OBAYASHI Takeshi 大林武

Researcher Number	50397048
Other IDs	https://orcid.org/0000-0002-3106-722X
Affiliation (Current)	2025: 東北大学, 情報科学研究科, 教授
Affiliation (based on the past Project Information) *help	2022 – 2024: 東北大学, 情報科学研究科, 教授 2012 – 2021: 東北大学, 情報科学研究科, 准教授 2009 – 2010: Tohoku University, 大学院・情報科学研究科, 助教
Review Section/Research Field	Principal Investigator Basic Section 43060:System genome science-related / Basic Section 62010:Life, health and medical informatics-related / System genome science / Plant molecular biology/Plant physiology Except Principal Investigator Biological Sciences / Biological Sciences / Plant molecular biology/Plant physiology / Developmental biology
Keywords	Principal Investigator 遺伝子共発現 / データベース / 遺伝子共発現ネットワーク / 遺伝子ネットワーク / トランスクリプトーム / シロイヌナズナ / バイオインフォマティクス / 脳 / 実験動物 / 比較トランスクリプトーム … More / マウス / 種間比較 / メタ解析 / トランスクリプトーム / 計算言語学 / 進化生態学 / 進化圧 / 小麦 / 環境適応 / 短期進化 / 比較ゲノム / 生命情報科学 / シングルセル / 主成分分析 / 進化 / ネットワーク解析 / ゲノム進化 / 共発現データベース / ネットワーク生物学 / マイクロアレイ / 環境応答 … More Except Principal Investigator 植物細胞壁 / 細胞壁 / 植物 / 酵素 / 細胞壁モデル / CET / XTH / キシログルカン / セルロース / 共発現データベース / 情報処理 / 国際的次世代若手リーダー / 大規模データ科学 / 分子科学 / 鍵分子ネットワーク / 植物生殖 / セルロース繋ぎ換え酵素 / 酵素反応 / 細胞壁再生 / プロトプラスト / タンパク質発現制御 / 大脳皮質発生 / ニューロン分化 / 幹細胞 / タンパク質相互作用 / タンパク質切断制御 / 翻訳後タンパク質修飾 / 細胞分化 / 神経幹細胞 / 共発現 / ペクチンメチルエステラーゼ / PME / 倍数体 / クチクラ / beta1,3/1,4グルカン / トランスクリプトーム / ネナシカズラ / 細胞壁再生系 / セルロース繋ぎ換え反応 / 高次構造 / 植物免疫 / 細胞骨格 / 膜交通 / 公開展示 / データベース / 支援センター / イメージング / オミクス / 糖質分析 / 生物間相互作用 / シグナル分子 / 発生制御 / アウトリーチ / 総括班 / 若手育成 / 研究支援 / 共同研究 Less

全環境トランスクリプトームの種間比較による実験動物適用限界の明瞭化Principal Investigator
- Principal Investigator
  
  大林武
- Project Period (FY)
  2023 – 2025
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Tohoku University
Key-Molecule-Network in Plant Reproduction
- Principal Investigator
  
  東山哲也
- Project Period (FY)
  2022 – 2028
- Research Category
  
  Fund for the Promotion of Joint International Research (International Leading Research )
- Review Section
  
  Biological Sciences
- Research Institution
  The University of Tokyo
人間活動に伴う植物の短期的適応進化の学際統合的理解Principal Investigator
- Principal Investigator
  
  大林武
- Project Period (FY)
  2021 – 2024
- Research Category
  
  Fund for the Promotion of Joint International Research (Fostering Joint International Research (A))
- Review Section
  
  Basic Section 43060:System genome science-related
- Research Institution
  Tohoku University
Improvement of gene coexpression network analysis with the construction of reference transcriptome dataPrincipal Investigator
- Principal Investigator
  
  Obayashi Takeshi
- Project Period (FY)
  2019 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43060:System genome science-related
- Research Institution
  Tohoku University
A new molecular model for plant cell wall based on a new enzyme, cellulose endotransglucosylase
- Principal Investigator
  
  Nishitani Kazuhiko
- Project Period (FY)
  2017 – 2019
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Plant molecular biology/Plant physiology
- Research Institution
  Kanagawa University
  Tohoku University
Analysis of cell-cell communication using comparison of gene co-expression for different tissuesPrincipal Investigator
- Principal Investigator
  
  Obayashi Takeshi
- Project Period (FY)
  2015 – 2017
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  System genome science
- Research Institution
  Tohoku University
Novel molecular mechanism collaborating stem neural stem cell mainteinance and differentiation
- Principal Investigator
  
  Katsuyama Yu
- Project Period (FY)
  2014 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Developmental biology
- Research Institution
  Shiga University of Medical Science
  Tohoku University
The plant cell wall as information processing system
- Principal Investigator
  
  Nishitani Kazuhiko
- Project Period (FY)
  2012 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Tohoku University
Structure and dynamics of the plant cell wall as information processing system
- Principal Investigator
  
  Nishitani Kazuhiko
- Project Period (FY)
  2012 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Tohoku University
Construction of ATTED-III, Gene Coexpression Database for ArabidopsisPrincipal Investigator
- Principal Investigator
  
  OBAYASHI Takeshi
- Project Period (FY)
  2009 – 2010
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Plant molecular biology/Plant physiology
- Research Institution
  Tohoku University

[Journal Article] Bioinformatics linking to biodiversity and cultural research2022
- Author(s)
  松前ひろみ, 神保宇嗣, 仲里猛留, 畠山剛臣, 大林武
- Journal Title
  
  JSBi Bioinformatics Review
  
  Volume: 3 Issue: 2 Pages: 88-114
- DOI
  10.11234/jsbibr.2022.primer3
- ISSN
  2435-7022
- Language
  Japanese
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20KK0257, KAKENHI-PUBLICLY-20H05013
[Journal Article] ATTED-II v11: A Plant Gene Coexpression Database Using a Sample Balancing Technique by Subagging of Principal Components2022
- Author(s)
  Obayashi Takeshi、Hibara Himiko、Kagaya Yuki、Aoki Yuichi、Kinoshita Kengo
- Journal Title
  
  Plant and Cell Physiology
  
  Volume: - Issue: 6 Pages: 869-881
- DOI
  10.1093/pcp/pcac041
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K06624, KAKENHI-PROJECT-20KK0257
[Journal Article] ATTED-II in 2018: A Plant Coexpression Database based on Investigation of Statistical Property of the Mutual Rank Index.2018
- Author(s)
  Obayashi T, Aoki Y, Tadaka S, Kagaya Y, Kinoshita K.
- Journal Title
  
  Plant Cell Physiology
  
  Volume: 59 Issue: 1 Pages: e3-e3
- DOI
  10.1093/pcp/pcx191
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K18464, KAKENHI-PROJECT-15K20863
[Journal Article] Arabinogalactan proteins accumulate in the cell walls of searching hyphae of the stem parasitic plants, Cuscuta campestris and Cuscuta japonica.2017
- Author(s)
  Hozumi A, Bera S, Fujiwara D, Obayashi T, Yokoyama R, Nishitani K, Aoki K
- Journal Title
  
  Plant and Cell Physiology
  
  Volume: 58 Issue: 11 Pages: 1868-1877
- DOI
  10.1093/pcp/pcx121
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16K07389, KAKENHI-PROJECT-17K19374, KAKENHI-WRAPUP-17H06066, KAKENHI-PROJECT-17H03691
[Journal Article] Plant Aurora kinases interact with and phosphorylate transcription factors.2016
- Author(s)
  Takagi, M., Sakamoto, T.,Suzuki, R.,Nemoto, K., Obayashi, T., Matsunaga, T. M., Hirakawa, T., Kurihara, D., Nariai, Y., Urano, T., Sawasaki, T., Matsunaga, S.
- Journal Title
  
  JOURNAL OF PLANT RESEARCH
  
  Volume: 129 Issue: 6 Pages: 1165-1178
- DOI
  10.1007/s10265-016-0860-x
- NAID
  40020988231
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PLANNED-15H05962, KAKENHI-PLANNED-16H06579, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005, KAKENHI-PROJECT-16H04729, KAKENHI-PROJECT-16J06389, KAKENHI-PROJECT-26291067, KAKENHI-PROJECT-16K18570
[Journal Article] ALCOdb: Gene Coexpression Database for Microalgae.2016
- Author(s)
  Aoki Y, Okamura Y, Ohta H, Kinoshita K, Obayashi T.
- Journal Title
  
  Plant Cell Physiology
  
  Volume: 57 Issue: 1 Pages: e3-e3
- DOI
  10.1093/pcp/pcv190
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-15K18464, KAKENHI-PROJECT-15K20863, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005
[Journal Article] ATTED-II in 2016: a plant coexpression database towards lineage-specific coexpression.2016
- Author(s)
  Aoki Y, Okamura Y, Tadaka S, Kinoshita K, Obayashi T.
- Journal Title
  
  Plant Cell Physiology
  
  Volume: 57 Issue: 1 Pages: e5-e5
- DOI
  10.1093/pcp/pcv165
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-15K18464, KAKENHI-PROJECT-15K20863, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005
[Journal Article] Modification of plant cell wall structure accompanied by enhancement of saccharification efficiency using a chemical, lasalocid sodium2016
- Author(s)
  Okubo-Kurihara, E., Ohtani, M., Kurihara, Y., Kakegawa, K., Kobayashi, M., Nagata, N., Komatsu, T., Kikuchi, J., Cutler, S., Demura,T.and Matsui, M.
- Journal Title
  
  Sci Rep
  
  Volume: 6 Issue: 1 Pages: 34602-34602
- DOI
  10.1038/srep34602
- NAID
  120005867185
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-25113006, KAKENHI-PUBLICLY-15H01235, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114002, KAKENHI-PROJECT-26440170
[Journal Article] Plant and Cell Physiology's 2015 Database Issue.2015
- Author(s)
  Ohyanagi H, Obayashi T, Yano K.
- Journal Title
  
  Plant Cell Physiol.
  
  Volume: 56 Issue: 1 Pages: 4-6
- DOI
  10.1093/pcp/pcu206
- Peer Reviewed
- Data Source
  KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005
[Journal Article] Okamura Y, Aoki Y, Obayashi T, Tadaka S, Ito S1, Narise T, Kinoshita K.2015
- Author(s)
  Okamura Y, Aoki Y, Obayashi T, Tadaka S, Ito S1, Narise T, Kinoshita K.
- Journal Title
  
  Nucleic Acid Res
  
  Volume: 43 Issue: D1 Pages: D82-D86
- DOI
  10.1093/nar/gku1163
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PLANNED-22136005, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005, KAKENHI-PROJECT-24570176
[Journal Article] A plant U-box protein, PUB4, regulates asymmetric cell division and cell proliferation in the root meristem.2015
- Author(s)
  Kinoshita, A, Hove, C.A., Tabata, R., Yamada, M., Shimizu, N., Ishida, T., Yamaguchi K., Shigenobu, S., Takebayashi, Y., Iuchi, S., Kobayashi, M., Kurata, T., Wada, T., Seo, M., Hasebe, M., Bilou, I., Fukuda, H., Scheres, B., Heidstra, R., Sawa, S.
- Journal Title
  
  Development
  
  Volume: 142 Issue: 3 Pages: 444-453
- DOI
  10.1242/dev.113167
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114009, KAKENHI-PROJECT-24370024, KAKENHI-PROJECT-24570051, KAKENHI-PROJECT-24770077, KAKENHI-PUBLICLY-25119713, KAKENHI-PROJECT-25440134, KAKENHI-PROJECT-26650143, KAKENHI-PROJECT-26650102, KAKENHI-PLANNED-22128008, KAKENHI-PLANNED-15H05958, KAKENHI-PROJECT-23227001
[Journal Article] Transcriptional repression by MYB3R proteins regulates plant organ growth.2015
- Author(s)
  Kobayashi K, Suzuki T, Iwata E, Nakamichi N, Suzuki T, Chen P, Ohtani M, Ishida T, Hosoya H, Müller S, Leviczky T, Pettkó-Szandtner A, Darula Z, Iwamoto A, Nomoto M, Tada Y, Higashiyama T, Demura T, Doonan JH, Hauser MT, Sugimoto K, Umeda M, Magyar Z, Bögre L, Ito M
- Journal Title
  
  EMBO Journal
  
  Volume: 34 Issue: 15 Pages: 1992-2007
- DOI
  10.15252/embj.201490899
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25440134, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114002, KAKENHI-PUBLICLY-26113509, KAKENHI-PROJECT-13J10800, KAKENHI-PROJECT-26650099, KAKENHI-PROJECT-26660290, KAKENHI-PROJECT-25291062, KAKENHI-PROJECT-26291061, KAKENHI-PROJECT-26291064, KAKENHI-ORGANIZER-25113001, KAKENHI-PROJECT-26291058
[Journal Article] Comparison of gene coexpression profiles and construction of conserved gene networks to find functional modules.2015
- Author(s)
  Okamura Y, Obayashi T, Kinoshita K.
- Journal Title
  
  PLoS One
  
  Volume: 10 Issue: 7 Pages: e0132039-e0132039
- DOI
  10.1371/journal.pone.0132039
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-15K18464, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005
[Journal Article] COXPRESdb: a database of comparative gene coexpression networks of eleven species for mammals.2013
- Author(s)
  Obayashi T, Okamura Y, Ito S, Tadaka S, Motoike IN, Kinoshita K
- Journal Title
  
  Nucleic Acids Res
  
  Volume: 41(Database Issue) Issue: D1 Pages: 1014-1020
- DOI
  10.1093/nar/gks1014
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24570176, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005
[Journal Article] Basic helix-loop-helix transcription factors JASMONATE-ASSOCIATEDMYC2-LIKE1 (JAM1), JAM2, and JAM3 are negative regulators of jasmonate responses in Arabidopsis.2013
- Author(s)
  Sasaki-Sekimoto, Y., Jikumaru, Y., Obayashi, T., Saito, H., Masuda, S., Kamiya, Y., Ohta, H. and Shirasu, K.
- Journal Title
  
  Plant Physiology
  
  Volume: 163 Issue: 1 Pages: 291-304
- DOI
  10.1104/pp.113.220129
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23770038, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005, KAKENHI-PROJECT-24228008, KAKENHI-PUBLICLY-25120709
[Journal Article] ATTED-II in 2014: Evaluation of Gene Coexpression in Agriculturally Important Plants2013
- Author(s)
  Takeshi Obayashi, Yasunobu Okamura, Satoshi Ito, Shu Tadaka, Yuichi Aoki, Matsuyuki Shirota and Kengo Kinoshita
- Journal Title
  
  Plant Cell Physiology
  
  Volume: 55 Issue: 1 Pages: e6-e6
- DOI
  10.1093/pcp/pct178
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-22136005, KAKENHI-ORGANIZER-24114001, KAKENHI-PLANNED-24114005, KAKENHI-PROJECT-24570176
[Journal Article] Regulation of root greening by light and auxin/cytokinin signaling in Arabidopsis.2012
- Author(s)
  Kobayashi, K.
- Journal Title
  
  Plant Cell
  
  Volume: 24 Pages: 1081-1095
- Peer Reviewed
- Data Source
  KAKENHI-ORGANIZER-24114001
[Journal Article] Role of the G-box element for regulation of chlorophyll biosynthesis in Arabidopsis root2012
- Author(s)
  Kobayashi, K., Obayashi, T., Masuda, T.
- Journal Title
  
  Plant Signal. Behavior
  
  Volume: 7 Issue: 8 Pages: 922-926
- DOI
  10.4161/psb.20760
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24570042, KAKENHI-PROJECT-24770055, KAKENHI-PLANNED-24114005
[Journal Article] Regulation of root greening by light and auxin/cytokinin signaling in Arabidopsis.2012
- Author(s)
  Kobayashi K
- Journal Title
  
  Plant Cell
  
  Volume: 24 Pages: 1081-1095
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-24114005
[Journal Article] Kinoshita K ATTED-II updates : condition-specific gene coexpression to extend coexpression analyses and applications to a broad range of flowering plants.2011
- Author(s)
  Obayashi T, Nishida K, Kasahara K
- Journal Title
  
  Plant Cell Physiol 52
  
  Pages: 213-219
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] 共発現情報から見る遺伝子機能ネットワーク2011
- Author(s)
  大林武、木下賢吾
- Journal Title
  
  化学と生物[KASEAA] 49
  
  Pages: 48-56
- NAID
  10027729287
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] COXPRESdb : a database to compare gene coexpression in seven model animals2011
- Author(s)
  Obayashi, Kinoshita
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 39 Pages: 1016-1022
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] 共発現情報から見る遺伝子機能ネットワーク2011
- Author(s)
  大林武、木下賢吾
- Journal Title
  
  化学と生物
  
  Volume: 49 Pages: 48-66
- NAID
  10027729287
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] COXPRESdb : a database to compare gene coexpression in seven model animals.2011
- Author(s)
  Obayashi T, Kinoshita K
- Journal Title
  
  Nucleic Acids Res 39
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] ATTED-II updates : condition-specific gene coexpression to extend coexpression analyses and applications to a broad range of flowering plants.2011
- Author(s)
  Obayashi, et al.
- Journal Title
  
  Plant and Cell Physiology
  
  Volume: 52 Pages: 213-219
- NAID
  10029708387
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Coexpression landscape in ATTED-II : usage of gene list and gene network for various types of pathways.2010
- Author(s)
  Obayashi T, Kinoshita K
- Journal Title
  
  J. Plant Research 123
  
  Pages: 311-319
- NAID
  10027218882
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Rank of correlation coefficient as a comparable measure for biological significance of gene coexpression.2009
- Author(s)
  Obayashi T, Kinoshita K
- Journal Title
  
  DNA Research 16
  
  Pages: 249-260
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis2009
- Author(s)
  Kinoshita, Obayashi
- Journal Title
  
  Bioinformatics 25
  
  Pages: 2677-2684
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Rank of correlation coefficient as a comparable measure for biological significance of gene coexpression2009
- Author(s)
  Obayashi, Kinoshita
- Journal Title
  
  DNA Research 16
  
  Pages: 249-260
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis.2009
- Author(s)
  Kinoshita K, Obayashi T
- Journal Title
  
  Bioinformatics 25
  
  Pages: 2677-2684
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Journal Article] Coexpression landscape in ATTED-II : usage of gene list and gene network for various types of pathways
- Author(s)
  Obayashi, Kinoshita
- Journal Title
  
  Journal of Plant Research (未定, 印刷中)
- NAID
  10027218882
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Visualizing human impact on plant transmission from linguistic data2024
- Author(s)
  Obayashi T, Nishikawa Y, Matsumae H.
- Organizer
  第71回日本生態学会大会
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] The transmission of plant names across languages can be visualized from open data2023
- Author(s)
  西川有理, 松前ひろみ, 大林武
- Organizer
  2023年日本バイオインフォマティクス学会年会第12回生命医薬情報学連合大会（IIBMP2023）
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] Subagging of Principal Components for Sample Balancing: Building a Condition-Independent Gene Coexpression Resource from Public Transcriptome Data2023
- Author(s)
  Obayashi T
- Organizer
  Function COSI, ISMB/ECCB 2023 (Intelligent Systems For Molecular Biology / European Conference On Conputational Biology)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-23K28180
[Presentation] 遺伝子共発現データベースATTED-IIにおける種固有の共発現情報の導出と利用の展望2023
- Author(s)
  大林武
- Organizer
  日本バイオインフォマティクス学会北海道地域部会第1回北海道バイオ"Mix up"
- Invited
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] Subagging of Principal Components for Sample Balancing: Building a Condition-Independent Gene Coexpression Resource from Public Transcriptome Data2023
- Author(s)
  Obayashi T
- Organizer
  Function COSI, ISMB/ECCB 2023 (Intelligent Systems For Molecular Biology / European Conference On Conputational Biology)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] Genome-Scale Gene Coexpression Visualization Tools in Gene Coexpression Database COXPRESdb2023
- Author(s)
  大林武, 火原日美子, 木下賢吾
- Organizer
  2023年日本バイオインフォマティクス学会年会第12回生命医薬情報学連合大会（IIBMP2023）
- Data Source
  KAKENHI-PROJECT-23K28180
[Presentation] 寄生植物コシオガマの遺伝子共発現ネットワーク解析2022
- Author(s)
  田中瑞樹, 大林武, 吉田聡子
- Organizer
  日本植物学会第86回大会
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] Variational Autoencoderを用いた組織種による遺伝子発現データの分離2022
- Author(s)
  大久保叡一, 青木裕一, 大林武, 永野惇, 岩山幸治
- Organizer
  2022年度統計関連学会連合大会
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] Gene-to-gene Spearman correlation using the sample principal component scores is a simple sample-balancing methodology for gene coexpression calculation.2022
- Author(s)
  Takeshi Obayashi, Aoki Yuichi
- Organizer
  第63回日本植物生理学会年会
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] 寄生植物コシオガマの遺伝子共発現ネットワーク解析2022
- Author(s)
  田中瑞樹, 大林武, 吉田聡子
- Organizer
  第11回近畿植物学会講演会
- Data Source
  KAKENHI-PROJECT-20KK0257
[Presentation] ATTED-II v10.2: a Plant Coexpression Database Providing Logit Score of Ensemble Mutual Rank as Coexpression Index to Enhance Usability for Genome-Wide Analyses.2021
- Author(s)
  Takeshi Obayashi and Yuichi Aoki
- Organizer
  第62回日本植物生理学会年会
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] Exploration of Gene Expression Latent Space in Higher Plants by using Generative Models.2021
- Author(s)
  Yuichi Aoki, Takeshi Obayashi
- Organizer
  第62回日本植物生理学会年会
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] Development of Coexpression-guided Generative Model for Plant Gene Expression Inference2020
- Author(s)
  Yuichi Aoki, Shinichi Yamazaki, and Takeshi Obayashi
- Organizer
  28th Conference on International Society for Computational Biology (ISMB2020)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] Comparison of summarization methods of co-expressed gene list to predict gene function2020
- Author(s)
  Takeshi Obayashi, Yuichi Aoki, and Kengo Kinoshita
- Organizer
  28th Conference on International Society for Computational Biology (ISMB2020)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] 全ゲノム遺伝子共発現情報の可視化手法の検討2020
- Author(s)
  Takeshi Obayashi, Yuichi Aoki, and Kengo Kinoshita
- Organizer
  第9回生命医薬情報学連合大会
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] ATTED-II v10: a Plant Coexpression Database Providing Logit Score of Ensemble Mutual Rank as Coexpression Index to Enhance Usability for Genome-Wide Analyses.2020
- Author(s)
  Takeshi Obayashi, Yuichi Aoki
- Organizer
  日本植物生理学会年会（大阪大会）
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] Integration and evaluation of scRNAseq-, bulk RNAseq and microarray-based gene coexpression data2019
- Author(s)
  Takeshi Obayashi, Yuichi Aoki, Kengo Kinoshita
- Organizer
  ISMB/ECCB 2019
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K06624
[Presentation] Insight into strategies for plant-plant parasitism in Cuscuta campestris based on genome sequencing.2018
- Author(s)
  Narukawa, H., Yokoyama, R., Obayashi, T., Kaga, Y., Kato, M., Kuroha, T., Nishitani, K.
- Organizer
  第59回日本植物生理学会年会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] A revised coexpression calculation procedure in ATTED-II version 9 with batch-normalization and bagging methods.2018
- Author(s)
  Takeshi Obayashi, Yuichi Aoki and Kengo Kinoshita
- Organizer
  the 59th Annual Meeting of the Japanese Society of Plant Physiologists
- Data Source
  KAKENHI-PROJECT-15K18464
[Presentation] 植物種間情報伝達を介したアメリカネナシカズラ吸器における維管束新生機構の探索2018
- Author(s)
  加賀悠樹，大林武，横山隆亮，黒羽剛，大谷美沙都，出村拓，西谷和彦
- Organizer
  日本植物学会第82回大会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] 寄生植物　アメリカネナシカズラの花成制御におけるFTの機能2018
- Author(s)
  加藤萌木，横山隆亮，黒羽剛，大林武，阿部光知，西谷和彦
- Organizer
  日本植物学会第82回大会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] アメリカネナシカズラのゲノム解読による寄生植物の適応進化メカニズムの解明2018
- Author(s)
  横山隆亮，大林武，鳴川秀樹，加賀悠樹，加藤萌木，黒羽剛，西谷和彦
- Organizer
  第59回日本植物生理学会年会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] 比較ゲノム解析から見えてきた茎寄生植物ネナシカズラの形態形成メカニズム2017
- Author(s)
  横山隆亮，大林武，鳴川秀樹，加賀悠樹，加藤萌木，黒羽剛，西谷和彦
- Organizer
  日本植物学会第81回大会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] 茎寄生植物アメリカネナシカズラにおける核内倍加を介した吸器形成制御メカニズムの解析2017
- Author(s)
  鳴川秀樹,加賀悠樹,柴田航希,倉田哲也,大林武,黒羽剛,横山隆亮,西谷和彦
- Organizer
  第58回日本植物生理学会年会
- Place of Presentation
  鹿児島大学（鹿児島県鹿児島市）
- Year and Date
  2017-03-16
- Data Source
  KAKENHI-ORGANIZER-24114001
[Presentation] A Model for the Molecular Mechanism of Vascular Development in the Haustorium of the Parasitic Plant Cuscuta Campestris.2017
- Author(s)
  Kaga Y., Obayashi T., Yokoyama R., Nishitani K.
- Organizer
  Taiwan-Japan Plant Biology 2017
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] Sample Alignment of Different Species toward Species-Specific Coexpression Analyses2017
- Author(s)
  Takeshi Obayashi, Yuichi Aoki, Shu Tadaka, Yasunobu Okamura, Kengo Kinoshita
- Organizer
  the 58th Annual Meeting of the Japanese Society of Plant Physiologists
- Data Source
  KAKENHI-PROJECT-15K18464
[Presentation] 茎寄生植物アメリカネナシカズラにおける核内倍加を介した吸器形成制御メカニズムの解析2017
- Author(s)
  鳴川秀樹,加賀悠樹,柴田航希,倉田哲也,大林武,黒羽剛,横山隆亮,西谷和彦
- Organizer
  第58回日本植物生理学会年会
- Place of Presentation
  鹿児島大学(鹿児島県鹿児島市)
- Year and Date
  2017-03-16
- Data Source
  KAKENHI-PLANNED-24114005
[Presentation] ネナシカズラのゲノムから読み解く茎寄生の生命戦略2017
- Author(s)
  西谷和彦，横山隆亮，大林武他
- Organizer
  日本植物学会第81回大会
- Data Source
  KAKENHI-PROJECT-17H03691
[Presentation] 茎寄生植物アメリカネナシカズラCuscuta campestrisの吸器発生における維管束形成メカニズムの解析2016
- Author(s)
  加賀悠樹,柴田航希,倉田哲也,大林武,横山隆亮,西谷和彦
- Organizer
  東北植物学会第６回大会
- Place of Presentation
  東北大学(宮城県仙台市)
- Year and Date
  2016-12-10
- Data Source
  KAKENHI-PLANNED-24114005
[Presentation] 茎寄生植物アメリカネナシカズラ吸器形成における維管束分化メカニズムの解明2016
- Author(s)
  加賀悠樹，柴田航希，倉田哲也，大林武，横山隆亮，西谷和彦
- Organizer
  日本植物学会第80回大会
- Place of Presentation
  沖縄コンベンションセンター(沖縄県宜野湾市)
- Year and Date
  2016-09-16
- Data Source
  KAKENHI-ORGANIZER-24114001
[Presentation] 茎寄生植物アメリカネナシカズラの吸器形成における局所的な核内倍加の役割2016
- Author(s)
  鳴川秀樹,加賀悠樹,柴田航希,倉田哲也,大林武,黒羽剛,横山隆亮,西谷和彦
- Organizer
  東北植物学会第６回大会
- Place of Presentation
  東北大学（宮城県仙台市）
- Year and Date
  2016-12-10
- Data Source
  KAKENHI-ORGANIZER-24114001
[Presentation] 茎寄生植物アメリカネナシカズラ吸器発生過程における核内倍加の役割2016
- Author(s)
  鳴川秀樹，加賀悠樹，柴田航希，倉田哲也，大林武，横山隆亮，西谷和彦
- Organizer
  日本植物学会第80回大会
- Place of Presentation
  沖縄コンベンションセンター(沖縄県宜野湾市)
- Year and Date
  2016-09-16
- Data Source
  KAKENHI-PLANNED-24114005
[Presentation] 茎寄生植物アメリカネナシカズラ吸器発生過程における核内倍加の役割2016
- Author(s)
  鳴川秀樹，加賀悠樹，柴田航希，倉田哲也，大林武，横山隆亮，西谷和彦
- Organizer
  日本植物学会第80回大会
- Place of Presentation
  沖縄コンベンションセンター(沖縄県宜野湾市)
- Year and Date
  2016-09-16
- Data Source
  KAKENHI-ORGANIZER-24114001
[Presentation] 茎寄生植物アメリカネナシカズラCuscuta campestrisの吸器発生における維管束形成メカニズムの解析2016
- Author(s)
  加賀悠樹,柴田航希,倉田哲也,大林武,横山隆亮,西谷和彦
- Organizer
  東北植物学会第６回大会
- Place of Presentation
  東北大学（宮城県仙台市）
- Year and Date
  2016-12-10
- Data Source
  KAKENHI-ORGANIZER-24114001
[Presentation] Impact of Evolutionary Age on Gene Coexpression Network and Gene Functional Relationship2016
- Author(s)
  Yuichi Aoki, Takeshi Obayashi, Kengo Kinoshita
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（神奈川県横浜市）
- Year and Date
  2016-12-01
- Invited
- Data Source
  KAKENHI-PROJECT-15K18464
[Presentation] Gene age determines the fundamental structure of the gene coexpression network.2016
- Author(s)
  Yuichi Aoki, Takeshi Obayashi, Kengo Kinoshita
- Organizer
  Intelligent Systems for Molecular Biology 2016
- Place of Presentation
  Orlando, Florida, U.S.A
- Year and Date
  2016-07-11
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K18464
[Presentation] 茎寄生植物アメリカネナシカズラの吸器形成における局所的な核内倍加の役割2016
- Author(s)
  鳴川秀樹,加賀悠樹,柴田航希,倉田哲也,大林武,黒羽剛,横山隆亮,西谷和彦
- Organizer
  東北植物学会第６回大会
- Place of Presentation
  東北大学(宮城県仙台市)
- Year and Date
  2016-12-10
- Data Source
  KAKENHI-PLANNED-24114005
[Presentation] Meta-analysis of gene coexpression in ATTED-II toward species-specific coexpression analyses2016
- Author(s)
  大林武，青木裕一，岡村容伸，田高周，木下賢吾
- Organizer
  日本植物生理学会年会
- Place of Presentation
  岩手大学（岩手）
- Year and Date
  2016-03-17
- Data Source
  KAKENHI-PROJECT-15K18464
[Presentation] 茎寄生植物アメリカネナシカズラ吸器形成における維管束分化メカニズムの解明2016
- Author(s)
  加賀悠樹，柴田航希，倉田哲也，大林武，横山隆亮，西谷和彦
- Organizer
  日本植物学会第80回大会
- Place of Presentation
  沖縄コンベンションセンター(沖縄県宜野湾市)
- Year and Date
  2016-09-16
- Data Source
  KAKENHI-PLANNED-24114005
[Presentation] ATTED-II ver6:遺伝子共発現データの条件比較、種間比較2011
- Author(s)
  大林武、木下賢吾
- Organizer
  第52回日本植物生理学会年会
- Place of Presentation
  東北大学
- Year and Date
  2011-03-22
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] How to measure the similarity of gene expression patterns to identify gene function2011
- Author(s)
  Takeshi Obayashi
- Organizer
  IC-QBIC2011 Bio-Informatics Workshop
- Place of Presentation
  Tokyo University of Science
- Year and Date
  2011-03-11
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] How to measure the similarity of gene expression patterns to identify gene function2011
- Author(s)
  Obayashi T
- Organizer
  QBIC2011 Bio-Informatics Workshop
- Place of Presentation
  東京理科大学
- Year and Date
  2011-03-11
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Rank of Correlation Coefficient Is a Comparable Measure of Gene Coexpression2010
- Author(s)
  Obayashi T, Kinoshita K
- Organizer
  The 2010 Annual Conference of Japanese Society for Bioinformatics
- Place of Presentation
  九州大学
- Year and Date
  2010-12-13
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Rank of Correlation Coefficient as a Comparable Measure for Biological Significance of Gene Coexpression2010
- Author(s)
  Obayashi T, Kinoshita K
- Organizer
  Asian Young Researchers Conference on Computational and Omics Biology 2010
- Place of Presentation
  台南、台湾
- Year and Date
  2010-03-10
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Rank of Correlation Coefficient as a Comparable Measure for Biological Significance of Gene Coexpression2010
- Author(s)
  Takeshi Obayashi
- Organizer
  Asian Young Researchers Conference on Computational and Omics Biology 2010
- Place of Presentation
  National Cheng Kung University, Taiwan
- Year and Date
  2010-03-11
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] COXPRESdb : a gene coexpression database for 7 animal species2010
- Author(s)
  Obayashi, Kinoshita
- Organizer
  The Asian Young Researchers Conference on Computational and Omics Biology 2010
- Place of Presentation
  Biopolis, Buona Vista, Singapore
- Year and Date
  2010-12-01
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] COXPRESdb : a gene coexpression database for 7 animal species2010
- Author(s)
  Obayashi T, Kinoshita K
- Organizer
  4th Asian Young Researchers Conference on Computational and Omics Biology
- Place of Presentation
  シンガポール、シンガポール共和国
- Year and Date
  2010-12-01
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Number of microarray samples to construct effective gene coexpression data2010
- Author(s)
  Obayashi T, Kinoshita K
- Organizer
  第51回日本植物生理学会年会
- Place of Presentation
  熊本大学
- Year and Date
  2010-03-20
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] Rank of Correlation Coefficient Is a Comparable Measure of Gene Coexpression2010
- Author(s)
  Obayashi, Kinoshita
- Organizer
  The 2010 Annual Conference of Japanese Society for Bioinformatics (JSBi2010)
- Place of Presentation
  Centennial Hall Kyushu University School of Medicine
- Data Source
  KAKENHI-PROJECT-21770035
[Presentation] COXPRESdb : A database of coexpressed gene networks for human, mouse and rat2009
- Author(s)
  Obayashi T, Kinoshita K
- Organizer
  International congress of physiological sciences
- Place of Presentation
  京都
- Year and Date
  2009-07-27
- Data Source
  KAKENHI-PROJECT-21770035

1. Nishitani Kazuhiko (60164555)

# of Collaborated Projects: 3 results

# of Collaborated Products: 18 results
2. YOKOYAMA Ryusuke (90302083)

# of Collaborated Projects: 2 results

# of Collaborated Products: 11 results
3. KUROHA Takeshi (50415155)

# of Collaborated Projects: 2 results

# of Collaborated Products: 4 results
4. 工藤光子 (90594078)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
5. OKADA Kiyotaka (50101093)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
6. SAMEJIMA Masahiro (30162530)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
7. NISHIMURA Mikio (80093061)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
8. HASEBE Mitsuyasu (40237996)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
9. FUKUDA Hiroo (10165293)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
10. Kinoshita Kengo (60332293)

# of Collaborated Projects: 1 results

# of Collaborated Products: 12 results
11. Katsuyama Yu (10359862)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
12. IGARASHI Kazuhiko (00250738)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
13. 出村拓 (40272009)

# of Collaborated Projects: 1 results

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14. 澤進一郎 (00315748)

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# of Collaborated Products: 1 results
15. 佐藤忍 (70196236)

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16. 上田貴志 (10311333)

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17. 橋本隆 (80180826)

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18. 馳澤盛一郎 (40172902)

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19. 五十嵐圭日子 (80345181)

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20. 山口信次郎 (10332298)

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21. 円谷陽一 (10142233)

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22. 相田光宏 (90311787)

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23. 寺島俊雄 (20101892)

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24. 東山哲也 (00313205)

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25. 土松隆志 (60740107)

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26. 岩田洋佳 (00355489)

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27. 河内孝之 (40202056)

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28. 那須田周平 (10273492)

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29. 工藤洋 (10291569)

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32. 佐藤良勝 (30414014)

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33. 内田克哉 (40344709)

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34. 増田建

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35. 小林康一

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36. 石田喬志

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# of Collaborated Products: 1 results
37. 増田真二

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38. 松永幸大

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39. 松井南

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# of Collaborated Products: 1 results

OBAYASHI Takeshi 大林 武

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全環境トランスクリプトームの種間比較による実験動物適用限界の明瞭化Principal Investigator

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Key-Molecule-Network in Plant Reproduction

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人間活動に伴う植物の短期的適応進化の学際統合的理解Principal Investigator

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Improvement of gene coexpression network analysis with the construction of reference transcriptome dataPrincipal Investigator

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A new molecular model for plant cell wall based on a new enzyme, cellulose endotransglucosylase

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Analysis of cell-cell communication using comparison of gene co-expression for different tissuesPrincipal Investigator

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Novel molecular mechanism collaborating stem neural stem cell mainteinance and differentiation

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The plant cell wall as information processing system

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Structure and dynamics of the plant cell wall as information processing system

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Construction of ATTED-III, Gene Coexpression Database for ArabidopsisPrincipal Investigator

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[Journal Article] Bioinformatics linking to biodiversity and cultural research2022

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[Journal Article] ATTED-II v11: A Plant Gene Coexpression Database Using a Sample Balancing Technique by Subagging of Principal Components2022

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[Journal Article] ATTED-II in 2018: A Plant Coexpression Database based on Investigation of Statistical Property of the Mutual Rank Index.2018

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OBAYASHI Takeshi 大林武

[Journal Article] Modification of plant cell wall structure accompanied by enhancement of saccharification efficiency using a chemical, lasalocid sodium2016