Kiyoko F Aoki-Kinoshita

Kiyoko F Aoki-Kinoshita

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Kiyoko F Aoki-Kinoshita

Kiyoko F Aoki-Kinoshita

Publications by authors named "Kiyoko F Aoki-Kinoshita"

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The GlySpace Alliance: toward a collaborative global glycoinformatics community.

Glycobiology 2020 01;30(2):70-71

Department of Molecular Sciences, Faculty of Science & Engineering, Rm 307, Building E8C, Macquarie University, Sydney, NSW 2109, Australia.

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http://dx.doi.org/10.1093/glycob/cwz078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6992953PMC
January 2020

LM-GlycomeAtlas Ver. 1.0: A Novel Visualization Tool for Lectin Microarray-Based Glycomic Profiles of Mouse Tissue Sections.

Molecules 2019 Aug 15;24(16). Epub 2019 Aug 15.

Glycoscience and Glycotechnology Research Group, Biotechnology Research Institute for Drug Discovery, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki 305-8568, Japan.

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http://dx.doi.org/10.3390/molecules24162962DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6719194PMC
August 2019

GlycanFormatConverter: a conversion tool for translating the complexities of glycans.

Bioinformatics 2019 Jul;35(14):2434-2440

Graduate School of Engineering, Soka University, Hachioji, Tokyo, Japan.

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http://dx.doi.org/10.1093/bioinformatics/bty990DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6612873PMC
July 2019

Analyzing Glycan-Binding Profiles Using Weighted Multiple Alignment of Trees.

Methods Mol Biol 2018 ;1807:131-140

Faculty of Science and Engineering, Soka University, Tokyo, Japan.

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http://dx.doi.org/10.1007/978-1-4939-8561-6_10DOI Listing
March 2019

MCAW-DB: A glycan profile database capturing the ambiguity of glycan recognition patterns.

Carbohydr Res 2018 Jul 11;464:44-56. Epub 2018 May 11.

Department of Bioinformatics, Graduate School of Engineering, Soka University, Tokyo, 192-8577, Japan; Department of Science and Engineering for Sustainable Innovation, Faculty of Science and Engineering, Soka University, Tokyo, 192-8577, Japan. Electronic address:

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http://dx.doi.org/10.1016/j.carres.2018.05.003DOI Listing
July 2018

Implementation of GlycanBuilder to draw a wide variety of ambiguous glycans.

Carbohydr Res 2017 Jun 19;445:104-116. Epub 2017 Apr 19.

Glycoscience and Glycotechnology Research Group, AIST, Tsukuba, Japan.

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http://dx.doi.org/10.1016/j.carres.2017.04.015DOI Listing
June 2017

Development and application of an algorithm to compute weighted multiple glycan alignments.

Bioinformatics 2017 05;33(9):1317-1323

Department of Bioinformatics, Graduate School of Engineering, Soka University, Tokyo 192-8577, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btw827DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408794PMC
May 2017

WURCS 2.0 Update To Encapsulate Ambiguous Carbohydrate Structures.

J Chem Inf Model 2017 04 22;57(4):632-637. Epub 2017 Mar 22.

Glycoscience and Glycotechnology Research Group, Biotechnology Research Institute for Drug Discovery, National Institute of Advanced Industrial Science and Technology (AIST) , Tsukuba, Ibaraki 305-8568, Japan.

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http://dx.doi.org/10.1021/acs.jcim.6b00650DOI Listing
April 2017

The Glycome Analytics Platform: an integrative framework for glycobioinformatics.

Bioinformatics 2016 10 10;32(19):3005-11. Epub 2016 Jun 10.

Scientific Computing Research Unit and Department of Chemistry, University of Cape Town, Rondebosch 7701, South Africa.

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http://dx.doi.org/10.1093/bioinformatics/btw341DOI Listing
October 2016

Comprehensive analysis of the N-glycan biosynthetic pathway using bioinformatics to generate UniCorn: A theoretical N-glycan structure database.

Carbohydr Res 2016 Aug 30;431:56-63. Epub 2016 May 30.

Department of Chemistry and Biomolecular Sciences, Faculty of Science & Engineering, Macquarie University, Balaclava Road, North Ryde, NSW, 2109, Australia. Electronic address:

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http://dx.doi.org/10.1016/j.carres.2016.05.012DOI Listing
August 2016

A systematic framework to derive N-glycan biosynthesis process and the automated construction of glycosylation networks.

BMC Bioinformatics 2016 Jul 25;17 Suppl 7:240. Epub 2016 Jul 25.

Faculty of Science and Engineering, Soka University, Tokyo, 192-8577, Japan.

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http://dx.doi.org/10.1186/s12859-016-1094-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4965717PMC
July 2016

Glycomic analysis using KEGG GLYCAN.

Methods Mol Biol 2015 ;1273:97-107

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo, 192-8577, Japan,

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http://dx.doi.org/10.1007/978-1-4939-2343-4_7DOI Listing
November 2015

Analyzing glycan structure synthesis with the Glycan Pathway Predictor (GPP) Tool.

Methods Mol Biol 2015 ;1273:139-47

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo, 192-8577, Japan,

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http://dx.doi.org/10.1007/978-1-4939-2343-4_10DOI Listing
November 2015

Analyzing glycan-binding patterns with the ProfilePSTMM Tool.

Methods Mol Biol 2015 ;1273:193-202

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo, 192-8577, Japan,

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http://dx.doi.org/10.1007/978-1-4939-2343-4_14DOI Listing
November 2015

Implementation of linked data in the life sciences at BioHackathon 2011.

J Biomed Semantics 2015 7;6. Epub 2015 Jan 7.

Department of Bioclinical informatics, Tohoku Medical Megabank Organization, Tohoku University, Seiryo-cho 4-1, Aoba-ku, Sendai-shi Miyagi, 980-8575 Japan.

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http://dx.doi.org/10.1186/2041-1480-6-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4429360PMC
May 2015

GlycoRDF: an ontology to standardize glycomics data in RDF.

Bioinformatics 2015 Mar 11;31(6):919-25. Epub 2014 Nov 11.

Complex Carbohydrate Research Center, University of Georgia, Athens, GA, USA, Research Center for Medical Glycoscience, National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan, Faculty of Engineering, Soka University, Tokyo, Japan, Biomolecular Frontiers Research Centre, Macquarie University, Sydney, Australia, Database Center for Life Science, Research Organization of Information and Systems, Chiba, Japan, Institute of Veterinary Physiology and Biochemistry, Justus-Liebig-University Giessen, Giessen, Germany, Graduate School of Medical and Dental Sciences, Niigata University, Niigata, Japan, N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, Russia and Laboratory of Glyco-organic Chemistry, The Noguchi Institute, Tokyo, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btu732DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4380026PMC
March 2015

The Lectin Frontier Database (LfDB), and data generation based on frontal affinity chromatography.

Molecules 2015 Jan 8;20(1):951-73. Epub 2015 Jan 8.

Research Center for Medical Glycoscience, National Institute of Advanced Industrial Science and Technology, Central-2, 1-1-1, Umezono, Tsukuba, Ibaraki 305-8568, Japan.

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http://dx.doi.org/10.3390/molecules20010951DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6272529PMC
January 2015

Knowledge discovery for pancreatic cancer using inductive logic programming.

IET Syst Biol 2014 Aug;8(4):162-8

Division of Clinical Laboratories, National Cancer Center Hospital, Tokyo, Japan.

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http://dx.doi.org/10.1049/iet-syb.2013.0044DOI Listing
August 2014

WURCS: the Web3 unique representation of carbohydrate structures.

J Chem Inf Model 2014 Jun 4;54(6):1558-66. Epub 2014 Jun 4.

Research Center for Medical Glycoscience, National Institute of Advanced Industrial Science and Technology (AIST) , Tsukuba, Ibaraki 305-8568, Japan.

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http://dx.doi.org/10.1021/ci400571eDOI Listing
June 2014

BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.

J Biomed Semantics 2014 Feb 5;5(1). Epub 2014 Feb 5.

Database Center for Life Science, Research Organization of Information and Systems, 2-11-16, Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan.

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http://dx.doi.org/10.1186/2041-1480-5-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3978116PMC
February 2014

UniCarbKB: building a knowledge platform for glycoproteomics.

Nucleic Acids Res 2014 Jan 13;42(Database issue):D215-21. Epub 2013 Nov 13.

Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, Proteome Informatics Group, Swiss Institute of Bioinformatics, Geneva, Switzerland, Swiss-Prot Group, Swiss Institute of Bioinformatics, Geneva, Switzerland, Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo, Japan and Section of Biology, Faculty of Sciences, University of Geneva, Switzerland.

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http://dx.doi.org/10.1093/nar/gkt1128DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964942PMC
January 2014

Introducing glycomics data into the Semantic Web.

J Biomed Semantics 2013 Nov 26;4(1):39. Epub 2013 Nov 26.

Research Center for Medical Glycoscience, National Institute of Advanced Industrial Science and Technology, Tsukuba Central-2, Umezono 1-1-1, Tsukuba 305-8568, Japan.

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http://dx.doi.org/10.1186/2041-1480-4-39DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4177142PMC
November 2013

Introduction to informatics in glycoprotein analysis.

Methods Mol Biol 2013 ;951:257-67

Department of Bioinformatics, Soka University, Aliso Viejo, CA, USA.

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http://dx.doi.org/10.1007/978-1-62703-146-2_17DOI Listing
June 2013

Using databases and web resources for glycomics research.

Mol Cell Proteomics 2013 Apr 16;12(4):1036-45. Epub 2013 Jan 16.

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo, Japan.

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http://dx.doi.org/10.1074/mcp.R112.026252DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3617328PMC
April 2013

The GlycomeAtlas tool for visualizing and querying glycome data.

Bioinformatics 2012 Nov 24;28(21):2849-50. Epub 2012 Aug 24.

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo 192-8577, Japan.

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http://dx.doi.org/10.1093/bioinformatics/bts516DOI Listing
November 2012

UniCarbKB: putting the pieces together for glycomics research.

Proteomics 2011 Nov 19;11(21):4117-21. Epub 2011 Sep 19.

Biomolecular Frontiers Research Centre, Macquarie University, Sydney, NSW, Australia.

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http://dx.doi.org/10.1002/pmic.201100302DOI Listing
November 2011

Identification of genes required for neural-specific glycosylation using functional genomics.

PLoS Genet 2010 Dec 23;6(12):e1001254. Epub 2010 Dec 23.

Research Group of Glycobiology and Glycotechnology, Mitsubishi-kagaku Institute of Life Sciences, Tokyo, Japan.

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http://dx.plos.org/10.1371/journal.pgen.1001254
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http://dx.doi.org/10.1371/journal.pgen.1001254DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3009669PMC
December 2010

The RINGS resource for glycome informatics analysis and data mining on the Web.

OMICS 2010 Aug;14(4):475-86

Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-cho, Hachioji, Tokyo 192-8577, Japan.

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http://dx.doi.org/10.1089/omi.2009.0129DOI Listing
August 2010

A weighted q-gram method for glycan structure classification.

BMC Bioinformatics 2010 Jan 18;11 Suppl 1:S33. Epub 2010 Jan 18.

Advanced Modeling and Applied Computing Laboratory, Department of Mathematics, The University of Hong Kong, Pokfulam Road, Hong Kong.

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https://bmcbioinformatics.biomedcentral.com/articles/10.1186
Publisher Site
http://dx.doi.org/10.1186/1471-2105-11-S1-S33DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3009505PMC
January 2010

[Introduction to glycome informatics].

Seikagaku 2008 Nov;80(11):1038-41

Department of Bioinformatics, Faculty of Engineering, Soka University, Hachioji, Tokyo 192-8577, Japan.

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November 2008

Using glycome databases for drug discovery.

Expert Opin Drug Discov 2008 Aug;3(8):877-90

Associate Professor, Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-cho, Hachioji, Tokyo, 192-8577, Japan +81 42 691 4116 ; +81 42 691 4116 ;

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http://dx.doi.org/10.1517/17460441.3.8.877DOI Listing
August 2008

An introduction to bioinformatics for glycomics research.

PLoS Comput Biol 2008 May 30;4(5):e1000075. Epub 2008 May 30.

Department of Bioinformatics, Soka University, Tokyo, Japan.

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http://dx.doi.org/10.1371/journal.pcbi.1000075DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2398734PMC
May 2008

A gram distribution kernel applied to glycan classification and motif extraction.

Genome Inform 2006 ;17(2):25-34

Center for Collaborative Research, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo, 153-8505, Japan.

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June 2007

Bioinformatics approaches in glycomics and drug discovery.

Curr Opin Mol Ther 2006 Dec;8(6):514-20

Soka University, Faculty of Engineering, Department of Bioinformatics, 1-236 Tangi-cho, Hachioji-shi, Tokyo 192-8577, Japan.

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December 2006

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules.

Bioinformatics 2006 Jul 13;22(13):1648-55. Epub 2006 Apr 13.

Bioinformatics Center, Institute for Chemical Research, Kyoto University Gokasho, Uji 611-0011, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btl141DOI Listing
July 2006

ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains.

Bioinformatics 2006 Jul;22(14):e25-34

Bioinformatics Center, Institute for Chemical Research, Kyoto University.

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http://dx.doi.org/10.1093/bioinformatics/btl244DOI Listing
July 2006

KEGG as a glycome informatics resource.

Glycobiology 2006 May 13;16(5):63R-70R. Epub 2005 Jul 13.

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/glycob/cwj010DOI Listing
May 2006

A global representation of the carbohydrate structures: a tool for the analysis of glycan.

Genome Inform 2005 ;16(1):214-22

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.

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January 2006

From genomics to chemical genomics: new developments in KEGG.

Nucleic Acids Res 2006 Jan;34(Database issue):D354-7

Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto 611-0011, Japan.

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http://dx.doi.org/10.1093/nar/gkj102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347464PMC
January 2006