Kato Yuki 加藤有己

… Alternative Names

KATO Yuki 加藤有己

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Researcher Number	10511280
Other IDs
Affiliation (Current)	2025: 大阪大学, 大学院医学系研究科, 准教授
Affiliation (based on the past Project Information) *help	2021 – 2024: 大阪大学, 大学院医学系研究科, 准教授 2016 – 2021: 大阪大学, 医学系研究科, 助教 2014 – 2015: 京都大学, iPS細胞研究所, 特定拠点助教 2010 – 2013: 奈良先端科学技術大学院大学, 情報科学研究科, 助教 2008 – 2009: Kyoto University, 化学研究所, 研究員(科学研究)
Review Section/Research Field	Principal Investigator Basic Section 62010:Life, health and medical informatics-related / Bioinformatics/Life informatics / Life / Health / Medical informatics Except Principal Investigator Basic Section 46010:Neuroscience-general-related / Basic Section 62010:Life, health and medical informatics-related / Medium-sized Section 51:Brain sciences and related fields / Bioinformatics/Life informatics
Keywords	Principal Investigator シングルセル / ゲノムワイド / RNA / 整数計画法 / RNA間相互作用 / RNA-RNA相互作用 / RNA2次構造 / データ統合 / 空間オミクス / 遺伝子発現 … More / 細胞状態経路 / シングルセル解析 / シングルセルゲノミクス / 疑似時間経路 / 細胞動態予測 / G４重鎖 / トランスクリプトーム / G4重鎖 / ゲノムワイド配列比較 / 比較ゲノム / ノンコーディングRNA / ２次構造 / 遺伝子発見 / RNA構造アラインメント / RNA２次構造 / デンマーク / 国際情報交換 / 無細胞系実験 / 数理計画法 / アクセシビリティ / シュードノット / キッシングヘアピン / 多重文脈自由文法 / RNAタンパク質相互作用 / RNA-タンパク質相互作用 / 動的計画法 / βシート / タンパク質2次構造 / 形式文法 … More Except Principal Investigator RNA修飾 / バイオインフォマティクス / 脳・神経 / 深層学習 / ナノポアシークエンサー / RNA二次構造 / 自然免疫 / エカルディ・グティエール症候群 / RNA編集 / 発生・分化 / 疾患モデルマウス / 神経変性疾患 / 神経細胞 / TU tagging / RNA / 中枢神経 / マウス / RNAラベリング / 遺伝子発現 / RNA２次構造 / 最適化 / 機械学習 / RNA構造アラインメント / RNA間相互作用 / RNA2次構造 / RNA-タンパク質相互作用 Less

Establishing a spatiotemporal alignment method for cell populationsPrincipal Investigator
- Principal Investigator
  
  加藤有己
- Project Period (FY)
  2024 – 2027
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Osaka University
Elucidating the pathological mechanisms underlying dysregulation of RNA editing-induced autoimmune-mediated encephalopathy
- Principal Investigator
  
  河原行郎
- Project Period (FY)
  2023 – 2025
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 46010:Neuroscience-general-related
- Research Institution
  Osaka University
修飾塩基を含むRNAの二次構造解析技術の確立
- Principal Investigator
  
  佐藤健吾
- Project Period (FY)
  2022 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Tokyo Denki University
Establishing a comparative method for time-course single-cell data to elucidate cell kineticsPrincipal Investigator
- Principal Investigator
  
  加藤有己
- Project Period (FY)
  2021 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Osaka University
Investigation of bain-specific roles of ADAR1
- Principal Investigator
  
  Kawahara Yukio
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 46010:Neuroscience-general-related
- Research Institution
  Osaka University
Establishment of the mothod for RNA labelling in a neuron subtype-specific manner in vivo
- Principal Investigator
  
  Kawahara Yukio
- Project Period (FY)
  2019 – 2020
- Research Category
  
  Grant-in-Aid for Challenging Research (Exploratory)
- Review Section
  
  Medium-sized Section 51:Brain sciences and related fields
- Research Institution
  Osaka University
RNA secondary structure prediction using nanopore sequencers
- Principal Investigator
  
  Sato Kengo
- Project Period (FY)
  2019 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Tokyo Denki University
  Keio University
Establishing genome-wide analysis of RNA guanine quadruplexes conserved among speciesPrincipal Investigator
- Principal Investigator
  
  Kato Yuki
- Project Period (FY)
  2018 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Osaka University
Fast genome-wide detection of RNA genes using coarse-grained structural informationPrincipal Investigator
- Principal Investigator
  
  KATO Yuki
- Project Period (FY)
  2015 – 2017
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Life / Health / Medical informatics
- Research Institution
  Osaka University
  Kyoto University
Fast RNA-RNA interaction prediction considering higher order structurePrincipal Investigator
- Principal Investigator
  
  KATO Yuki
- Project Period (FY)
  2012 – 2014
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Bioinformatics/Life informatics
- Research Institution
  Kyoto University
  Nara Institute of Science and Technology
RNA-protein interaction prediction based on machine learning and optimization
- Principal Investigator
  
  SEKI Hiroyuki
- Project Period (FY)
  2011 – 2012
- Research Category
  
  Grant-in-Aid for Challenging Exploratory Research
- Research Field
  
  Bioinformatics/Life informatics
- Research Institution
  Nara Institute of Science and Technology
RNA-RNA interaction prediction using hybrid optimizationPrincipal Investigator
- Principal Investigator
  
  KATO Yuki
- Project Period (FY)
  2010 – 2011
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Bioinformatics/Life informatics
- Research Institution
  Nara Institute of Science and Technology
RNA-protein interaction prediction based on formal grammarsPrincipal Investigator
- Principal Investigator
  
  KATO Yuki
- Project Period (FY)
  2008 – 2009
- Research Category
  
  Grant-in-Aid for Young Scientists (Start-up)
- Research Field
  
  Bioinformatics/Life informatics
- Research Institution
  Kyoto University

[Book] ビッグデータの収集、調査、分析と活用事例第７章第２節ヒト細胞からのビッグデータの情報管理と情報解析技術2014
- Author(s)
  加藤有己, 桜井都衣, 藤渕航
- Total Pages
  345
- Publisher
  技術情報協会
- Data Source
  KAKENHI-PROJECT-24700296
[Book] 二次構造に基づくRNA配列解析ソフトウェアの進展2011
- Author(s)
  加藤有己
- Publisher
  実験医学増刊号
- Data Source
  KAKENHI-PROJECT-23650153
[Book] 実験医学増刊号、使えるデータベース・ウェブツール、第4章第8節「二次構造に基づくRNA配列解析ソフトウェアの進展」2011
- Author(s)
  加藤有己
- Publisher
  羊土社
- Data Source
  KAKENHI-PROJECT-22700313
[Book] 実験医学増刊号、使えるデータベース・ウェブツール、第４章第８節「二次構造に基づくRNA配列解析ソフトウェアの進展」2011
- Author(s)
  加藤有己
- Publisher
  羊土社
- Data Source
  KAKENHI-PROJECT-23650153
[Book] 二次構造に基づくRNA配列解析ソフトウェアの進展2011
- Author(s)
  加藤有己
- Publisher
  羊土社
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] A cancer-associated METTL14 mutation induces aberrant m6A modification, affecting tumor growth2023
- Author(s)
  Miyake Kotaro、Costa Cruz Pedro Henrique、Nagatomo Izumi、Kato Yuki、Motooka Daisuke、Satoh Shingo、Adachi Yuichi、Takeda Yoshito、Kawahara Yukio、Kumanogoh Atsushi
- Journal Title
  
  Cell Reports
  
  Volume: 42 Issue: 7 Pages: 112688-112688
- DOI
  10.1016/j.celrep.2023.112688
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-21K12109, KAKENHI-PROJECT-22K08283, KAKENHI-PROJECT-23K27267
[Journal Article] RNA editing of AZIN1 coding sites is catalyzed by ADAR1 p150 after splicing2023
- Author(s)
  Xing Yanfang、Nakahama Taisuke、Wu Yuke、Inoue Maal、Kim Jung In、Todo Hiroyuki、Shibuya Toshiharu、Kato Yuki、Kawahara Yukio
- Journal Title
  
  Journal of Biological Chemistry
  
  Volume: 299 Issue: 7 Pages: 104840-104840
- DOI
  10.1016/j.jbc.2023.104840
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-21K12109, KAKENHI-PROJECT-21K07080, KAKENHI-PROJECT-23K27267
[Journal Article] Alignment of single-cell trajectory trees with CAPITAL2022
- Author(s)
  Sugihara Reiichi、Kato Yuki、Mori Tomoya、Kawahara Yukio
- Journal Title
  
  Nature Communications
  
  Volume: 13 Issue: 1 Pages: 5972-5972
- DOI
  10.1038/s41467-022-33681-3
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-21K12109, KAKENHI-PROJECT-18K11526
[Journal Article] An Aicardi-Goutieres Syndrome-Causative Point Mutation in Adar1 Gene Invokes Multiorgan Inflammation and Late-Onset Encephalopathy in Mice2021
- Author(s)
  Inoue Maal、Nakahama Taisuke、Yamasaki Ryuichiro、Shibuya Toshiharu、Kim Jung In、Todo Hiroyuki、Xing Yanfang、Kato Yuki、Morii Eiichi、Kawahara Yukio
- Journal Title
  
  The Journal of Immunology
  
  Volume: 207 Issue: 12 Pages: 3016-3027
- DOI
  10.4049/jimmunol.2100526
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20H03341, KAKENHI-PROJECT-20J11266, KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-21K07080, KAKENHI-PROJECT-21K12109
[Journal Article] Mutations in the adenosine deaminase ADAR1 that prevent endogenous Z-RNA binding induce Aicardi-Goutieres-syndrome-like encephalopathy2021
- Author(s)
  Nakahama Taisuke、Kato Yuki、Shibuya Toshiharu、Inoue Maal、Kim Jung In、Vongpipatana Tuangtong、Todo Hiroyuki、Xing Yanfang、Kawahara Yukio
- Journal Title
  
  Immunity
  
  Volume: 54 Issue: 9 Pages: 1976-1988
- DOI
  10.1016/j.immuni.2021.08.022
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20H03341, KAKENHI-PROJECT-20J11266, KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-21K07080, KAKENHI-PROJECT-21K12109
[Journal Article] RNA editing at a limited number of sites is sufficient to prevent MDA5 activation in the mouse brain2021
- Author(s)
  Jung In Kim, Taisuke Nakahama, Ryuichiro Yamasaki, Pedro Henrique Costa Cruz, Tuangtong Vongpipatana, Maal Inoue, Nao Kanou, Yanfang Xing, Hiroyuki Todo, Toshiharu Shibuya, Yuki Kato, Yukio Kawahara
- Journal Title
  
  PLoS Genetics
  
  Volume: in press
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K22580
[Journal Article] RNA editing at a limited number of sites is sufficient to prevent MDA5 activation in the mouse brain2021
- Author(s)
  Jung In Kim, Taisuke Nakahama, Ryuichiro Yamasaki, Pedro Henrique Costa Cruz, Tuangtong Vongpipatana, Maal Inoue, Nao Kanou, Yanfang Xing, Hiroyuki Todo, Toshiharu Shibuya, Yuki Kato, Yukio Kawahara
- Journal Title
  
  PLoS Genetics
  
  Volume: in press
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20H03341
[Journal Article] Prediction of RNA secondary structure including pseudoknots for long sequences2021
- Author(s)
  Sato Kengo、Kato Yuki
- Journal Title
  
  Briefings in Bioinformatics
  
  Volume: 23 Issue: 1
- DOI
  10.1093/bib/bbab395
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K22897, KAKENHI-PLANNED-17H06410, KAKENHI-PROJECT-19H04210
[Journal Article] RNA editing at a limited number of sites is sufficient to prevent MDA5 activation in the mouse brain2021
- Author(s)
  Jung In Kim, Taisuke Nakahama, Ryuichiro Yamasaki, Pedro Henrique Costa Cruz, Tuangtong Vongpipatana, Maal Inoue, Nao Kanou, Yanfang Xing, Hiroyuki Todo, Toshiharu Shibuya, Yuki Kato and Yukio Kawahara
- Journal Title
  
  PLoS Genetics
  
  Volume: 17, Issue: 5 Pages: e1009516-e1009516
- DOI
  10.1371/journal.pgen.1009516
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-21K12109
[Journal Article] DDAH1 as a novel regulator of oligodendrocyte differentiation in the central nervous system remyelination2021
- Author(s)
  Akiko Uyeda, Quan Lili, Yuki Kato, Nagaaki Muramatsu, Shogo Tanabe, Kazuhisa Sakai, Noritaka Ichinohe, Yukio Kawahara, Tatsunori Suzuki and Rieko Muramatsu
- Journal Title
  
  GLIA
  
  Volume: 69 Issue: 11 Pages: 2591-2604
- DOI
  10.1002/glia.24060
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-20K07752, KAKENHI-PROJECT-21K12109
[Journal Article] Age-dependent decline in remyelination capacity is mediated by apelin-APJ signaling2021
- Author(s)
  Masumi Ito, Rieko Muramatsu, Yuki Kato, Bikram Sharma, Akiko Uyeda, Shogo Tanabe, Harutoshi Fujimura, Hiroyasu Kidoya, Nobuyuki Takakura, Yukio Kawahara, Masaki Takao, Hideki Mochizuki, Akiyoshi Fukamizu, Toshihide Yamashita
- Journal Title
  
  Nature Aging
  
  Volume: 1 Issue: 3 Pages: 284-294
- DOI
  10.1038/s43587-021-00041-7
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-17H06178, KAKENHI-PROJECT-17H01519, KAKENHI-PROJECT-19H03554, KAKENHI-PROJECT-21H05049
[Journal Article] A Comparative Analysis of ADAR Mutant Mice Reveals Site-Specific Regulation of RNA Editing2020
- Author(s)
  Pedro Henrique Costa Cruz, Yuki Kato, Taisuke Nakahama, Toshiharu Shibuya, Yukio Kawahara
- Journal Title
  
  RNA
  
  Volume: 26(4) Issue: 4 Pages: 454-469
- DOI
  10.1261/rna.072728.119
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19K22580, KAKENHI-PROJECT-18K15186, KAKENHI-PROJECT-18K11526
[Journal Article] Bivartect: accurate and memory-saving breakpoint detection by direct read comparison2020
- Author(s)
  Keisuke Shimmura, Yuki Kato and Yukio Kawahara
- Journal Title
  
  Bioinformatics
  
  Volume: 36 Issue: 9 Pages: 2725-2730
- DOI
  10.1093/bioinformatics/btaa059
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K11526
[Journal Article] ADAR1 Regulates Early T Cell Development via MDA5-Dependent and -Independent Pathways2020
- Author(s)
  Vongpipatana T, Nakahama T, Shibuya T, Kato Y, Kawahara Y
- Journal Title
  
  The Jorunal of Immunology
  
  Volume: 204(8) Issue: 8 Pages: 2156-2168
- DOI
  10.4049/jimmunol.1900929
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19K22580, KAKENHI-PROJECT-18K15186, KAKENHI-PROJECT-18J11733, KAKENHI-PROJECT-18K11526
[Journal Article] A comparative analysis among ADAR mutant mice reveals site-specific regulation of RNA editing2019
- Author(s)
  Pedro Henrique Costa Cruz, Yuki Kato, Taisuke Nakahama, Toshiharu Shibuya and Yukio Kawahara
- Journal Title
  
  bioRxiv
  
  Volume: 822916
- DOI
  10.1101/822916
- Open Access
- Data Source
  KAKENHI-PROJECT-18K11526
[Journal Article] Alignment of time-course single-cell RNA-seq data with CAPITAL2019
- Author(s)
  Reiichi Sugihara, Yuki Kato, Tomoya Mori and Yukio Kawahara
- Journal Title
  
  bioRxiv
  
  Volume: 859751 Pages: 1-11
- DOI
  10.1101/859751
- Open Access
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-19K20399
[Journal Article] Myotube-derived factor promotes oligodendrocyte precursor cell proliferation2018
- Author(s)
  Akino Nakasone, Rieko Muramatsu, Yuki Kato, Yukio Kawahara and Toshihide Yamashita
- Journal Title
  
  Biochemical and Biophysical Research Communications
  
  Volume: 500 Issue: 3 Pages: 609-613
- DOI
  10.1016/j.bbrc.2018.04.118
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-17H06178, KAKENHI-PROJECT-16H04672
[Journal Article] ADAR1-mediated RNA editing is required for thymic self-tolerance and prevention of autoimmunity2018
- Author(s)
  Taisuke Nakahama, Yuki Kato, Jung In Kim, Tuangtong Vongpipatana, Yutaka Suzuki, Carl Walkley and Yukio Kawahara
- Journal Title
  
  EMBO Reports
  
  Volume: 19 Issue: 12
- DOI
  10.15252/embr.201846303
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K11526, KAKENHI-PROJECT-18K15186, KAKENHI-PROJECT-16H05320, KAKENHI-PROJECT-18J11733, KAKENHI-PROJECT-17K19352, KAKENHI-PROJECT-16H06279
[Journal Article] An accessibility-incorporated method for accurate prediction of RNA-RNA interactions from sequence data2017
- Author(s)
  Y. Kato, T. Mori, K. Sato, S. Maegawa, H. Hosokawa, T. Akutsu
- Journal Title
  
  Bioinformatics
  
  Volume: 33 Issue: 2 Pages: 202-209
- DOI
  10.1093/bioinformatics/btw603
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-25330348, KAKENHI-PROJECT-15K00401
[Journal Article] Alignment-free comparative genomic screen for structured RNAs using coarse-grained secondary structure dot plots2017
- Author(s)
  Yuki Kato, Jan Gorodkin and Jakob Hull Havgaard
- Journal Title
  
  BMC Genomics
  
  Volume: 18 Issue: 1 Pages: 935-935
- DOI
  10.1186/s12864-017-4309-y
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Journal Article] Rtools: a web server for various secondary structural analyses on single RNA sequences2016
- Author(s)
  Hamada Michiaki, Ono Yukiteru, Kiryu Hisanori, Sato Kengo, Kato Yuki, Fukunaga Tsukasa, Mori Ryota, Asai Kiyosh
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 44 Issue: W1 Pages: W302-W307
- DOI
  10.1093/nar/gkw337
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-13J06668, KAKENHI-PROJECT-24680031, KAKENHI-PROJECT-25240044, KAKENHI-PROJECT-25330348, KAKENHI-PROJECT-25870190, KAKENHI-PROJECT-15K00401, KAKENHI-PROJECT-16H06279
[Journal Article] Using hidden Markov models to investigate G-quadruplex motifs in genomic sequences2014
- Author(s)
  Masato Yano and Yuki Kato
- Journal Title
  
  BMC Genomics
  
  Volume: 15 Issue: S9
- DOI
  10.1186/1471-2164-15-s9-s15
- NAID
  120005756257
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-24700296
[Journal Article] simultaneous aligning and folding of RNA sequences via dual decomposition2012
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Journal Title
  
  Bioinformatics
  
  Volume: 28 Pages: 3218-3224
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23650153
[Journal Article] fast and accurate tools for RNA 2D structure prediction using integer programming2012
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 40
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23650153
[Journal Article] Rtips : fast and accurate tools for RNA 2D structure prediction using integer programming2012
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai, Tatsuya Akutsu
- Journal Title
  
  Nucleic Acids Res
  
  Volume: 40 Issue: W1 Pages: W29-W34
- DOI
  10.1093/nar/gks412
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22240031, KAKENHI-PROJECT-23650153, KAKENHI-PROJECT-24700296
[Journal Article] DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition2012
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai, Yasubumi Sakakibara
- Journal Title
  
  Bioinformatics
  
  Volume: 28 Issue: 24 Pages: 3218-3224
- DOI
  10.1093/bioinformatics/bts612
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22240009, KAKENHI-PROJECT-22240031, KAKENHI-PROJECT-23241066, KAKENHI-PROJECT-23650153, KAKENHI-PROJECT-24700296, KAKENHI-PROJECT-221S0002
[Journal Article] Using binding profiles to predict RNA binding sites of target RNAs2011
- Author(s)
  U.Poolsap, Y.Kato, K.Sato, T.Akutsu
- Journal Title
  
  Tournal of Bioinformatics and Computational Biology
  
  Volume: 9 Issue: 06 Pages: 697-713
- DOI
  10.1142/s0219720011005628
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22240009, KAKENHI-PROJECT-22700305, KAKENHI-PROJECT-22700313, KAKENHI-PROJECT-23650153
[Journal Article] Using binding profiles to predict binding sites of target RNAs, Journal of Bioinformatics and Computational Biology2011
- Author(s)
  Unyanee Poolsap, Yuki Kato
- Journal Title
  
  Kengo Sato and Tatsuya Akutsu
  
  Volume: 9(6) Pages: 697-713
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23650153
[Journal Article] IPknot : fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Journal Title
  
  Bioinformatics
  
  Volume: vol.27, no.13
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] Using binding profiles to predict binding sites of target RNAs2011
- Author(s)
  Unyanee Poolsap, Yuki Kato, Kengo Sato and Tatsuya Akutsu
- Journal Title
  
  Journal of Bioinformatics and Computational Biology
  
  Volume: vol.9, issue6 Pages: 697-713
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Journal Title
  
  Bioinformatics
  
  Volume: 27(13)
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23650153
[Journal Article] IPknot : fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  K.Sato, Y.Kato, M.Hamada, T.Akutsu, K.Asai
- Journal Title
  
  Bioinformatics
  
  Volume: 27 Issue: 13 Pages: i85-i93
- DOI
  10.1093/bioinformatics/btr215
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22240009, KAKENHI-PROJECT-22240031, KAKENHI-PROJECT-22700305, KAKENHI-PROJECT-22700313, KAKENHI-PROJECT-23650153
[Journal Article] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato
- Journal Title
  
  Bioinformatics
  
  Volume: 26
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] Branch-and-bound algorithms for enumerating treelike chemical graphs with given path frequency using detachment-cut2010
- Author(s)
  Yusuke Ishida, Yuki Kato, Liang Zhao, Hiroshi Nagamochi and Tatsuya Akutsu
- Journal Title
  
  Journal of Chemical Information and Modeling
  
  Volume: vol.50, no.5 Pages: 934-946
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Journal Title
  
  Bioinformatics
  
  Volume: vol.26, no.18
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22700313
[Journal Article] Dynamic programming algorithms and grammatical modeling for protein beta-sheet prediction2009
- Author(s)
  Yuki Kato
- Journal Title
  
  Journal of Computational Biology
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20800023
[Journal Article] A grammatical approach to RNA-RNA interaction prediction2009
- Author(s)
  Yuki Kato
- Journal Title
  
  Pattern Recognition 42
  
  Pages: 531-538
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20800023
[Journal Article] Dynamic programming algorithms and grammatical modeling for protein beta-sheet prediction2009
- Author(s)
  Yuki Kato, Tatsuya Akutsu, Hiroyuki Seki
- Journal Title
  
  Journal of Computational Biology vol.16,no.7
  
  Pages: 945-957
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20800023
[Journal Article] Dynamic programming algorithms and grammatical modeling for protein beta-sheet prediction2009
- Author(s)
  Yuki Kato
- Journal Title
  
  Journal of Computational Biology 16
  
  Pages: 945-957
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20800023
[Journal Article] A grammatical approach to RNA-RNA interaction prediction2009
- Author(s)
  Yuki Kato, Tatsuya Akutsu, Hiroyuki Seki
- Journal Title
  
  Pattern Recognition vol.42,issue4
  
  Pages: 531-538
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20800023
[Journal Article] Prediction of RNA secondary structure with pseudoknots using integer programming2009
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Journal Title
  
  BMC Bioinformatics vol.10
  
  Pages: 1-1
- NAID
  110006595413
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] グラフ埋め込みと最適輸送を用いた空間的遺伝子発現情報のアラインメント2024
- Author(s)
  杉原礼一, 加藤有己, 河原行郎
- Organizer
  第77回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-21K12109
[Presentation] 1細胞RNA-seqデータを用いた細胞状態遷移経路アラインメント法の開発2022
- Author(s)
  杉原礼一, 加藤有己, 森智弥, 河原行郎
- Organizer
  RNA Frontier Meeting 2022
- Data Source
  KAKENHI-PROJECT-21K12109
[Presentation] 1細胞RNA-seqデータを用いた細胞状態遷移経路アラインメント法の開発2022
- Author(s)
  杉原礼一, 加藤有己, 森智弥, 河原行郎
- Organizer
  RNA Frontier Meeting 2022
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] シングルセルデータを用いた細胞動態解析アルゴリズムの開発2022
- Author(s)
  加藤有己
- Organizer
  NGS EXPO 2022
- Invited
- Data Source
  KAKENHI-PROJECT-21K12109
[Presentation] シングルセルデータを用いた細胞動態解析アルゴリズムの開発2022
- Author(s)
  加藤有己
- Organizer
  NGS EXPO 2022
- Invited
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] Prediction of RNA secondary structure including pseudoknots for long sequences2021
- Author(s)
  Kengo Sato and Yuki Kato
- Organizer
  第68回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] Deep learning-based prediction of potential RNA G-quadruplexes with D-Quartet2021
- Author(s)
  Yuki Kato, Kengo Sato, Jakob Hull Havgaard and Yukio Kawahara
- Organizer
  29th Conference on Intelligent Systems for Molecular Biology and the 20th European Conference on Computational Biology (ISMB/ECCB2021)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21K12109
[Presentation] Prediction of RNA secondary structure including pseudoknots for long sequences2021
- Author(s)
  Kengo Sato and Yuki Kato
- Organizer
  第68回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-21K12109
[Presentation] Deep learning-based prediction of potential RNA G-quadruplexes with D-Quartet2021
- Author(s)
  Yuki Kato, Kengo Sato, Jakob Hull Havgaard and Yukio Kawahara
- Organizer
  29th Conference on Intelligent Systems for Molecular Biology and the 20th European Conference on Computational Biology (ISMB/ECCB2021)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] 分岐を考慮した時系列シングルセルデータのアラインメント2020
- Author(s)
  杉原礼一, 加藤有己, 森智弥, 河原行郎
- Organizer
  第61回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] CAPITALによるシングルセルデータの疑似時系列比較解析2020
- Author(s)
  加藤有己, 杉原礼一, 森智弥, 河原行郎
- Organizer
  第43回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] Alignment of complex single-cell trajectories with CAPITAL2020
- Author(s)
  Yuki Kato, Reiichi Sugihara, Tomoya Mori and Yukio Kawahara
- Organizer
  28th Conference on Intelligent Systems for Molecular Biology (ISMB2020)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] 複雑な細胞運命比較のための時系列１細胞RNA-seqデータのアラインメント2019
- Author(s)
  加藤有己, 杉原礼一, 森智弥, 河原行郎
- Organizer
  第42回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] ADAR1 regulates early T cell development via MDA5-dependent and -independent pathways2019
- Author(s)
  Taisuke Nakahama, Tuangtong Vogpipatana, Toshiharu Shibuya, Yuki Kato and Yukio Kawahara
- Organizer
  第21回日本RNA学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] A comparative analysis among ADAR mutant mice reveals site-specific regulation of RNA editing2019
- Author(s)
  Pedro Henrique Costa Cruz, Yuki Kato, Taisuke Nakahama, Toshiharu Shibuya and Yukio Kawahara
- Organizer
  第21回日本RNA学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] 畳み込みニューラルネットワークによるRNAグアニン４重鎖領域予測2019
- Author(s)
  加藤有己, 佐藤健吾, Jakob Hull Havgaard, 河原行郎
- Organizer
  第21回日本RNA学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] 深層学習に基づくRNAグアニン４重鎖構造識別法の検討2018
- Author(s)
  加藤有己, 佐藤健吾, Jakob Hull Havgaard, 河原行郎
- Organizer
  第20回日本RNA学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] 配列リード直接比較による高精度省メモリゲノム構造変異解析2018
- Author(s)
  加藤有己, 新村啓介, 河原行郎
- Organizer
  第41回日本分子生物学会年会
- Data Source
  KAKENHI-PROJECT-18K11526
[Presentation] ビット列のソートに基づくリード直接比較による高速省メモリゲノム構造変異解析2018
- Author(s)
  新村啓介, 加藤有己, 河原行郎
- Organizer
  第53回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] スペクトラルグラフ理論を応用した１細胞RNA-seqデータのトップダウン型クラスタリング2018
- Author(s)
  蒲原純, 加藤有己, 河原行郎
- Organizer
  第53回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Fast and efficient alignment-free comparative genomic screen for structured RNAs with DotcodeR2017
- Author(s)
  Yuki Kato, Jan Gorodkin and Jakob Hull Havgaard
- Organizer
  The 25th Conference on Intelligent Systems for Molecular Biology and the 16th European Conference on Computational Biology (ISMB/ECCB2017)
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] A computational method for dissecting single-cell populations based on transcriptomic data2016
- Author(s)
  Yuki Kato and Wataru Fujibuchi
- Organizer
  CiRA/ISSCR 2016 International Symposium
- Place of Presentation
  京都大学百周年時計台記念館（京都市左京区）
- Year and Date
  2016-03-22
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Accurate prediction of RNA-RNA interactions from sequence data incorporating interaction site accessibility2016
- Author(s)
  Yuki Kato, Tomoya Mori, Kengo Sato, Shingo Maegawa, Hiroshi Hosokawa and Tatsuya Akutsu
- Organizer
  The 2016 joint annual meeting of the RNA Society and the RNA Society of Japan (RNA2016)
- Place of Presentation
  国立京都国際会館（京都市左京区）
- Year and Date
  2016-06-28
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Rtools: a web server for various secondary structural analyses on single RNA sequences2016
- Author(s)
  Michiaki Hamada, Yukiteru Ono, Hisanori Kiryu, Kengo Sato, Yuki Kato, Tsukasa Fukunaga, Ryota Mori and Kiyoshi Asai
- Organizer
  The 2016 joint annual meeting of the RNA Society and the RNA Society of Japan (RNA2016)
- Place of Presentation
  国立京都国際会館（京都市左京区）
- Year and Date
  2016-06-28
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] De novo prediction of structured RNAs from genomes using coarse-grained dot plots2015
- Author(s)
  Yuki Kato
- Organizer
  Computational Analysis of RNA Structure and Function
- Place of Presentation
  ベナスケ（スペイン）
- Year and Date
  2015-07-19
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Development of a pipeline for analysis of meta- and single-cell genomic sequences2015
- Author(s)
  Kenta Kobayashi, Midori Yuji, Yuki Kato, Takeaki Taniguchi, Toru Maruyama, Michihiro Ito, Susumu Goto, Haruko Takeyama and Wataru Fujibuchi
- Organizer
  生命医薬情報学連合大会2015年大会
- Place of Presentation
  京都大学おうばくプラザ（京都府宇治市）
- Year and Date
  2015-10-29
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Genomic screen for structured RNAs using coarse-grained dot plots2015
- Author(s)
  Yuki Kato, Jakob Hull Havgaard and Jan Gorodkin
- Organizer
  生命医薬情報学連合大会2015年大会
- Place of Presentation
  京都大学おうばくプラザ（京都府宇治市）
- Year and Date
  2015-10-29
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] SHOGoiN cell database: a framework for a new repository on single cell assay data and diverse knowledge of human cells2015
- Author(s)
  Kunie Sakurai, Junko Yamane, Kenta Kobayashi, Koji Yamanegi, Takeaki Taniguchi, Yuki Kato and Wataru Fujibuchi
- Organizer
  The 18th Takeda Science Foundation Symposium on Bioscience
- Place of Presentation
  大阪府吹田市　武田薬品研修所
- Year and Date
  2015-01-15
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Genomic screen for structured RNAs using coarse-grained dot plots2015
- Author(s)
  Yuki Kato, Jakob Hull Havgaard and Jan Gorodkin
- Organizer
  The First Joint Conference between GIW and InCoB (GIW/InCoB2015)
- Place of Presentation
  未来館（東京都江東区）
- Year and Date
  2015-09-09
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-15K00401
[Presentation] Stem Cell Informatics Database: 多様なヒト細胞情報の統合化を目指したデータベースの構築2014
- Author(s)
  桜井都衣, 山根順子, 小林健太, 山根木康嗣, 谷口丈晃, 加藤有己, 藤渕航
- Organizer
  第39回情報処理学会バイオ情報学研究会
- Place of Presentation
  大阪府吹田市　大阪大学
- Year and Date
  2014-09-19
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Rtips: fast and accurate tools for RNA 2D structure prediction using integer programming2013
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  第15回日本RNA学会年会
- Place of Presentation
  愛媛県松山市ひめぎんホール
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] simultaneous aligning and folding of RNA sequences via dual decomposition, International Symposium on Genome Science2013
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Organizer
  Expanding Frontiers of Genome Science
- Place of Presentation
  東京都文京区
- Year and Date
  2013-01-09
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Evaluating effectiveness of accessibility to infer RNA-RNA interactions2013
- Author(s)
  Yuki Kato, Tomoya Mori, Kengo Sato, Shingo Maegawa, Hiroshi Hosokawa and Tatsuya Akutsu
- Organizer
  第15回日本RNA学会年会
- Place of Presentation
  愛媛県松山市ひめぎんホール
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Evaluating effectiveness of accessibility to infer RNA-RNA interactions2013
- Author(s)
  Yuki Kato, Tomoya Mori, Kengo Sato, Shingo Maegawa, Hiroshi Hosokawa and Tatsuya Akutsu
- Organizer
  日本バイオインフォマティクス学会2013年年会
- Place of Presentation
  東京都江戸川区タワーホール船堀
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Modeling DNA G-quadruplexes by hidden Markov models2013
- Author(s)
  Masato Yano and Yuki Kato
- Organizer
  日本バイオインフォマティクス学会2013年年会
- Place of Presentation
  東京都江戸川区タワーホール船堀
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] RNA間相互作用推定におけるアクセシビリティの有効性について2013
- Author(s)
  加藤有己
- Organizer
  RNAアルゴリズム研究会2013
- Place of Presentation
  東京都江東区生命情報工学研究センター
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Fast RNA structural comparison using coarse-grained base-pairing probabilities2013
- Author(s)
  Yuki Kato, Jakob Hull Havgaard and Jan Gorodkin
- Organizer
  The 24th International Conference on Genome Informatics (GIW2013)
- Place of Presentation
  シンガポールシンガポール大学
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Evaluating effectiveness of accessibility to infer RNA-RNA interactions2013
- Author(s)
  Yuki Kato, Tomoya Mori, Kengo Sato, Shingo Maegawa, Hiroshi Hosokawa and Tatsuya Akutsu
- Organizer
  第35回情報処理学会バイオ情報学研究会
- Place of Presentation
  北海道札幌市北海道大学
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] RNA structural alignment using dual decomposition2012
- Author(s)
  Yuki Kato
- Organizer
  Herbstseminar der Bioinformatik (2012)
- Place of Presentation
  チェコドウビツェ
- Year and Date
  2012-10-04
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Fast and accurate prediction of RNA pseudoknotted structures using Yuki Kato integer programming2012
- Author(s)
  Yuki Kato
- Organizer
  nternational Workshop on RNA (Benasque2012)
- Place of Presentation
  スペインベナスケ
- Year and Date
  2012-07-27
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] 双対分解によるRNA構造アラインメント2012
- Author(s)
  佐藤健吾,加藤有己, 阿久津達也, 浅井潔, 榊原康文
- Organizer
  第28回情報処理学会バイオ情報学研究会
- Place of Presentation
  仙台市
- Year and Date
  2012-03-28
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Fast and accurate prediction of RNA-RNA interactions using integer programming2012
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on RNA (Benasque2012)
- Place of Presentation
  スペインベナスケ
- Year and Date
  2012-07-27
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] 双対分解によるRNA構造アラインメント2012
- Author(s)
  佐藤健吾, 加藤有己, 阿久津達也, 浅井潔, 榊原康文
- Organizer
  第28回情報処理学会バイオ情報学研究会
- Place of Presentation
  宮城県仙台市
- Year and Date
  2012-03-28
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  CBI/JSBi2011 合同大会
- Place of Presentation
  神戸市
- Year and Date
  2011-11-08
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming2011
- Author(s)
  Yuki Kato
- Organizer
  Sixteenth Annual Meeting of the RNA Society (RNA2011)
- Place of Presentation
  京都府京都市
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  Sixteenth Annual Meeting of the RNA Society(RNA2011)
- Place of Presentation
  京都府京都市
- Year and Date
  2011-06-15
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] 複雑なRNA２次構造予測のための高速計算ソフトウェアの開発と今後の展開2011
- Author(s)
  加藤有己
- Organizer
  次世代バイオインフォマティクス研究会(招待講演)
- Place of Presentation
  北海道札幌市
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] 複雑なRNA2次構造予測のための高速計算ソフトウェアの開発と今後の展開2011
- Author(s)
  加藤有己
- Organizer
  次世代バイオインフォマティクス研究会
- Place of Presentation
  北海道札幌市
- Year and Date
  2011-08-02
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology (ISMB/ECCB2011)
- Place of Presentation
  オーストリアウィーン
- Year and Date
  2011-07-17
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] IPknot : fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  Society(RNA2011)
- Place of Presentation
  京都府京都市
- Year and Date
  2011-06-17
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Rtips: fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato
- Organizer
  ICR Symposium to Celebrate the Bioinformatics Center's 10 Year Anniversary and New Restructuring
- Place of Presentation
  京都府宇治市
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  第34回日本分子生物学会年会
- Place of Presentation
  横浜市
- Year and Date
  2011-12-14
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2011
- Author(s)
  Yuki Kato
- Organizer
  Sixteenth Annual Meeting of the RNA Society (RNA2011)
- Place of Presentation
  京都府京都市
- Year and Date
  2011-06-15
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Simultaneous aligning and folding of RNA sequences by dual decomposition2011
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Organizer
  CBI/JSBi2011合同大会
- Place of Presentation
  神戸市
- Year and Date
  2011-11-08
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  ICR Symposium to Celebrate the Bioinformatics Center's 10 Year Anniversary and New Restructuring
- Place of Presentation
  京都府宇治市
- Year and Date
  2011-08-29
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] A grammar-based approach to RNA pseudoknotted structure prediction for aligned sequences2011
- Author(s)
  Nobuyoshi Mizoguchi, Yuki Kato and Hiroyuki Seki
- Organizer
  1st IEEE International Conference on Computational Advances in Bio and medical Sciences(ICCABS2011)
- Place of Presentation
  アメリカ合衆国オーランド
- Year and Date
  2011-02-03
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Rtips : fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  第34回日本分子生物学会年会
- Place of Presentation
  神奈川県横浜市
- Year and Date
  2011-12-14
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Rtips : fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  ICR Symposium to Celebrate the Bioinformatics Center's 10 Year Anniversary and New Restructuring
- Place of Presentation
  京都府宇治市
- Year and Date
  2011-08-29
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] 複雑なRNA2次構造予測のための高速計算ソフトウェアの開発と今後の展開2011
- Author(s)
  加藤有己
- Organizer
  次世代バイオインフォマティクス研究会
- Place of Presentation
  北海道札幌市(招待講演)
- Year and Date
  2011-08-02
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] 複雑なRNA2次構造予測のための高速計算ソフトウェアの開発と今後の展開2011
- Author(s)
  加藤有己
- Organizer
  次世代バイオインフォマティクス研究会
- Place of Presentation
  札幌市(招待講演)
- Year and Date
  2011-08-02
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  Sixteenth Annual Meeting of the RNA Society (RNA2011)
- Place of Presentation
  京都市
- Year and Date
  2011-06-17
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] IPknot : fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2011
- Author(s)
  Kengo Sato, Yuki Kato, Michiaki Hamada, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology(ISMB/ECCB2011)
- Place of Presentation
  オーストリアウィーン
- Year and Date
  2011-07-17
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Rtips: fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato
- Organizer
  CBI/JSBi2011合同大会
- Place of Presentation
  兵庫県神戸市
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Simultaneous aligning and folding of RNA sequences by dual decomposition2011
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Organizer
  CBI/JSBi2011合同大会
- Place of Presentation
  兵庫県神戸市
- Year and Date
  2011-11-10
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] fast and accurate prediction of RNA-RNA interaction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  Sixteenth Annual Meeting of the RNA Society (RNA2011)
- Place of Presentation
  京都市
- Year and Date
  2011-06-15
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Rtips : fast and accurate tools for RNA 2D structure prediction using integer programming2011
- Author(s)
  Yuki Kato, Kengo Sato, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  CBI/JSBi2011合同大会
- Place of Presentation
  兵庫県神戸市
- Year and Date
  2011-11-08
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] 期待精度最大化に基づくRNAシュードノット予測2010
- Author(s)
  佐藤健吾, 加藤有己, 阿久津達也, 浅井潔
- Organizer
  第22回情報処理学会バイオ情報学研究会
- Place of Presentation
  東京都江東区
- Year and Date
  2010-07-29
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  18th Annual International Conference on Intelligent Systems for Molecular Biology(ISMB2010)
- Place of Presentation
  アメリカ合衆国ボストン
- Year and Date
  2010-07-11
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato
- Organizer
  9th European Conference on Computational Biology (ECCB2010)
- Place of Presentation
  ベルギー(ゲント)
- Year and Date
  2010-09-27
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Dynamic programming algorithms for RNA structure prediction with binding sites2010
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  The Fifteenth Pacific Symposium on Biocomputing (PSB2010)
- Place of Presentation
  ハワイ
- Year and Date
  2010-01-07
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] RNA-RNA interaction prediction using integer programming with threshold cut2010
- Author(s)
  Yuki Kato
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  沖縄(琉球大学)
- Year and Date
  2010-06-19
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  Computational Biology Research Center Workshop 2010(CBRC2010)
- Place of Presentation
  東京都江東区
- Year and Date
  2010-07-29
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato
- Organizer
  18th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB2010)
- Place of Presentation
  アメリカ(ボストン)
- Year and Date
  2010-07-11
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  第21回情報処理学会バイオ情報学研究会
- Place of Presentation
  沖縄県中頭郡西原町
- Year and Date
  2010-06-19
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] IPknot : fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming2010
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu and Kiyoshi Asai
- Organizer
  9th European Conference on Computational Biology(ECCB2010)
- Place of Presentation
  ベルギーゲント
- Year and Date
  2010-09-27
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato
- Organizer
  Computational Biology Research Center Workshop 2010 (CBRC2010)
- Place of Presentation
  東京(港区)
- Year and Date
  2010-07-29
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] RactIP : fast and accurate prediction of RNA-RNA interaction using integer programming2010
- Author(s)
  Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai and Tatsuya Akutsu
- Organizer
  9th European Conference on Computational Biology(ECCB2010)
- Place of Presentation
  ベルギーゲント
- Year and Date
  2010-09-27
- Data Source
  KAKENHI-PROJECT-22700313
[Presentation] Pairwise RNA pseudoknotted structure prediction based on stochastic grammar2009
- Author(s)
  Nobuyoshi Mizoguchi, Yuki Kato, Hiroyuki Seki
- Organizer
  The 20th International Conference on Genome Informatics (GIW2009)
- Place of Presentation
  神奈川
- Year and Date
  2009-12-15
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] ペア確率多重文脈自由文法によるシュードノットつきRNA2次構造予測2009
- Author(s)
  田中翔, 加藤有己, 関浩之
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  東京
- Year and Date
  2009-03-06
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of interacting RNA secondary structures including binding sites2009
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on Computational methods for RNA analysis
- Place of Presentation
  スペイン
- Year and Date
  2009-08-05
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Dynamic programming algorithms for RNA structure prediction with binding sites2009
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  The 20th International Conference on Genome Informatics (GIW2009)
- Place of Presentation
  神奈川
- Year and Date
  2009-12-14
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of RNA secondary structure with pseudoknots using integer programming2009
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  The Seventh Asia Pacific Bioinformatics Conference (APBC2009)
- Place of Presentation
  中国
- Year and Date
  2009-01-16
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] RNA pseudoknot prediction based on integer programming2009
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on Computational methods for RNA analysis
- Place of Presentation
  スペイン
- Year and Date
  2009-07-29
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of RNA secondary structures with binding sites using dynamic programming algorithm2009
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  沖縄
- Year and Date
  2009-05-26
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of protein beta-sheets: dynamic programming versus grammatical approach2008
- Author(s)
  Yuki Kato, Tatsuya Akutsu, Hiroyuki Seki
- Organizer
  Third IAPR Conference on Pattern Recognition in Bioinformatics (PRIB2008)
- Place of Presentation
  オーストラリア
- Year and Date
  2008-10-15
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of protein beta-sheets : dynamic programming versus grammatical approach2008
- Author(s)
  Yuki Kato
- Organizer
  Third IAPR International Conference on Pattern Recognition in Bioinformatics (PRIB2008)
- Place of Presentation
  オーストラリア
- Year and Date
  2008-10-15
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of protein beta-sheets: dynamic programming versus grammatical approach2008
- Author(s)
  Yuki Kato, Tatsuya Akutsu, Hiroyuki Seki
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  沖縄
- Year and Date
  2008-06-27
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Dynamic programming versus grammatical approach for protein beta-sheet prediction2008
- Author(s)
  Yuki Kato, Tatsuya Akutsu, Hiroyuki Seki
- Organizer
  The 2008 Annual Conference of the Japanese Society for Bioinformatics (JSBi2008)
- Place of Presentation
  大阪
- Year and Date
  2008-12-15
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of protein beta-sheets : dynamic programming versus grammatical approach2008
- Author(s)
  Yuki Kato
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  沖縄
- Year and Date
  2008-06-27
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Prediction of RNA secondary structure with pseudoknots using integer programming2008
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  The 8th International Workshop on Bioinformatics and Systems Biology (IBSB2008)
- Place of Presentation
  ドイツ
- Year and Date
  2008-06-09
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] An integer programming-based method of predicting RNA secondary structure with pseudoknots and its relation to simple linear tree adjoining grammar2008
- Author(s)
  Unyanee Poolsap, Yuki Kato, Tatsuya Akutsu
- Organizer
  The 1st Thailand-Japan International Academic Conference 2008 (TJIA2008)
- Place of Presentation
  東京
- Year and Date
  2008-11-21
- Data Source
  KAKENHI-PROJECT-20800023
[Presentation] Fast and accurate prediction of RNA-RNA interactions using integer programming
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on RNA (Benasque2012)
- Place of Presentation
  スペイン　ベナスケ
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] RNA structural alignment using dual decomposition
- Author(s)
  Yuki Kato
- Organizer
  Herbstseminar der Bioinformatik (2012)
- Place of Presentation
  チェコ　ドウビツェ
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Using coarse-grained dot plots to screen for structurally similar RNAs in genomic sequences
- Author(s)
  Yuki Kato, Jakob Hull Havgaard and Jan Gorodkin
- Organizer
  The Thirteenth Asia Pacific Bioinformatics Conference (APBC2015)
- Place of Presentation
  台湾　新竹
- Year and Date
  2015-01-21 – 2015-01-23
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Fast RNA structural comparison using coarse-grained base-pairing probabilities
- Author(s)
  Yuki Kato, Jakob Hull Havgaard and Jan Gorodkin
- Organizer
  第16回日本RNA学会年会
- Place of Presentation
  愛知県名古屋市　ウィンクあいち
- Year and Date
  2014-07-23 – 2014-07-25
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Stem Cell Informatics Database: a framework for a new repository on single cell assay data and diverse knowledge of human cells
- Author(s)
  Kunie Sakurai, Junko Yamane, Kenta Kobayashi, Koji Yamanegi, Takeaki Taniguchi, Yuki Kato and Wataru Fujibuchi
- Organizer
  The 25th International Conference on Genome Informatics (GIW/ISCB-Asia 2014)
- Place of Presentation
  東京都江東区　東京国際交流館プラザ平成
- Year and Date
  2014-12-15 – 2014-12-17
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Fast and accurate prediction of RNA-RNA interactions using integer programming
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on RNA (Benasque2012)
- Place of Presentation
  スペイン　ベナスケ
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Fast and accurate prediction of RNA pseudoknotted structures using integer programming
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on RNA (Benasque2012)
- Place of Presentation
  スペイン　ベナスケ
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] RNA structural alignment using dual decomposition
- Author(s)
  Yuki Kato
- Organizer
  Herbstseminar der Bioinformatik (2012)
- Place of Presentation
  チェコ　ドウビツェ
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Organizer
  International Symposium on Genome Science "Expanding Frontiers of Genome Science"
- Place of Presentation
  東京都文京区
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] ゲノムワイドRNA配列比較に向けて
- Author(s)
  加藤有己
- Organizer
  2014年度RNAインフォマティクス道場
- Place of Presentation
  北海道札幌市　産業技術総合研究所北海道センター
- Year and Date
  2014-08-26 – 2014-08-28
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition
- Author(s)
  Kengo Sato, Yuki Kato, Tatsuya Akutsu, Kiyoshi Asai and Yasubumi Sakakibara
- Organizer
  International Symposium on Genome Science "Expanding Frontiers of Genome Science"
- Place of Presentation
  東京都文京区
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Fast and accurate prediction of RNA pseudoknotted structures using integer programming
- Author(s)
  Yuki Kato
- Organizer
  International Workshop on RNA (Benasque2012)
- Place of Presentation
  スペイン　ベナスケ
- Data Source
  KAKENHI-PROJECT-23650153
[Presentation] Development of a pipeline for analysis of meta- and single cell genomic sequences
- Author(s)
  Takeaki Taniguchi, Yuki Kato, Susumu Goto and Wataru Fujibuchi
- Organizer
  The 25th International Conference on Genome Informatics (GIW/ISCB-Asia 2014)
- Place of Presentation
  東京都江東区　東京国際交流館プラザ平成
- Year and Date
  2014-12-15 – 2014-12-17
- Data Source
  KAKENHI-PROJECT-24700296
[Presentation] Using hidden Markov models to investigate G-quadruplex motifs in genomic sequences
- Author(s)
  Masato Yano and Yuki Kato
- Organizer
  13th International Conference on Bioinformatics (InCoB2014)
- Place of Presentation
  オーストラリア　シドニー
- Year and Date
  2014-07-31 – 2014-08-02
- Data Source
  KAKENHI-PROJECT-24700296

1. Kawahara Yukio (80542563)

# of Collaborated Projects: 5 results

# of Collaborated Products: 6 results
2. Sato Kengo (20365472)

# of Collaborated Projects: 2 results

# of Collaborated Products: 2 results
3. SEKI Hiroyuki (80196948)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
4. 村松里衣子 (90536880)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
5. HOSOKAWA Hiroshi

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
6. MAEGAWA Shingo

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
7. ASAI Kiyoshi

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
8. 阿久津達也

# of Collaborated Projects: 0 results

# of Collaborated Products: 4 results

Kato Yuki 加藤 有己

KATO Yuki 加藤 有己

Research Projects

Research Products

Co-Researchers

Establishing a spatiotemporal alignment method for cell populationsPrincipal Investigator

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Elucidating the pathological mechanisms underlying dysregulation of RNA editing-induced autoimmune-mediated encephalopathy

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修飾塩基を含むRNAの二次構造解析技術の確立

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Establishing a comparative method for time-course single-cell data to elucidate cell kineticsPrincipal Investigator

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Investigation of bain-specific roles of ADAR1

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Establishment of the mothod for RNA labelling in a neuron subtype-specific manner in vivo

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RNA secondary structure prediction using nanopore sequencers

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Establishing genome-wide analysis of RNA guanine quadruplexes conserved among speciesPrincipal Investigator

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Fast genome-wide detection of RNA genes using coarse-grained structural informationPrincipal Investigator

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Fast RNA-RNA interaction prediction considering higher order structurePrincipal Investigator

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RNA-protein interaction prediction based on machine learning and optimization

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RNA-RNA interaction prediction using hybrid optimizationPrincipal Investigator

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RNA-protein interaction prediction based on formal grammarsPrincipal Investigator

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Project Period (FY)

Kato Yuki 加藤有己

KATO Yuki 加藤有己

[Book] ビッグデータの収集、調査、分析と活用事例第７章第２節ヒト細胞からのビッグデータの情報管理と情報解析技術2014