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ORCIDMorihiro Hayashida
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2020 – today
- 2023
[j36]Hitoshi Koyano
, Morihiro Hayashida:
Volume formula and growth rates of the balls of strings under the edit distances. Appl. Math. Comput. 458: 128202 (2023)- 2021
- [j35]Fuyi Li, Jinxiang Chen, Zongyuan Ge, Ya Wen, Yanwei Yue, Morihiro Hayashida, Abdelkader Baggag, Halima Bensmail, Jiangning Song:
Computational prediction and interpretation of both general and specific types of promoters in Escherichia coli by exploiting a stacked ensemble-learning framework. Briefings Bioinform. 22(2): 2126-2140 (2021) - 2020
- [c19]Morihiro Hayashida, Hitoshi Koyano, Jose C. Nacher:
Measuring the Similarity of Proteomes using Grammar-based Compression via Domain Combinations. BIOINFORMATICS 2020: 117-122 - [c18]Ryosuke Terado, Morihiro Hayashida:
Improving Accuracy and Speed of Network-based Intrusion Detection using Gradient Boosting Trees. ICISSP 2020: 490-497
2010 – 2019
- 2019
- [j34]Jiawei Wang, Bingjiao Yang, Yi An, Tatiana T. Marquez-Lago, André Leier, Jonathan Wilksch, Qingyang Hong, Yang Zhang, Morihiro Hayashida, Tatsuya Akutsu, Geoffrey I. Webb, Richard A. Strugnell, Jiangning Song, Trevor Lithgow:
Systematic analysis and prediction of type IV secreted effector proteins by machine learning approaches. Briefings Bioinform. 20(3): 931-951 (2019) - [j33]Jiawei Wang, Jiahui Li, Bingjiao Yang, Ruopeng Xie, Tatiana T. Marquez-Lago, André Leier, Morihiro Hayashida, Tatsuya Akutsu, Yanju Zhang, Kuo-Chen Chou, Joel Selkrig, Tieli Zhou, Jiangning Song, Trevor Lithgow:
Bastion3: a two-layer ensemble predictor of type III secreted effectors. Bioinform. 35(12): 2017-2028 (2019) - [j32]Teppei Matsubara, Tomoshiro Ochiai, Morihiro Hayashida, Tatsuya Akutsu, Jose C. Nacher:
Convolutional neural network approach to lung cancer classification integrating protein interaction network and gene expression profiles. J. Bioinform. Comput. Biol. 17(3): 1940007:1-1940007:11 (2019) - [j31]Hitoshi Koyano, Morihiro Hayashida, Tatsuya Akutsu:
Optimal string clustering based on a Laplace-like mixture and EM algorithm on a set of strings. J. Comput. Syst. Sci. 106: 94-128 (2019) - [c17]Morihiro Hayashida, Jose C. Nacher, Hitoshi Koyano:
Artificial Neural Network Approach to Prediction of Protein-RNA Residue-base Contacts. BIOINFORMATICS 2019: 163-167 - 2018
- [j30]Jiawei Wang, Bingjiao Yang, André Leier, Tatiana T. Marquez-Lago, Morihiro Hayashida, Andrea Rocker, Yanju Zhang, Tatsuya Akutsu, Kuo-Chen Chou, Richard A. Strugnell, Jiangning Song, Trevor Lithgow:
Bastion6: a bioinformatics approach for accurate prediction of type VI secreted effectors. Bioinform. 34(15): 2546-2555 (2018) - [j29]Peiying Ruan, Morihiro Hayashida, Tatsuya Akutsu, Jean-Philippe Vert:
Improving prediction of heterodimeric protein complexes using combination with pairwise kernel. BMC Bioinform. 19-S(1): 73-84 (2018) - [j28]Takuya Mori, Hayliang Ngouv, Morihiro Hayashida, Tatsuya Akutsu, Jose C. Nacher:
ncRNA-disease association prediction based on sequence information and tripartite network. BMC Syst. Biol. 12(1): 41-51 (2018) - [j27]Yu Bao, Morihiro Hayashida, Pengyu Liu, Masayuki Ishitsuka, Jose C. Nacher, Tatsuya Akutsu:
Analysis of Critical and Redundant Vertices in Controlling Directed Complex Networks Using Feedback Vertex Sets. J. Comput. Biol. 25(10): 1071-1090 (2018) - [j26]Morihiro Hayashida, Noriyuki Okada, Mayumi Kamada, Hitoshi Koyano:
Improving conditional random field model for prediction of protein-RNA residue-base contacts. Quant. Biol. 6(2): 155-162 (2018) - [c16]Teppei Matsubara, Tomoshiro Ochiai, Morihiro Hayashida, Tatsuya Akutsu, Jose C. Nacher:
Convolutional Neural Network Approach to Lung Cancer Classification Integrating Protein Interaction Network and Gene Expression Profiles. BIBE 2018: 151-154 - [c15]Morihiro Hayashida, Hitoshi Koyano, Tatsuya Akutsu:
Grammar-based Compression for Directed and Undirected Generalized Series-parallel Graphs using Integer Linear Programming. BIOINFORMATICS 2018: 105-111 - 2016
- [j25]Chen Li, Catherine Ching Han Chang, Jeremy Nagel, Benjamin T. Porebski, Morihiro Hayashida, Tatsuya Akutsu, Jiangning Song, Ashley M. Buckle:
Critical evaluation of in silico methods for prediction of coiled-coil domains in proteins. Briefings Bioinform. 17(2): 270-282 (2016) - [j24]Jira Jindalertudomdee, Morihiro Hayashida, Yang Zhao, Tatsuya Akutsu:
Enumeration method for tree-like chemical compounds with benzene rings and naphthalene rings by breadth-first search order. BMC Bioinform. 17: 113 (2016) - [j23]Yu Bao, Morihiro Hayashida, Tatsuya Akutsu:
LBSizeCleav: improved support vector machine (SVM)-based prediction of Dicer cleavage sites using loop/bulge length. BMC Bioinform. 17: 487:1-487:11 (2016) - [j22]Jira Jindalertudomdee, Morihiro Hayashida, Tatsuya Akutsu:
Enumeration Method for Structural Isomers Containing User-Defined Structures Based on Breadth-First Search Approach. J. Comput. Biol. 23(8): 625-640 (2016) - [c14]Jira Jindalertudomdee, Morihiro Hayashida, Jiangning Song, Tatsuya Akutsu:
Host-Pathogen Protein Interaction Prediction Based on Local Topology Structures of a Protein Interaction Network. BIBE 2016: 7-12 - [c13]Morihiro Hayashida, Hitoshi Koyano:
Integer Linear Programming Approach to Median and Center Strings for a Probability Distribution on a Set of Strings. BIOINFORMATICS 2016: 35-41 - [c12]Morihiro Hayashida, Hitoshi Koyano:
Finding Median and Center Strings for a Probability Distribution on a Set of Strings Under Levenshtein Distance Based on Integer Linear Programming. BIOSTEC (Selected Papers) 2016: 108-121 - 2015
- [j21]Yang Zhao, Morihiro Hayashida, Yue Cao, Jaewook Hwang, Tatsuya Akutsu:
Grammar-based compression approach to extraction of common rules among multiple trees of glycans and RNAs. BMC Bioinform. 16: 128:1-128:13 (2015) - 2014
- [j20]Peiying Ruan, Morihiro Hayashida, Osamu Maruyama, Tatsuya Akutsu:
Prediction of heterotrimeric protein complexes by two-phase learning using neighboring kernels. BMC Bioinform. 15(S-2): S6 (2014) - [j19]Morihiro Hayashida, Tatsuya Akutsu:
Domain-Based Approaches to Prediction and Analysis of Protein-Protein Interactions. Int. J. Knowl. Discov. Bioinform. 4(1): 24-41 (2014) - 2013
- [j18]Morihiro Hayashida, Mayumi Kamada, Jiangning Song, Tatsuya Akutsu:
Prediction of protein-RNA residue-base contacts using two-dimensional conditional random field with the lasso. BMC Syst. Biol. 7(S-2): S15 (2013) - [j17]Yang Zhao, Morihiro Hayashida, Jira Jindalertudomdee, Hiroshi Nagamochi, Tatsuya Akutsu:
Breadth-First Search Approach to Enumeration of Tree-like Chemical Compounds. J. Bioinform. Comput. Biol. 11(6) (2013) - 2012
- [j16]Morihiro Hayashida, Peiying Ruan, Tatsuya Akutsu:
A quadsection algorithm for grammar-based image compression. Integr. Comput. Aided Eng. 19(1): 23-38 (2012) - [j15]Tatsuya Akutsu, Yang Zhao, Morihiro Hayashida, Takeyuki Tamura:
Integer Programming-Based Approach to Attractor Detection and Control of Boolean Networks. IEICE Trans. Inf. Syst. 95-D(12): 2960-2970 (2012) - [j14]Yang Zhao, Morihiro Hayashida, Jose C. Nacher, Hiroshi Nagamochi, Tatsuya Akutsu:
Protein complex prediction via improved verification methods using constrained domain-domain matching. Int. J. Bioinform. Res. Appl. 8(3/4): 210-227 (2012) - [c11]Morihiro Hayashida, Mayumi Kamada, Jiangning Song, Tatsuya Akutsu:
Predicting protein-RNA residue-base contacts using two-dimensional conditional random field. ISB 2012: 152-157 - [c10]Tatsuya Akutsu, Morihiro Hayashida, Takeyuki Tamura:
Finding Conserved Regions in Protein Structures Using Support Vector Machines and Structure Alignment. PRIB 2012: 233-242 - 2011
- [j13]Morihiro Hayashida, Mayumi Kamada, Jiangning Song, Tatsuya Akutsu:
Conditional random field approach to prediction of protein-protein interactions using domain information. BMC Syst. Biol. 5(S-1): S8 (2011) - [j12]Morihiro Hayashida, Tatsuya Akutsu:
Measuring the Similarity of Protein Structures Using Image Compression Algorithms. IEICE Trans. Inf. Syst. 94-D(12): 2468-2478 (2011) - 2010
- [j11]Jose C. Nacher, Morihiro Hayashida, Tatsuya Akutsu:
The role of internal duplication in the evolution of multi-domain proteins. Biosyst. 101(2): 127-135 (2010) - [j10]Yang Zhao, Morihiro Hayashida, Tatsuya Akutsu:
Integer programming-based method for grammar-based tree compression and its application to pattern extraction of glycan tree structures. BMC Bioinform. 11(S-11): S4 (2010) - [j9]Morihiro Hayashida, Tatsuya Akutsu:
Comparing biological networks via graph compression. BMC Syst. Biol. 4(S-2): S13 (2010) - [c9]Morihiro Hayashida, Peiying Ruan, Tatsuya Akutsu:
A Quadsection Algorithm for Grammar-Based Image Compression. FGIT 2010: 234-248
2000 – 2009
- 2009
- [j8]Jose C. Nacher, Morihiro Hayashida, Tatsuya Akutsu:
Emergence of scale-free distribution in protein-protein interaction networks based on random selection of interacting domain pairs. Biosyst. 95(2): 155-159 (2009) - [j7]Tatsuya Akutsu, Morihiro Hayashida, Shuqin Zhang, Wai-Ki Ching, Michael K. Ng:
Analyses and Algorithms for Predecessor and Control Problems for Boolean Networks of Bounded Indegree. Inf. Media Technol. 4(2): 338-349 (2009) - [c8]Tatsuya Akutsu, Morihiro Hayashida, Takeyuki Tamura:
Integer programming-based methods for attractor detection and control of boolean networks. CDC 2009: 5610-5617 - [c7]Jose C. Nacher, Tomoshiro Ochiai, Morihiro Hayashida, Tatsuya Akutsu:
A Bipartite Graph Based Model of Protein Domain Networks. Complex (1) 2009: 525-535 - 2008
- [j6]Morihiro Hayashida, Takeyuki Tamura, Tatsuya Akutsu, Shuqin Zhang, Wai-Ki Ching:
Algorithms and Complexity Analyses for Control of Singleton Attractors in Boolean Networks. EURASIP J. Bioinform. Syst. Biol. 2008 (2008) - [j5]Morihiro Hayashida, Fuyan Sun, Sachiyo Aburatani, Katsuhisa Horimoto, Tatsuya Akutsu:
Integer programming-based approach to allocation of reporter genes for cell array analysis. Int. J. Bioinform. Res. Appl. 4(4): 385-399 (2008) - [j4]Morihiro Hayashida, Tatsuya Akutsu, Hiroshi Nagamochi:
A Clustering Method for Analysis of Sequence Similarity Networks of Proteins Using Maximal Components of Graphs. Inf. Media Technol. 3(2): 341-350 (2008) - [c6]Tatsuya Akutsu, Morihiro Hayashida, Takeyuki Tamura:
Algorithms for Inference, Analysis and Control of Boolean Networks. AB 2008: 1-15 - [c5]Morihiro Hayashida, Tatsuya Akutsu:
Image Compression-based Approach to Measuring the Similarity of Protein Structures. APBC 2008: 221-230 - 2007
- [j3]Shuqin Zhang, Morihiro Hayashida, Tatsuya Akutsu, Wai-Ki Ching, Michael Kwok-Po Ng:
Algorithms for Finding Small Attractors in Boolean Networks. EURASIP J. Bioinform. Syst. Biol. 2007 (2007) - [c4]Morihiro Hayashida, Tatsuya Akutsu, Hiroshi Nagamochi:
A Novel Clustering Method for Analysis of Biological Networks using Maximal Components of Graphs. APBC 2007: 257-266 - [p1]Jose C. Nacher, Morihiro Hayashida, Tatsuya Akutsu:
Topological aspects of protein networks. Emergent Intelligence of Networked Agents 2007: 147-158 - 2006
- [j2]Tatsuya Akutsu, Morihiro Hayashida, Dukka Bahadur, Etsuji Tomita, Jun'ichi Suzuki, Katsuhisa Horimoto:
Dynamic Programming and Clique Based Approaches for Protein Threading with Profiles and Constraints. IEICE Trans. Fundam. Electron. Commun. Comput. Sci. 89-A(5): 1215-1222 (2006) - [c3]Tatsuya Akutsu, Morihiro Hayashida, Wai-Ki Ching, Michael K. Ng:
On the Complexity of Finding Control Strategies for Boolean Networks. APBC 2006: 99-108 - 2005
- [j1]Imari Sato, Morihiro Hayashida, Fumiyo Kai, Yoichi Sato, Katsushi Ikeuchi:
Fast image synthesis of virtual objects in a real scene with natural shadings. Syst. Comput. Jpn. 36(14): 102-111 (2005) - 2004
- [c2]Tatsuya Akutsu, Morihiro Hayashida, Etsuji Tomita, Jun'ichi Suzuki, Katsuhisa Horimoto:
Protein Threading with Profiles and Constraints. BIBE 2004: 537-544 - 2003
- [c1]Morihiro Hayashida, Nobuhisa Ueda, Tatsuya Akutsu:
Inferring strengths of protein-protein interactions from experimental data using linear programming. ECCB 2003: 58-65
Coauthor Index
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