;25(7):958-9. Epub 2009 Feb 13.

Graduate School of Information Science and Technology, Hokkaido University, Sapporo, Hokkaido, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btp086DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2660877PMC
April 2009

KEGG Atlas mapping for global analysis of metabolic pathways.

Nucleic Acids Res 2008 Jul 13;36(Web Server issue):W423-6. Epub 2008 May 13.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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https://nar.oxfordjournals.org/content/36/suppl_2/W423.full-
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http://nar.oxfordjournals.org/lookup/doi/10.1093/nar/gkn282
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http://dx.doi.org/10.1093/nar/gkn282DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447737PMC
July 2008

Evolutionary history and functional implications of protein domains and their combinations in eukaryotes.

Genome Biol 2007 ;8(6):R121

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1186/gb-2007-8-6-r121DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2394772PMC
February 2008

KEGG for linking genomes to life and the environment.

Nucleic Acids Res 2008 Jan 12;36(Database issue):D480-4. Epub 2007 Dec 12.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto, Japan.

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http://dx.doi.org/10.1093/nar/gkm882DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238879PMC
January 2008

[Integrated drug information resource].

Tanpakushitsu Kakusan Koso 2007 Oct;52(12):1486-91

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October 2007

Analysis of the differences in metabolic network expansion between prokaryotes and eukaryotes.

Genome Inform 2006 ;17(1):230-9

Bioinformatics center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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July 2007

KAAS: an automatic genome annotation and pathway reconstruction server.

Nucleic Acids Res 2007 Jul 25;35(Web Server issue):W182-5. Epub 2007 May 25.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/nar/gkm321DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1933193PMC
July 2007

Extracting sequence motifs and the phylogenetic features of SNARE-dependent membrane traffic.

Traffic 2006 Aug;7(8):1104-18

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1111/j.1600-0854.2006.00451.xDOI Listing
August 2006

EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments.

Nucleic Acids Res 2006 Jul;34(Web Server issue):W459-62

Laboratory of Bioknowledge Systems, Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/nar/gkl066DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538775PMC
July 2006

Using protein motif combinations to update KEGG pathway maps and orthologue tables.

Genome Inform 2004 ;15(2):266-75

Geneva Bioinformatics, 25 avenue de Champel, 1206 Geneva, Switzerland.

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January 2006

From genomics to chemical genomics: new developments in KEGG.

Nucleic Acids Res 2006 Jan;34(Database issue):D354-7

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/nar/gkj102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347464PMC
January 2006

Clustering of database sequences for fast homology search using upper bounds on alignment score.

Genome Inform 2004 ;15(1):93-104

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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May 2005

Fast and accurate database homology search using upper bounds of local alignment scores.

Bioinformatics 2005 Apr 27;21(7):912-21. Epub 2004 Oct 27.

Bioinformatics Center, Institute for Chemical Research, Kyoto University Gokasho, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/bioinformatics/bti076DOI Listing
April 2005

Extraction of organism groups from phylogenetic profiles using independent component analysis.

Genome Inform 2002 ;13:61-70

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

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November 2003