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Plos One|April 16, 2015
Construction of an ortholog database using the semantic web technology for integrative analysis of genomic dataHirokazu Chiba, Hiroyo Nishide, Ikuo UchiyamaNucleic Acids Research|November 3, 2012
MBGD update 2013: the microbial genome database for exploring the diversity of microbial worldIkuo Uchiyama, Motohiro Mihara, Hiroyo Nishide, et al.Nucleic Acids Research|November 16, 2014
MBGD update 2015: microbial genome database for flexible ortholog analysis utilizing a diverse set of genomic dataIkuo Uchiyama, Motohiro Mihara, Hiroyo Nishide, et al.Nucleic Acids Research|November 22, 2018
MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisonsIkuo Uchiyama, Motohiro Mihara, Hiroyo Nishide, et al.Plant & Cell Physiology|May 27, 2015
RNA-seq Transcriptional Profiling of an Arbuscular Mycorrhiza Provides Insights into Regulated and Coordinated Gene Expression in Lotus japonicus and Rhizophagus irregularisYoshihiro Handa, Hiroyo Nishide, Naoya Takeda, et al.Genome|August 12, 2005
Analysis of expressed sequence tags of the water flea Daphnia magnaHajime Watanabe, Norihisa Tatarazako, Shigeto Oda, et al.Journal of Molecular Biology|January 18, 2025
MBGD: Microbial Genome Database for Comparative Analysis Featuring Enhanced Functionality to Characterize Gene and Genome Functions Through Large-scale Orthology AnalysisIkuo Uchiyama, Motohiro Mihara, Hiroyo Nishide, et al.Plant & Cell Physiology|September 3, 2025
Transcriptomic Dynamics of Petal Development in the One-day Flower Species, Japanese Morning Glory (Ipomoea nil)Soya Nakagawa, Atsushi Hoshino, Kazuyo Ito, et al.Genes to Cells : Devoted to Molecular & Cellular Mechanisms|April 24, 2020
A simple and practical workflow for genotyping of CRISPR-Cas9-based knockout phenotypes using multiplexed amplicon sequencingMidori Iida, Miyuki Suzuki, Yuto Sakane, et al.Frontiers in Microbiology|August 17, 2019
RNA-Seq Analysis Reveals Genes Related to Photoreception, Nutrient Uptake, and Toxicity in a Noxious Red-Tide Raphidophyte Chattonella antiquaTomoyuki Shikata, Fumio Takahashi, Hiroyo Nishide, et al.Pageof 3