Rui Yamaguchi

According to our database1, Rui Yamaguchi authored at least 42 papers between 2005 and 2019.

Collaborative distances:



In proceedings 
PhD thesis 




Capturing the differences between humoral immunity in the normal and tumor environments from repertoire-seq of B-cell receptors using supervised machine learning.
BMC Bioinformatics, 2019

Virtual Grid Engine: Accelerating thousands of omics sample analyses using large-scale supercomputers.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

Reconstruction of high read-depth signals from low-depth whole genome sequencing data using deep learning.
Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine, 2017

Predicting Japanese Kampo formulas by analyzing database of medical records: a preliminary observational study.
BMC Med. Inf. & Decision Making, 2016

A likelihood-free filtering method via approximate Bayesian computation in evaluating biological simulation models.
Computational Statistics & Data Analysis, 2016

OVarCall: Bayesian Mutation Calling Method Utilizing Overlapping Paired-End Reads.
Proceedings of the Bioinformatics Research and Applications - 12th International Symposium, 2016

Genomic data assimilation using a higher moment filtering technique for restoration of gene regulatory networks.
BMC Systems Biology, 2015

An Efficient Data Assimilation Schema for Restoration and Extension of Gene Regulatory Networks Using Time-Course Observation Data.
Journal of Computational Biology, 2014

An efficient method of exploring simulation models by assimilating literature and biological observational data.
Biosystems, 2014

Parameter estimation in multi-compartment SIR model.
Proceedings of the 17th International Conference on Information Fusion, 2014

Multi-omics Approach for Estimating Metabolic Networks Using Low-Order Partial Correlations.
Journal of Computational Biology, 2013

Estimation of abrupt changes in sentinel observation data of influenza epidemics in Japan.
Proceedings of the 16th International Conference on Information Fusion, 2013

Identifying Gene Pathways Associated with Cancer Characteristics via Sparse Statistical Methods.
IEEE/ACM Trans. Comput. Biology Bioinform., 2012

Connection between traditional medicine and disease.
SIGHIT Record, 2012

Population Model-Based Inter-Diplotype Similarity Measure for Accurate Diplotype Clustering.
Journal of Computational Biology, 2012

Computational gene network analysis reveals TNF-induced angiogenesis.
BMC Systems Biology, 2012

Identifying regulational alterations in gene regulatory networks by state space representation of vector autoregressive models and variational annealing.
BMC Genomics, 2012

Identifiability of local transmissibility parameters in agent-based pandemic simulation.
Proceedings of the 15th International Conference on Information Fusion, 2012

Analysis of questionnaire for traditional medical and develop decision support system.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012

Inferring Contagion in Regulatory Networks.
IEEE/ACM Trans. Comput. Biology Bioinform., 2011

Clustering for Visual Analogue Scale Data in Symbolic Data Analysis.
Proceedings of the Complex Adaptive Systems 2011 Conference, 2011

Transform of visual analogue scale data and their clustering.

SiGN-SSM: open source parallel software for estimating gene networks with state space models.
Bioinformatics, 2011

Comprehensive Pharmacogenomic Pathway Screening by Data Assimilation.
Proceedings of the Bioinformatics Research and Applications - 7th International Symposium, 2011

Poster: Comprehensive pharmacogenomic pathway screening by data assimilation.
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

Estimation of macroscopic parameter in agent-based pandemic simulation.
Proceedings of the 14th International Conference on Information Fusion, 2011

Parallel Agent-Based Simulator for Influenza Pandemic.
Proceedings of the Advanced Agent Technology, 2011

Inferring dynamic gene networks under varying conditions for transcriptomic network comparison.
Bioinformatics, 2010

Model-free unsupervised gene set screening based on information enrichment in expression profiles.
Bioinformatics, 2010

Discovering functional gene pathways associated with cancer heterogeneity via sparse supervised learning.
Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

Identifying Hidden Confounders in Gene Networks by Bayesian Networks.
Proceedings of the 10th IEEE International Conference on Bioinformatics and Bioengineering, 2010

Network-Based Predictions and Simulations by Biological State Space Models: Search for Drug Mode of Action.
J. Comput. Sci. Technol., 2009

Recursive regularization for inferring gene networks from time-course gene expression profiles.
BMC Systems Biology, 2009

Gene Networks Viewed through Two Models.
Proceedings of the Bioinformatics and Computational Biology, 2009

Multivariate gene expression analysis reveals functional connectivity changes between normal/tumoral prostates.
BMC Systems Biology, 2008

Bayesian learning of biological pathways on genomic data assimilation.
Bioinformatics, 2008

Statistical inference of transcriptional module-based gene networks from time course gene expression profiles by using state space models.
Bioinformatics, 2008

Analyzing Time Course Gene Expression Data with Biological and Technical Replicates to Estimate Gene Networks by State Space Models.
Proceedings of the Second Asia International Conference on Modelling and Simulation, 2008

Modeling gene expression regulatory networks with the sparse vector autoregressive model.
BMC Systems Biology, 2007

Statistical Absolute Evaluation of Gene Ontology Terms with Gene Expression Data.
Proceedings of the Bioinformatics Research and Applications, Third International Symposium, 2007

State-space approach with the maximum likelihood principle to identify the system generating time-course gene expression data of yeast.
IJDMB, 2006

Estimating Gene Networks with cDNA Microarray Data Using State-Space Models.
Proceedings of the Computational Science and Its Applications, 2005