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Start Over Author "Yamaoka, Shohei" Journal plant and cell physiology
8 results on '"Yamaoka, Shohei"'

4. MarpolBase Expression: A Web-Based, Comprehensive Platform for Visualization and Analysis of Transcriptomes in the Liverwort Marchantia polymorpha

Author

Kawamura, Shogo, primary, Romani, Facundo, additional, Yagura, Masaru, additional, Mochizuki, Takako, additional, Sakamoto, Mika, additional, Yamaoka, Shohei, additional, Nishihama, Ryuichi, additional, Nakamura, Yasukazu, additional, Yamato, Katsuyuki T, additional, Bowman, John L, additional, Kohchi, Takayuki, additional, and Tanizawa, Yasuhiro, additional

Published
2022
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5. Diminished Auxin Signaling Triggers Cellular Reprogramming by Inducing a Regeneration Factor in the LiverwortMarchantia polymorpha

Author

Ishida, Sakiko, primary, Suzuki, Hidemasa, additional, Iwaki, Aya, additional, Kawamura, Shogo, additional, Yamaoka, Shohei, additional, Kojima, Mikiko, additional, Takebayashi, Yumiko, additional, Yamaguchi, Katsushi, additional, Shigenobu, Shuji, additional, Sakakibara, Hitoshi, additional, Kohchi, Takayuki, additional, and Nishihama, Ryuichi, additional

Published
2022
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7. Loss of CG methylation in Marchantia polymorpha causes disorganization of cell division and reveals unique DNA methylation regulatory mechanisms of non-CG methylation

Author

Ikeda, Yoko, primary, Nishihama, Ryuichi, additional, Yamaoka, Shohei, additional, Arteaga-Vazquez, Mario A, additional, Aguilar-Cruz, Adolfo, additional, Grimanelli, Daniel, additional, Pogorelcnik, Romain, additional, Martienssen, Robert A, additional, Yamato, Katsuyuki T, additional, Kohchi, Takayuki, additional, Hirayama, Takashi, additional, and Mathieu, Olivier, additional

Published
2018
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8. MarpolBase Expression: A Web-Based, Comprehensive Platform for Visualization and Analysis of Transcriptomes in the Liverwort Marchantia polymorpha

Author

Shogo Kawamura, Facundo Romani, Masaru Yagura, Takako Mochizuki, Mika Sakamoto, Shohei Yamaoka, Ryuichi Nishihama, Yasukazu Nakamura, Katsuyuki T Yamato, John L Bowman, Takayuki Kohchi, Yasuhiro Tanizawa, Kawamura, Shogo [0000-0002-3066-2940], Romani, Facundo [0000-0003-3954-6740], Yagura, Masaru [0000-0003-0623-3924], Mochizuki, Takako [0000-0002-2044-0682], Sakamoto, Mika [0000-0003-4636-6959], Yamaoka, Shohei [0000-0003-4154-9967], Nishihama, Ryuichi [0000-0002-7032-732X], Nakamura, Yasukazu [0000-0002-6782-5715], Yamato, Katsuyuki T [0000-0002-7130-0911], Bowman, John L [0000-0001-7347-3691], Kohchi, Takayuki [0000-0002-9712-4872], Tanizawa, Yasuhiro [0000-0002-6294-3309], and Apollo - University of Cambridge Repository

Subjects
Co-expression analysis, Internet, Physiology, Marchantia polymorpha, Marchantia, Gene Regulatory Networks, Cell Biology, Plant Science, General Medicine, Gene network, Transcriptome
Abstract

The liverwort Marchantia polymorpha is equipped with a wide range of molecular and genetic tools and resources that have led to its wide use to explore the evo-devo aspects of land plants. Although its diverse transcriptome data are rapidly accumulating, there is no extensive yet user-friendly tool to exploit such a compilation of data and to summarize results with the latest annotations. Here, we have developed a web-based suite of tools, MarpolBase Expression (MBEX, https://marchantia.info/mbex/), where users can visualize gene expression profiles, identify differentially expressed genes, perform co-expression and functional enrichment analyses, and summarize their comprehensive output in various portable formats. Using oil body biogenesis as an example, we demonstrated that the results generated by MBEX were consistent with the published experimental evidence and also revealed a novel transcriptional network in this process. MBEX should facilitate the exploration and discovery of the genetic and functional networks behind various biological processes in M. polymorpha, and promote our understanding of the evolution of land plants.

Published
2022

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