Y
Yoshihiro Kudo
Researcher at Yamagata University
Publications - 36
Citations - 1255
Yoshihiro Kudo is an academic researcher from Yamagata University. The author has contributed to research in topics: Codon usage bias & Genome. The author has an hindex of 9, co-authored 35 publications receiving 1199 citations.
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Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: gene expression level and species-specific diversity of codon usage based on multivariate analysis.
TL;DR: Codon usage in Bacillus subtilis genes was examined by multivariate analysis, and a clear constraint of tRNA contents on synonymous codon choice was found, indicating that the tRNA gene copy number is an important factor to determine in cellular tRNA levels.
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Codon usage and tRNA genes in eukaryotes: correlation of codon usage diversity with translation efficiency and with CG-dinucleotide usage as assessed by multivariate analysis.
TL;DR: Codon usage in the genes encoding ribosomal proteins and histones was not significantly biased, suggesting that the primary factor influencing codon-usage diversity in these species is not translation efficiency.
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Analysis of codon usage diversity of bacterial genes with a self-organizing map (SOM): characterization of horizontally transferred genes with emphasis on the E. coli O157 genome
Shigehiko Kanaya,Makoto Kinouchi,Takashi Abe,Yoshihiro Kudo,Yuko Yamada,Tatsuya Nishi,Hirotada Mori,Toshimichi Ikemura +7 more
TL;DR: A novel neural-network algorithm is used, a self-organizing map (SOM), to efficiently and comprehensively analyze codon usage in approximately 60,000 genes from 29 bacterial species simultaneously, which makes it possible to cluster and visualize genes of individual species separately at a much higher resolution than can be obtained with principal component analysis.
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Automatic log P estimation based on combined additive modeling methods
Takahiro Suzuki,Yoshihiro Kudo +1 more
TL;DR: A program for the automatic estimation of the logarithm of the partition coefficient between 1-octanol and water phases (log P) has been developed as a component of a system entitled CHEMICALC (Combined Handling of Estimation Methods Intended for Completely Automated Log P Calculation).
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Periodicity in prokaryotic and eukaryotic genomes identified by power spectrum analysis
Atsushi Fukushima,Toshimichi Ikemura,Makoto Kinouchi,Taku Oshima,Yoshihiro Kudo,Hirotada Mori,Shigehiko Kanaya,Shigehiko Kanaya +7 more
TL;DR: Nucleotide sequences that confer periodicities to prokaryotic and eukaryotic genomes and genomes are characterized and TGG-rich sequences might have potential to form specific higher order structures related to the clustered occurrence of a specific form of the speculated nucleosomes.