Akira Funahashi

Akira Funahashi

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Akira Funahashi

Akira Funahashi

Publications by authors named "Akira Funahashi"

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35Publications

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Predicting the future direction of cell movement with convolutional neural networks.

PLoS One 2019 4;14(9):e0221245. Epub 2019 Sep 4.

Department of Biosciences and Informatics, Keio University, Yokohama-shi, Kanagawa, Japan.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0221245PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6726366PMC
March 2020

XitoSBML: A Modeling Tool for Creating Spatial Systems Biology Markup Language Models From Microscopic Images.

Front Genet 2019 22;10:1027. Epub 2019 Oct 22.

Systems Biology Laboratory, Department of Biosciences and Informatics, Keio University, Yokohama, Japan.

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http://dx.doi.org/10.3389/fgene.2019.01027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6842926PMC
October 2019

Editorial: Quantitative Biology: Dynamics of Living Systems.

Front Physiol 2016 2;7:196. Epub 2016 Jun 2.

Systems Biology Laboratory, Department of Biosciences and Informatics, Keio University Yokohama, Japan.

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http://dx.doi.org/10.3389/fphys.2016.00196DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4889605PMC
June 2016

Detection of Temperature Difference in Neuronal Cells.

Sci Rep 2016 Mar 1;6:22071. Epub 2016 Mar 1.

Keio University, Department of Biosciences and Informatics, 3-14-1, Hiyoshi, Kohoku-Ward, Yokohama, 223-8522, Japan.

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http://dx.doi.org/10.1038/srep22071DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4772094PMC
March 2016

Simulation technology and its application in Systems Biology.

Nihon Yakurigaku Zasshi 2016 02;147(2):101-6

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http://dx.doi.org/10.1254/fpj.147.101DOI Listing
February 2016

The principles of whole-cell modeling.

Curr Opin Microbiol 2015 Oct 24;27:18-24. Epub 2015 Jun 24.

Department of Biosciences and Informatics, Keio University, Yokohama 223-8522, Japan.

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http://dx.doi.org/10.1016/j.mib.2015.06.004DOI Listing
October 2015

Acceleration of discrete stochastic biochemical simulation using GPGPU.

Front Physiol 2015 13;6:42. Epub 2015 Feb 13.

Systems Biology Laboratory, Department of Biosciences and Informatics, Keio University Yokohama, Japan.

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http://dx.doi.org/10.3389/fphys.2015.00042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4327578PMC
March 2015

Modeling and simulation using CellDesigner.

Methods Mol Biol 2014 ;1164:121-45

The Systems Biology Institute, 5-6-9 Shirokanedai, Minato-ku, Tokyo, 108-0071, Japan.

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http://dx.doi.org/10.1007/978-1-4939-0805-9_11DOI Listing
January 2015

Assessing uncertainty in model parameters based on sparse and noisy experimental data.

Front Physiol 2014 4;5:128. Epub 2014 Apr 4.

Systems Biology Laboratory, Department of Bioscience and Informatics, Keio University Yokohama, Japan.

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http://dx.doi.org/10.3389/fphys.2014.00128DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983526PMC
April 2014

LibSBMLSim: a reference implementation of fully functional SBML simulator.

Bioinformatics 2013 Jun 5;29(11):1474-6. Epub 2013 Apr 5.

Department of Biosciences and Informatics, Keio University, 3-14-1 Hiyoshi, Kouhoku-ku, Yokohama, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btt157DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3661052PMC
June 2013

Physiological Intracellular Crowdedness is Defined by the Perimeter-to-Area Ratio of Sub-Cellular Compartments.

Front Physiol 2012 23;3:293. Epub 2012 Jul 23.

Department of Bioscience and Informatics, School of Fundamental Science and Technology, Keio University Yokohama, Japan.

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http://dx.doi.org/10.3389/fphys.2012.00293DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3424521PMC
October 2012

BioPAX support in CellDesigner.

Bioinformatics 2011 Dec 21;27(24):3437-8. Epub 2011 Oct 21.

Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr586DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3232372PMC
December 2011

Integration of CellDesigner and SABIO-RK.

In Silico Biol 2007 ;7(2 Suppl):S81-90

JST/ERATO-SORST Kitano Symbiotic Systems Project, Japan.

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October 2007

Deduction of intracellular sub-systems from a topological description of the network.

Mol Biosyst 2007 Aug 27;3(8):523-9. Epub 2007 Jun 27.

Automatic Control - School of Electrical Engineering, Royal Institute of Technology (KTH), Sweden.

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http://dx.doi.org/10.1039/b702142aDOI Listing
August 2007

A comprehensive pathway map of epidermal growth factor receptor signaling.

Mol Syst Biol 2005 25;1:2005.0010. Epub 2005 May 25.

The Systems Biology Institute, Tokyo, Japan.

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http://dx.doi.org/10.1038/msb4100014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1681468PMC
August 2006

Using process diagrams for the graphical representation of biological networks.

Nat Biotechnol 2005 Aug;23(8):961-6

The Systems Biology Institute, Suite 6A, M31 6-31-15 Jingumae, Shibuya, Tokyo, 150-0001 Japan.

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http://dx.doi.org/10.1038/nbt1111DOI Listing
August 2005

Vocal cord closure pressure during volitional swallow and other voluntary tasks.

Dysphagia 2002 ;17(1):13-8

MCW Dysphagia Institute, Division of Gastroenterology and Hepatology, Medical College of Wisconsin, Milwaukee USA.

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http://dx.doi.org/10.1007/s00455-001-0096-2DOI Listing
April 2002