A critical role of the periplasm in copper homeostasis in Gram-negative bacteria. - Ishihara, Jun-ichi; Mekubo, Tomohiro; Kusaka, Chikako; Kondo, Suguru; Oiko, Ryotaro; Igarashi, Kensuke; Aiba, Hirofumi; Ishikawa, Shu; Ogasawara, Naotake; Oshima, Taku; Takahashi, Hiroki (Biosyst., 2023)

AMDORAP: Non-targeted metabolic profiling based on high-resolution LC-MS. - Takahashi, Hiroki; Morimoto, Takuya; Ogasawara, Naotake; Kanaya, Shigehiko (BMC Bioinform., 2011)

Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation. - Chumsakul, Onuma; Takahashi, Hiroki; Oshima, Taku; Hishimoto, Takahiro; Kanaya, Shigehiko; Ogasawara, Naotake; Ishikawa, Shu (Nucleic Acids Res., 2011)

A Constrained Gaussian Mixture Model for Correlation-Based Cluster Analysis of Gene Expression Data. - Yukinawa, Naoto; Yoshioka, Taku; Kobayashi, Kazuo; Ogasawara, Naotake; Ishii, Shin (Inf. Media Technol., 2009)

Predicting state transitions in the transcriptome and metabolome using a linear dynamical system model. - Morioka, Ryoko; Kanaya, Shigehiko; Hirai, Masami Y.; Yano, Mitsuru; Ogasawara, Naotake; Saito, Kazuki (BMC Bioinform., 2007)

Elucidating Conservation of Genes in Multiple Genomes Based on Graphs Configured by Bidirectional Best-Hit Relationships. - Maeno, Hijiri; Altaf-Ul-Amin, Md.; Shinbo, Yoko; Kurokawa, Ken; Ogasawara, Naotake; Kanaya, Shigehiko (Inf. Media Technol., 2007)

Bayesian Joint Prediction of Associated Transcription Factors in Bacillus subtilis. - Makita, Yuko; Hoon, Michiel J. L. de; Ogasawara, Naotake; Miyano, Satoru; Nakai, Kenta (2005)

BTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. - Makita, Yuko; Nakao, Mitsuteru; Ogasawara, Naotake; Nakai, Kenta (Nucleic Acids Res., 2004)

Predicting gene regulation by sigma factors in Bacillus subtilis from genome-wide data. - Hoon, Michiel J. L. de; Makita, Yuko; Imoto, Seiya; Kobayashi, Kazuo; Ogasawara, Naotake; Nakai, Kenta; Miyano, Satoru (2004)

Predicting the Operon Structure of Bacillus subtilis Using Operon Length, Intergene Distance, and Gene Expression Information. - Hoon, Michiel J. L. de; Imoto, Seiya; Kobayashi, Kazuo; Ogasawara, Naotake; Miyano, Satoru (2004)

Inferring Gene Regulatory Networks from Time-Ordered Gene Expression Data of Bacillus Subtilis Using Differential Equations. - Hoon, Michiel J. L. de; Imoto, Seiya; Kobayashi, Kazuo; Ogasawara, Naotake; Miyano, Satoru (2003)

Clustering of Gene Expression Data by Mixture of PCA Models. - Yoshioka, Taku; Morioka, Ryouko; Kobayashi, Kazuo; Oba, Shigeyuki; Ogasawara, Naotake; Ishii, Shin (2002)