Masaru Tomita

According to our database1, Masaru Tomita authored at least 96 papers between 1984 and 2019.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2019
Automatic Fault Detection and Isolation Method for Roller Bearing Using Hybrid-GA and Sequential Fuzzy Inference.
Sensors, 2019

2018
MICOP: Maximal information coefficient-based oscillation prediction to detect biological rhythms in proteomics data.
BMC Bioinformatics, 2018

2016
BriCA: A Modular Software Platform for Whole Brain Architecture.
Proceedings of the Neural Information Processing - 23rd International Conference, 2016

Combination of Quantitative Changes in Ionic Components to Enhance the Contractile Force during T-tubule Development.
Proceedings of the Computing in Cardiology, CinC 2016, Vancouver, 2016

Simulation Study on the Balance of Glycolytic ATP Production and Oxidative Phosphorylation in Embryonic and Adult Ventricular Cells.
Proceedings of the Computing in Cardiology, CinC 2016, Vancouver, 2016

2015
Particle Simulation of Oxidation Induced Band 3 Clustering in Human Erythrocytes.
PLoS Computational Biology, 2015

Modeling and Simulation of Developmental Changes in Contractile Apparatus of Ventricular Cells.
Proceedings of the Computing in Cardiology, 2015

Sensitivity Analysis of Ectopic Electrical Activity in Pulmonary Vein Myocardium.
Proceedings of the Computing in Cardiology, 2015

A Generic Software Platform for Brain-inspired Cognitive Computing.
Proceedings of the 6th Annual International Conference on Biologically Inspired Cognitive Architectures, 2015

2014
Contribution of Developmental Changes in Energy Metabolism to Excitation-Contraction Coupling of a Ventricular Cell: A Simulation Study.
Proceedings of the Computing in Cardiology, CinC 2014, 2014

2013
GEMBASSY: an EMBOSS associated software package for comprehensive genome analyses.
Source Code for Biology and Medicine, 2013

The dynamics of cellular energetics during continuous yeast culture.
Proceedings of the 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2013

2012
MMMDB: Mouse Multiple Tissue Metabolome Database.
Nucleic Acids Research, 2012

Prediction of axillary lymph node metastasis in primary breast cancer patients using a decision tree-based model.
BMC Med. Inf. & Decision Making, 2012

2011
KBWS: an EMBOSS associated package for accessing bioinformatics web services.
Source Code for Biology and Medicine, 2011

Integrative Features of the Yeast Phosphoproteome and Protein-Protein Interaction Map.
PLoS Computational Biology, 2011

2010
G-language genome analysis environment with REST and SOAP web service interfaces.
Nucleic Acids Research, 2010

Protein complex prediction via verifying and reconstructing the topology of domain-domain interactions.
BMC Bioinformatics, 2010

Towards the systematic discovery of signal transduction networks using phosphorylation dynamics data.
BMC Bioinformatics, 2010

emPAI Calc - for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry.
Bioinformatics, 2010

2009
A web server for interactive and zoomable Chaos Game Representation images.
Source Code for Biology and Medicine, 2009

Can Complex Cellular Processes be Governed by Simple Linear Rules?
J. Bioinformatics and Computational Biology, 2009

Network features and pathway analyses of a signal transduction cascade.
Front. Neuroinform., 2009

Measure of synonymous codon usage diversity among genes in bacteria.
BMC Bioinformatics, 2009

Genome Projector: zoomable genome map with multiple views.
BMC Bioinformatics, 2009

2008
Time-resolved metabolomics reveals metabolic modulation in rice foliage.
BMC Systems Biology, 2008

GeNESiS: gene network evolution simulation software.
BMC Bioinformatics, 2008

Comparison of metabolite production capability indices generated by network analysis methods.
Biosystems, 2008

Aligning LC peaks by converting gradient retention times to retention index of peptides in proteomic experiments.
Bioinformatics, 2008

Construction of a Biological Tissue Model Based on a Single-Cell Model: A Computer Simulation of Metabolic Heterogeneity in the Liver Lobule.
Artificial Life, 2008

Comparative Study of Circadian Oscillatory Network Models of Drosophila.
Artificial Life, 2008

Algebraic Method for the Analysis of Signaling Crosstalk.
Artificial Life, 2008

2007
eXpanda: An Integrated Platform for Network Analysis and Visualization.
In Silico Biology, 2007

Consideration on Contact Mechanism of YBaCuO Bulk Superconductor with Deposited Metal Layer.
IEICE Transactions, 2007

Restauro-G: A Rapid Genome Re-Annotation System for Comparative Genomics.
Genomics, Proteomics & Bioinformatics, 2007

Variation in the Correlation of G + C Composition with Synonymous Codon Usage Bias among Bacteria.
EURASIP J. Bioinformatics and Systems Biology, 2007

Visualization of three-way comparisons of omics data.
BMC Bioinformatics, 2007

Inferring rules of Escherichia coli translational efficiency using an artificial neural network.
Biosystems, 2007

Robust effects of Tsr-CheBp and CheA-CheYp affinity in bacterial chemotaxis.
Artificial Intelligence in Medicine, 2007

2006
Multiresolution Analysis Uncovers Hidden Conservation of Properties in Structurally and Functionally Similar Proteins.
J. Bioinformatics and Computational Biology, 2006

SPLITS: A New Program for Predicting Split and Intron-Containing tRNA Genes at the Genome Level.
In Silico Biology, 2006

MEGU: Pathway Mapping Web-Service Based on KEGG and SVG.
In Silico Biology, 2006

GPAC: Benchmarking the Sensitivity of Genome Informatics Analysis to Genome Annotation Completeness.
In Silico Biology, 2006

HybGFS: a hybrid method for genome-fingerprint scanning.
BMC Bioinformatics, 2006

Parameter estimation for stiff equations of biosystems using radial basis function networks.
BMC Bioinformatics, 2006

MathDAMP: a package for differential analysis of metabolite profiles.
BMC Bioinformatics, 2006

GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes.
BMC Bioinformatics, 2006

An interaction knowledgebase for biomolecular modeling.
Proceedings of the 6th Industrial Conference on Data Mining, Workshop Proceedings, 2006

2005
KEGG-Based Pathway Visualization Tool for Complex Omics Data.
In Silico Biology, 2005

A microarray data-based semi-kinetic method for predicting quantitative dynamics of genetic networks.
BMC Bioinformatics, 2005

Computational analysis suggests that alternative first exons are involved in tissue-specific transcription in rice (Oryza sativa).
Bioinformatics, 2005

2004
Characterization of the Splice Sites in Gt-ag and Gc-ag Introns in Higher Eukaryotes Using Full-length Cdnas.
J. Bioinformatics and Computational Biology, 2004

A general computational model of mitochondrial metabolism in a whole organelle scale.
Bioinformatics, 2004

A multi-algorithm, multi-timescale method for cell simulation.
Bioinformatics, 2004

Future Directions for Cyber Knowledge and Databases.
Proceedings of the 2004 Symposium on Applications and the Internet Workshops (SAINT 2004 Workshops), 2004

Distributed Cell Biology Simulations with E-Cell System.
Proceedings of the Grid Computing in Life Science, 2004

2003
Kinetic simulation of signal transduction system in hippocampal long-term potentiation with dynamic modeling of protein phosphatase 2A.
Neural Networks, 2003

E-Cell 2: Multi-platform E-Cell simulation system.
Bioinformatics, 2003

Computational Analysis of Stop Codon Readthrough in D.melanogaster.
Bioinformatics, 2003

Dynamic modeling of genetic networks using genetic algorithm and S-system.
Bioinformatics, 2003

The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.
Bioinformatics, 2003

G-language Genome Analysis Environment: a workbench for nucleotide sequence data mining.
Bioinformatics, 2003

2002
Computational Challenges in Cell Simulation: A Software Engineering Approach.
IEEE Intelligent Systems, 2002

Toward Computer Simulation of the Whole Cell.
Proceedings of the Gene Regulations and Metabolism - Postgenomic Computational Approaches, 2002

2001
Towards Computer Aided Design (CAD) of Useful Microorganisms.
Bioinformatics, 2001

E-CELL Project: Towards Whole Cell Simulation.
Proceedings of the Computer science and biology: Proceedings of the German Conference on Bioinformatics, 2001

2000
Proposition of cortical connectivity between 30 cytoarchitectural areas of human cerebral cortex.
Neurocomputing, 2000

The E-CELL project: towards integrative simulation of cellular processes.
Proceedings of the Fourth Annual International Conference on Computational Molecular Biology, 2000

1999
E-CELL: software environment for whole-cell simulation.
Bioinformatics, 1999

Analysis of base-pairing potentials between 16S rRNA and 5' UTR for translation initiation in various prokaryotes.
Bioinformatics, 1999

Predicting human cortical connectivity for language areas using the Conel database.
Proceedings of the International Joint Conference Neural Networks, 1999

1994
Sacrificial Acts in Single Round Prisoner's Dilemma.
Informatica (Slovenia), 1994

JANUS 93: towards spontaneous speech translation.
Proceedings of ICASSP '94: IEEE International Conference on Acoustics, 1994

1993
Recent advances in JANUS: a speech translation system.
Proceedings of the Human Language Technology: Proceedings of a Workshop Held at Plainsboro, 1993

1992
Parsing 2D Languages by a Pictorial GLR Parser.
Proceedings of the Advanced Visual Interfaces - Proceedings of the International Workshop, 1992

Machine translation - a knowledge-based approach.
Morgan Kaufmann, ISBN: 978-1-55860-128-4, 1992

1991
A Generalized Parser for 2-D Languages.
Proceedings of the 1991 IEEE Workshop on Visual Languages, Kobe, Japan, October 8-11, 1991, 1991

1990
Massively parallel spoken language processing using a parallel associative processor IXM2.
Proceedings of the First International Conference on Spoken Language Processing, 1990

The Generalized LR Parser/Compiler V8-4: A Software Package for Practical NL Projects.
Proceedings of the 13th International Conference on Computational Linguistics, 1990

1989
Parsing 2-Dimensional Language.
Proceedings of the First International Workshop on Parsing Technologies, 1989

Massively Parallel Parsing in ΦDmDialog: Integrated Architecture for Parsing Speech Inputs.
Proceedings of the First International Workshop on Parsing Technologies, 1989

1988
Direct Memory Access Translation for Speech Input.
Proceedings of the International Conference on Fifth Generation Computer Systems, 1988

Combining lexicon-driven parsing and phrase-structure-based parsing.
Proceedings of the 12th International Conference on Computational Linguistics, 1988

"Linguistic" sentences and "real" sentences.
Proceedings of the 12th International Conference on Computational Linguistics, 1988

Application of the direct memory access paradigm to NL interfaces to knowledge-based systems.
Proceedings of the 12th International Conference on Computational Linguistics, 1988

Parsing noisy sentences.
Proceedings of the 12th International Conference on Computational Linguistics, 1988

Graph-Structured Stack and Natural Language Parsing.
Proceedings of the 26th Annual Meeting of the Association for Computational Linguistics, 1988

The Integration of Unification-Based Syntax/Semantics and Memory-Based Pragmatics for Real-Time Understanding of Noisy Continuous Speech Input.
Proceedings of the 7th National Conference on Artificial Intelligence, 1988

1987
An Efficient Augmented-Context-Free Parsing Algorithm.
Computational Linguistics, 1987

The Universal Parser Architecture for Knowledge-based Machine Translation.
Proceedings of the 10th International Joint Conference on Artificial Intelligence. Milan, 1987

1986
Sentence disambiguation by asking.
Machine Translation, 1986

Another Stride Towards Knowledge-Based Machine Translation.
Proceedings of the 11th International Conference on Computational Linguistics, 1986

Parsing Spoken Language: A Semantic Caseframe Approach.
Proceedings of the 11th International Conference on Computational Linguistics, 1986

1985
An Efficient Context-Free Parsing Algorithm for Natural Languages.
Proceedings of the 9th International Joint Conference on Artificial Intelligence. Los Angeles, 1985

1984
Disambiguating Grammatically Ambiguous Sentences By Asking.
Proceedings of the 10th International Conference on Computational Linguistics and 22nd Annual Meeting of the Association for Computational Linguistics, 1984

LR Parsers For Natural Languages.
Proceedings of the 10th International Conference on Computational Linguistics and 22nd Annual Meeting of the Association for Computational Linguistics, 1984


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