Michiel J. L. de Hoon

17 papers B 1Misc 3Journal 10Unranked 3
YearRankTypeTitle / Venue / Authors
2021 J jnl
FANTOM enters 20th year: expansion of transcriptomic atlases and functional annotation of non-coding RNAs.
Nucleic Acids Res.
Imad Abugessaisa, Jordan A. Ramilowski, Marina Lizio, Jesicca Severin, Akira Hasegawa, Jayson Harshbarger, Atsushi Kondo, Shuhei Noguchi, Chi Wai Yip, Jasmine Li Ching Ooi, Michihira Tagami, Fumi Hori, Saumya Agrawal, Chung-Chau Hon, Mélissa Cardon, Shuya Ikeda, Hiromasa Ono, Hidemasa Bono, Masaki Kato, Kosuke Hashimoto, Alessandro Bonetti, Norio Kobayashi, Jay W. Shin, Michiel J. L. de Hoon, Yoshihide Hayashizaki, Piero Carninci, Hideya Kawaji, Takeya Kasukawa
2019 J jnl
Update of the FANTOM web resource: expansion to provide additional transcriptome atlases.
Nucleic Acids Res.
Marina Lizio, Imad Abugessaisa, Shuhei Noguchi, Atsushi Kondo, Akira Hasegawa, Chung-Chau Hon, Michiel J. L. de Hoon, Jessica Severin, Shinya Oki, Yoshihide Hayashizaki, Piero Carninci, Takeya Kasukawa, Hideya Kawaji
2017 J jnl
Genome-scale regression analysis reveals a linear relationship for promoters and enhancers after combinatorial drug treatment.
Bioinform.
Trisevgeni Rapakoulia, Xin Gao, Yi Huang, Michiel J. L. de Hoon, Mariko Okada-Hatakeyama, Harukazu Suzuki, Erik Arner
2016 J jnl
On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase.
Database J. Biol. Databases Curation
Hans Ienasescu, Kang Li, Robin Andersson, Morana Vitezic, Sarah Rennie, Yun Chen, Kristoffer Vitting-Seerup, Emil Lagoni, Mette Boyd, Jette Bornholdt, Michiel J. L. de Hoon, Hideya Kawaji, Timo Lassmann, Fantom Consortium, Yoshihide Hayashizaki, Alistair R. R. Forrest, Piero Carninci, Albin Sandelin
2011 — conf
Optimization of turn-back primers in isothermal amplification.
BIBM Workshops
Yasumasa Kimura, Michiel J. L. de Hoon, Shintaro Aoki, Yuri Ishizu, Carsten O. Daub, Alexander Lezhava, Erik Arner, Yoshihide Hayashizaki, Yuki Kawai, Yasushi Kogo
2009 J jnl
Biopython: freely available Python tools for computational molecular biology and bioinformatics.
Bioinform.
Peter J. A. Cock, Tiago Rodrigues Antao, Jeffrey T. Chang, Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon
2009 J jnl
Probabilistic resolution of multi-mapping reads in massively parallel sequencing data using MuMRescueLite.
Bioinform.
Takehiro Hashimoto, Michiel J. L. de Hoon, Sean M. Grimmond, Carsten O. Daub, Yoshihide Hayashizaki, Geoffrey J. Faulkner
2008 J jnl
DBTBS: a database of transcriptional regulation in
Nucleic Acids Res.
Nicolas Sierro, Yuko Makita, Michiel J. L. de Hoon, Kenta Nakai
2007 J jnl
Hon-yaku: a biology-driven Bayesian methodology for identifying translation initiation sites in prokaryotes.
BMC Bioinform.
Yuko Makita, Michiel J. L. de Hoon, Antoine Danchin
2005 Misc conf
Bayesian Joint Prediction of Associated Transcription Factors in Bacillus subtilis.
Pacific Symposium on Biocomputing
Yuko Makita, Michiel J. L. de Hoon, Naotake Ogasawara, Satoru Miyano, Kenta Nakai
2005 — conf
Comparative Systems Biology of the Sporulation Initiation Network in Prokaryotes.
Systems Biology and Regulatory Genomics
Michiel J. L. de Hoon, Dennis Vitkup
2005 J jnl
Prediction of Transcriptional Terminators in
PLoS Comput. Biol.
Michiel J. L. de Hoon, Yuko Makita, Kenta Nakai, Satoru Miyano
2004 — conf
Predicting gene regulation by sigma factors in Bacillus subtilis from genome-wide data.
ISMB/ECCB (Supplement of Bioinformatics)
Michiel J. L. de Hoon, Yuko Makita, Seiya Imoto, Kazuo Kobayashi, Naotake Ogasawara, Kenta Nakai, Satoru Miyano
2004 Misc conf
Predicting the Operon Structure of Bacillus subtilis Using Operon Length, Intergene Distance, and Gene Expression Information.
Pacific Symposium on Biocomputing
Michiel J. L. de Hoon, Seiya Imoto, Kazuo Kobayashi, Naotake Ogasawara, Satoru Miyano
2003 Misc conf
Inferring Gene Regulatory Networks from Time-Ordered Gene Expression Data of Bacillus Subtilis Using Differential Equations.
Pacific Symposium on Biocomputing
Michiel J. L. de Hoon, Seiya Imoto, Kazuo Kobayashi, Naotake Ogasawara, Satoru Miyano
2002 B conf
Inferring Gene Regulatory Networks from Time-Ordered Gene Expression Data Using Differential Equations.
Discovery Science
Michiel J. L. de Hoon, Seiya Imoto, Satoru Miyano
2002 J jnl
Statistical analysis of a small set of time-ordered gene expression data using linear splines.
Bioinform.
Michiel J. L. de Hoon, Seiya Imoto, Satoru Miyano