Keiichiro Ono

Keiichiro Ono

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Keiichiro Ono

Keiichiro Ono

Publications by authors named "Keiichiro Ono"

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26Publications

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DDOT: A Swiss Army Knife for Investigating Data-Driven Biological Ontologies.

Cell Syst 2019 03 13;8(3):267-273.e3. Epub 2019 Mar 13.

Department of Medicine, University of California, San Diego, La Jolla, CA 92093, USA; Graduate Program in Bioinformatics and Systems Biology, University of California, San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S24054712193003
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http://dx.doi.org/10.1016/j.cels.2019.02.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7042149PMC
March 2019

Using deep learning to model the hierarchical structure and function of a cell.

Nat Methods 2018 04 5;15(4):290-298. Epub 2018 Mar 5.

Department of Medicine, University of California San Diego, La Jolla, California, USA.

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http://dx.doi.org/10.1038/nmeth.4627DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5882547PMC
April 2018

Active Interaction Mapping Reveals the Hierarchical Organization of Autophagy.

Mol Cell 2017 Feb 26;65(4):761-774.e5. Epub 2017 Jan 26.

Department of Medicine, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.12.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5439305PMC
February 2017

cyNeo4j: connecting Neo4j and Cytoscape.

Bioinformatics 2015 Dec 12;31(23):3868-9. Epub 2015 Aug 12.

Department of Medicine, University of California, San Diego, La Jolla, CA, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btv460DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4653389PMC
December 2015

CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API.

F1000Res 2015 5;4:478. Epub 2015 Aug 5.

Department of Medicine, University of California, San Diego, CA, 92093-0688, USA.

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http://dx.doi.org/10.12688/f1000research.6767.1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4670004PMC
December 2015

NDEx, the Network Data Exchange.

Cell Syst 2015 Oct;1(4):302-305

Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA ; Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1016/j.cels.2015.10.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4649937PMC
October 2015

Cytoscape tools for the web age: D3.js and Cytoscape.js exporters.

F1000Res 2014 1;3:143. Epub 2014 Jul 1.

Department of Medicine, University of California, San Diego, La Jolla, CA 92093-0688, USA.

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https://healthsciences.ucsd.edu/som/medicine/research/labs/i
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http://f1000research.com/articles/3-143/v2
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4264639PMC
http://dx.doi.org/10.12688/f1000research.4510.2DOI Listing
December 2014

KEGGscape: a Cytoscape app for pathway data integration.

F1000Res 2014 1;3:144. Epub 2014 Jul 1.

Laboratory for Biochemical Simulation, RIKEN Quantitative Biology Center, Osaka, 565-0874, Japan.

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http://dx.doi.org/10.12688/f1000research.4524.1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4141640PMC
September 2014

NeXO Web: the NeXO ontology database and visualization platform.

Nucleic Acids Res 2014 Jan 23;42(Database issue):D1269-74. Epub 2013 Nov 23.

Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/nar/gkt1192DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3965056PMC
January 2014

PiNGO: a Cytoscape plugin to find candidate genes in biological networks.

Bioinformatics 2011 Apr 28;27(7):1030-1. Epub 2011 Jan 28.

Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr045DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3065683PMC
April 2011

Cytoscape 2.8: new features for data integration and network visualization.

Bioinformatics 2011 Feb 12;27(3):431-2. Epub 2010 Dec 12.

Department of Medicine, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.

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http://dx.doi.org/10.1093/bioinformatics/btq675DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3031041PMC
February 2011

Evidence mining and novelty assessment of protein-protein interactions with the ConsensusPathDB plugin for Cytoscape.

Bioinformatics 2010 Nov 16;26(21):2796-7. Epub 2010 Sep 16.

Department of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Ihnestrasse 63-73, Berlin, Germany.

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http://dx.doi.org/10.1093/bioinformatics/btq522DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2958747PMC
November 2010

Functional genomic screen for modulators of ciliogenesis and cilium length.

Nature 2010 Apr;464(7291):1048-51

Department of Neurosciences, Institute for Genomic Medicine, Howard Hughes Medical Institute, University of California San Diego, La Jolla, California 92093, USA.

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http://dx.doi.org/10.1038/nature08895DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2929961PMC
April 2010

Malignant calcifying epithelial odontogenic tumor of the mandible: report of a case with pulmonary metastasis showing remarkable response to platinum derivatives.

Oral Surg Oral Med Oral Pathol Oral Radiol Endod 2007 Jul 25;104(1):76-81. Epub 2006 Sep 25.

Division of Oral and Maxillo-Facial Surgery, Department of Oncological Science, Faculty of Medicine, Oita University, Hasama-machi, Yufu-shi, Oita, Japan.

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http://dx.doi.org/10.1016/j.tripleo.2006.04.014DOI Listing
July 2007

Design and efficient synthesis of new stable 1alpha,25-dihydroxy-19-norvitamin D3 analogues containing amide bond.

Bioorg Med Chem Lett 2002 Dec;12(24):3533-6

Faculty of Pharmaceutical Sciences, Teikyo University, Sagamiko, Kanagawa 199-0195, Japan.

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http://dx.doi.org/10.1016/s0960-894x(02)00800-4DOI Listing
December 2002