| Published Papers |
| No. | Title URL, Journal, Vol( Number), From Page- To Page, Publication date, DOI
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| 1 | Update and new implementation of the MIRAGE reporting guidelines for mass spectrometry experiments in glycoscience. , Molecular & cellular proteomics : MCP, , 101473- 101473, Nov. 24, 2025, https://doi.org/10.1016/j.mcpro.2025.101473 |
| 2 | Meeting report on the 1st GlyCosmos Symposium & Jamboree—community-driven expansion of glycan-binding molecules resources  , Glycobiology, 36( 1), , Nov. 21, 2025, https://doi.org/10.1093/glycob/cwaf079 |
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| 4 | VarMeter2: An enhanced structure-based methodfmovi for predicting pathogenic missense variants through Mahalanobis distance , Computational and Structural Biotechnology Journal, 27, 1034- 1047, Mar. 2025, https://doi.org/10.1016/j.csbj.2025.02.008 |
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| 8 | Cooperation of GlycoPOST and UniCarb-DR towards a comprehensive glycomics data repository workflow. , Analytical and bioanalytical chemistry, 417( 5), 1015- 1023, Feb. 2025, https://doi.org/10.1007/s00216-024-05673-3 |
| 9 | Toward integration of glycan chemical databases: an algorithm and software tool for extracting sugars from chemical structures. , Analytical and bioanalytical chemistry, 417( 5), 945- 956, Feb. 2025, https://doi.org/10.1007/s00216-024-05508-1 |
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| 13 | Functional implications of glycans and their curation: insights from the workshop held at the 16th Annual International Biocuration Conference in Padua, Italy. , Database : the journal of biological databases and curation, 2024, , Aug. 13, 2024, https://doi.org/10.1093/database/baae073 |
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| 16 | An N-glycome tissue atlas of 15 human normal and cancer tissue types determined by MALDI-imaging mass spectrometry. , Scientific reports, 14( 1), 489- 489, Jan. 4, 2024, https://doi.org/10.1038/s41598-023-50957-w |
| 17 | GlyComb: a novel glycoconjugate data repository that bridges glycomics and proteomics. , The Journal of biological chemistry, 300( 2), 105624- 105624, Jan. 2, 2024, https://doi.org/10.1016/j.jbc.2023.105624 |
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| 19 | Functional evaluation of novel variants of B4GALNT1 in a patient with hereditary spastic paraplegia and the general population. , Frontiers in neuroscience, 18, 1437668- 1437668, 2024, https://doi.org/10.3389/fnins.2024.1437668 |
| 20 | Predicting the pathogenicity of missense variants based on protein instability to support diagnosis of patients with novel variants of ARSL , Molecular Genetics and Metabolism Reports, 37, 101016- 101016, Dec. 2023, https://doi.org/10.1016/j.ymgmr.2023.101016 |
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| 23 | LMNglyPred: prediction of human N-linked glycosylation sites using embeddings from a pre-trained protein language model. , Glycobiology, 33( 5), 411- 422, Jun. 3, 2023, https://doi.org/10.1093/glycob/cwad033 |
| 24 |
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| 26 | Meeting report on the international symposium on microbial Glycoconjugates and the GlySpace alliance: from micro- to macroglycoscience (MiGGA symposium). , Glycobiology, 32( 12), 1066- 1067, Nov. 22, 2022, https://doi.org/10.1093/glycob/cwac062 |
| 27 | Corrigendum to: The glycoconjugate ontology (GlycoCoO) for standardizing the annotation of glycoconjugate data and its application. , Glycobiology, 32( 10), 909- 909, Sep. 19, 2022, https://doi.org/10.1093/glycob/cwab065 |
| 28 |
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| 29 | CarbArrayART: a new software tool for carbohydrate microarray data storage, processing, presentation, and reporting , Glycobiology, 32( 7), 552- 555, Jun. 13, 2022, https://doi.org/10.1093/glycob/cwac018 |
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| 42 | LM-GlycomeAtlas Ver. 2.0: An Integrated Visualization for Lectin Microarray-based Mouse Tissue Glycome Mapping Data with Lectin Histochemistry. , Journal of proteome research, 20( 4), 2069- 2075, Mar. 4, 2021, https://doi.org/10.1021/acs.jproteome.0c00907 |
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| 44 | The Glycoconjugate Ontology GlycoCoO for standardizing the annotation of glycoconjugate data and its application. , Glycobiology, 31( 7), 741- 750, Feb. 23, 2021, https://doi.org/10.1093/glycob/cwab013 |
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| 51 | A consensus-based and readable extension of Linear Code for Reaction Rules (LiCoRR). , Beilstein journal of organic chemistry, 16, 2645- 2662, 2020, https://doi.org/10.3762/bjoc.16.215 |
| 52 |
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| 54 | LM-GlycomeAtlas Ver. 1.0: A Novel Visualization Tool for Lectin Microarray-Based Glycomic Profiles of Mouse Tissue Sections. , Molecules (Basel, Switzerland), 24( 16), 2962- 2962, Aug. 15, 2019, https://doi.org/10.3390/molecules24162962 |
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| 57 | Educational materials and training for glycosciences , Glycoscience: Basic Science to Applications: Insights from the Japan Consortium for Glycobiology and Glycotechnology (JCGG), , 355- 368, Jan. 1, 2019, https://doi.org/10.1007/978-981-13-5856-2_21 |
| 58 | A new version of GlycanBuilder that handles a wider range of glycan structures , GLYCOBIOLOGY, 28( 12), 1077- 1078, Dec. 2018,
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| 59 | The GlyCosmos Web Portal: glycan structures, glycogenes, glycoproteins, pathways, diseases and more! , GLYCOBIOLOGY, 28( 12), 1070- 1071, Dec. 2018,
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| 60 | GlycoNAVI: - GlycoAbun - Abundance Ratio of Glycans , GLYCOBIOLOGY, 28( 12), 1067- , Dec. 2018,
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| 65 | Integration of Glycoscience Data in GlyCosmos Using Semantic Web Technologies , GLYCOBIOLOGY, 27( 12), 1206- , Dec. 2017,
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| 70 | The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data. , Glycobiology, 27( 4), 280- 284, Apr. 2017, https://doi.org/10.1093/glycob/cww118 |
| 71 |
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| 72 | Semantic Web Technologies for Integrating Glycan-related Databases in GlyTouCan , GLYCOBIOLOGY, 26( 12), 1454- 1455, Dec. 2016,
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| 73 |
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| 74 | The minimum information required for a glycomics experiment (MIRAGE) project: sample preparation guidelines for reliable reporting of glycomics datasets , GLYCOBIOLOGY, 26( 9), 907- 910, Sep. 2016, https://doi.org/10.1093/glycob/cww082 |
| 75 | Comprehensive analysis of the N-glycan biosynthetic pathway using bioinformatics to generate UniCorn: A theoretical N-glycan structure database , CARBOHYDRATE RESEARCH, 431, 56- 63, Aug. 2016, https://doi.org/10.1016/j.carres.2016.05.012 |
| 76 | A systematic framework to derive N-glycan biosynthesis process and the automated construction of glycosylation networks , BMC BIOINFORMATICS, 17, 240- , Jul. 2016, https://doi.org/10.1186/s12859-016-1094-6 |
| 77 | GlyTouCan international glycan structure repository using semantic web technologies , ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 251, , Mar. 13, 2016,
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| 79 |
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| 81 | The Official Release of the International Glycan Structure Repository , GLYCOBIOLOGY, 25( 11), 1279- 1280, Nov. 2015, |
| 82 | A substructure search method for carbohydrate structures based on the WURCS notation using Semantic Web technology , GLYCOBIOLOGY, 25( 11), 1276- 1276, Nov. 2015, |
| 83 | Phenotype-based clustering of glycosylation-related genes by RNAi-mediated gene silencing , GENES TO CELLS, 20( 6), 521- 542, Jun. 2015, https://doi.org/10.1111/gtc.12246 |
| 84 | On using physico-chemical properties of amino acids in string kernels for protein classification via support vector machines , JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY, 28( 2), 504- 516, Apr. 2015, https://doi.org/10.1007/s11424-015-2156-y |
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| 90 | A multiple linear regression model for structure of n-linked oligosaccharides , IET Conference Publications, 2015( 673), 151- 157, 2015,
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| 91 |
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| 92 | Potential for using lectin sugar chains as diagnostic markers in oral precancerous lesions , GLYCOBIOLOGY, 24( 11), 1214- 1215, Nov. 2014, |
| 93 | Next JCGGDB Plan for Semantic Web , GLYCOBIOLOGY, 24( 11), 1166- 1167, Nov. 2014, |
| 94 | Development of an International Glycan Structure Repository , GLYCOBIOLOGY, 24( 11), 1106- 1106, Nov. 2014, |
| 95 | Comprehensive analysis of the N-glycan biosynthetic pathway using bioinformatics , GLYCOBIOLOGY, 24( 11), 1163- 1163, Nov. 2014, |
| 96 | UniCarbKB: a glycobioinformatics infrastructure for data discovery using semantics , GLYCOBIOLOGY, 24( 11), 1168- 1168, Nov. 2014, |
| 97 | WURCS: Web3 Unique Representation of Carbohydrate Structures for Semantic Web , GLYCOBIOLOGY, 24( 11), 1163- 1163, Nov. 2014, |
| 98 |
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| 100 | WURCS: The Web3 Unique Representation of Carbohydrate Structures , JOURNAL OF CHEMICAL INFORMATION AND MODELING, 54( 6), 1558- 1566, Jun. 2014, https://doi.org/10.1021/ci400571e |
| 101 |
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| 103 | Chemical compound complexity in biological pathways , Quantitative Graph Theory: Mathematical Foundations and Applications, , 471- 492, Jan. 1, 2014, https://doi.org/10.1201/b17645 |
| 104 |
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| 105 |
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| 106 | BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains. , Journal of Biomedical Semantics, 5, , 2014, https://doi.org/10.1186/2041-1480-5-5 |
| 107 |
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| 108 | The GlycomeAtlas tool to aid in the visualization of glycan structure expression in human and mouse , GLYCOBIOLOGY, 23( 11), 1358- 1359, Nov. 2013, |
| 109 |
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| 111 | The Third ACGG-DB Meeting Report: Towards an international collaborative infrastructure for glycobioinformatics , GLYCOBIOLOGY, 23( 2), 144- 146, Feb. 2013, https://doi.org/10.1093/glycob/cws167 |
| 112 | A Web tool for visualizing common patterns among glycans , Glycobiology, 23( 11), 1359- , 2013, |
| 113 |
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| 115 |
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| 116 | Multiple Tree Alignment with Weights Applied to Carbohydrates to Extract Binding Recognition Patterns , PATTERN RECOGNITION IN BIOINFORMATICS, 7632, 49- 58, 2012,
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| 117 |
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| 118 | The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications. , Journal of biomedical semantics, 2, 4- 4, Aug. 2, 2011, https://doi.org/10.1186/2041-1480-2-4 |
| 119 |
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| 120 |
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| 121 | The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. , Journal of biomedical semantics, 1( 1), 1- 19, Dec. 2010,
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| 122 | Experimental Data Management System for Practical Data Mining of Glycan Structures , GLYCOBIOLOGY, 20( 11), 1469- 1469, Nov. 2010, |
| 123 | The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*. , Journal of biomedical semantics, 1( 1), 8- 8, Aug. 21, 2010, https://doi.org/10.1186/2041-1480-1-8 |
| 124 | The RINGS Resource for Glycome Informatics Analysis and Data Mining on the Web , OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, 14( 4), 475- 486, Aug. 2010, https://doi.org/10.1089/omi.2009.0129 |
| 125 |
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| 126 | Support Vector Machine methods for the prediction of cancer growth , 3rd International Joint Conference on Computational Sciences and Optimization, CSO 2010: Theoretical Development and Engineering Practice, 1, 229- 232, 2010, https://doi.org/10.1109/CSO.2010.70 |
| 127 | Delay Discrete Dynamical Models for Genetic Regulatory Networks , COMPUTATIONAL SYSTEMS BIOLOGY, 13, 93- +, 2010,
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| 128 | Bioinformatics Analysis of Glycan Structures from a Genomic Perspective , Bioinformatics for Glycobiology and Glycomics: An Introduction, , 125- 141, Nov. 13, 2009, https://doi.org/10.1002/9780470029619.ch7 |
| 129 |
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| 130 | The RINGS Resource for Glycome Analysis , GLYCOBIOLOGY, 18( 11), 972- 972, Nov. 2008, |
| 131 |
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| 133 | Frontiers in glycomics: Bioinformatics and biomarkers in disease - An NIH White Paper prepared from discussions by the focus groups at a workshop on the NIH campus, Bethesda MD (September 11-13,2006) , PROTEOMICS, 8( 1), 8- 20, Jan. 2008, https://doi.org/10.1002/pmic.200700917 |
| 134 | An efficient unordered tree kernel and its application to glycan classification , ADVANCES IN KNOWLEDGE DISCOVERY AND DATA MINING, PROCEEDINGS, 5012, 184- +, 2008,
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| 135 |
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| 136 | Bioinformatics approaches in glycomics and drug discovery , CURRENT OPINION IN MOLECULAR THERAPEUTICS, 8( 6), 514- 520, Dec. 2006, |
| 137 | RINGS: Resource for Informatics of Glycans at Soka , GLYCOBIOLOGY, 16( 11), 1136- 1136, Nov. 2006,
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| 142 | A 6-approximation algorithm for computing smallest common AoN-supertree with application to the reconstruction of glycan trees , ALGORITHMS AND COMPUTATION, PROCEEDINGS, 4288, 100- 110, 2006,
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| 143 | A gram distribution kernel applied to glycan classification and motif extraction. , Genome informatics. International Conference on Genome Informatics, 17( 2), 25- 34, 2006, https://doi.org/10.11234/gi1990.17.2_25 |
| 144 |
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| 145 | A probabilistic model for mining labeled ordered trees: Capturing patterns in carbohydrate sugar chains , IEEE Transactions on Knowledge and Data Engineering, 17( 8), 1051- 1064, Aug. 2005, https://doi.org/10.1109/TKDE.2005.117 |
| 146 | A global representation of the carbohydrate structures: a tool for the analysis of glycan. , Genome informatics. International Conference on Genome Informatics, 16( 1), 214- 222, 2005, https://doi.org/10.11234/gi1990.16.214 |
| MISC |
| No. | Title URL, Journal, Vol( Number), From Page- To Page, Publication date
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| 1 | LM-GlycoRepo Ver.1.0: a novel repository system for lectin microarray-based mouse tissue glycome mapping data , 日本糖質学会年会要旨集, 43rd, , 2024
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| 2 | Development of MicroGlycoCurator: a Curation System for Microbial Glycan-Related Information , 日本糖質学会年会要旨集, 42nd, , 2023
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| 3 | Development of a new glycan-related pathway repository: GlycoPathwayRepo , 日本糖質学会年会要旨集, 42nd, , 2023
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| 4 | A new method for diagnosis and predicting X-linked recessive brachytelephalangic chondrodysplasia punctata: Computational analysis and identification of novel missense mutation , 日本分子生物学会年会プログラム・要旨集(Web), 45th, , 2022
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| 5 | Genes to diagnosis and therapy in glycogenomics disorders: The example of GDP-fucose transporter deficiency, a rare disease , 日本分子生物学会年会プログラム・要旨集(Web), 45th, , 2022
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| 6 | Comprehensive extraction and analysis of the whole human glycan-related gene variant , 日本糖質学会年会要旨集, 40th, , 2021
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| 7 | Glycoscience portal GlyCosmos 2021 , 日本糖質学会年会要旨集, 40th, , 2021
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| 8 | Glycan-related omics data integrated in the GlyCosmos Glycoscience Portal , 日本分子生物学会年会プログラム・要旨集(Web), 44th, , 2021
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| 9 | A user’s guide to ”GlyCosmos”-what can we learn about glycans? , 実験医学, 39( 3), , 2021
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| 10 | The GlyCosmos portal as a partner in the GlySpace Alliance to provide access to integrated glycan-related data resources , GLYCOBIOLOGY, 30( 12), 1023- 1023, Dec. 2020
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| 11 | World-wide integration of glycome informatics , 生化学, 92( 3), , 2020
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| 12 | Notation for identification of glycans contained in glycoproteins, glycolipids, and other biomolecular structure data , ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 258, , Aug. 2019
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| 13 | Glycoscience: Basic science to applications: Insights from the Japan consortium for glycobiology and glycotechnology (JCGG) , Glycoscience: Basic Science to Applications: Insights from the Japan Consortium for Glycobiology and Glycotechnology (JCGG), , 1- 405, Jan. 1, 2019
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| 14 | 糖鎖関連生命情報を統合化するGlyCosmos Portalの構築 , 日本分子生物学会年会プログラム・要旨集(Web), 41st, ROMBUNNO.1PW2‐09‐2 (WEB ONLY)- , 2018
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| 15 | 糖鎖科学ポータルGlyCosmosを通した国際的なライフサイエンスデータベースの統合化を目指して , 日本糖質学会年会要旨集, 37th, 98- , 2018
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| 16 | 糖鎖科学ポータル‐糖鎖化学構造によるライフサイエンスデータベースの統合化 , 日本糖質学会年会要旨集, 37th, 99- , 2018
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| 17 | 糖鎖科学ポータルの基盤となる糖鎖表記法の開発とデータベース連携 , ケモインフォマティクス討論会予稿集(Web), 40th, ROMBUNNO.O2(J‐STAGE)- , 2017 |
| 18 | Development of a tool for extracting common glycan patterns recognized by avian influenza A virus. , GLYCOBIOLOGY, 26( 12), 1459- 1459, Dec. 2016
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| 19 | JCGGDBのセマンティックウェブ化に伴う検索の高機能化と新しいグライコフォームのデータベース , 日本糖質学会年会要旨集, 35th, 168- , 2016 |
| 20 | 国際糖鎖構造リポジトリGlyTouCanの新バージョンToco , 日本糖質学会年会要旨集, 35th, 72‐73- , 2016 |
| 21 | Construction of Glycoform Database and the RDFized data for Semantic Web , 日本プロテオーム学会大会プログラム・抄録集, 2015 (Web), , 2015
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| 22 | GlycanBuilderにおけるWURCS変換ツールの実装 , 日本糖質学会年会要旨集, 34th, 200- , 2015 |
| 23 | グライコフォームのデータベースとセマンティックウェブ化 , 日本糖質学会年会要旨集, 34th, 208- , 2015 |
| 24 | Development of Web3 Unique Representation of Carbohydrate Structures , Symposium on Chemical Information and Computer Sciences, 37th( 0), O10- O10, 2014
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| 25 | 国際糖鎖構造リポジトリの開発 , 日本糖質学会年会要旨集, 33rd, 83- , 2014 |
| 26 | GlycoRDF:糖鎖オントロジーによる糖鎖関連データのRDF化 , 日本糖質学会年会要旨集, 33rd, 158- , 2014 |
| 27 | Development of JCGGDB and an International Glycan Structure Repository , 日本プロテオーム学会大会プログラム・抄録集, 2014 (Web)( 0), 27- 27, 2014
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| 28 | 糖鎖アレイデータベースから抽出されたインフルエンザウイルス感染を増強する糖鎖構造 , 日本ウイルス学会学術集会プログラム・抄録集, 61st, 239- , 2013
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| 29 | 糖鎖データの標準化に向けた試み , 日本糖質学会年会要旨集, 31st, 87- , 2012 |
| 30 | A Spectrum Tree Kernel , IMT, 2( 1), 292- 299, 2007
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| 31 | A profile HMM for tree structures to locate glycan structure profiles , GLYCOBIOLOGY, 15( 11), 1187- 1188, Nov. 2005
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| 32 | Prediction of glycan structures by combining DNA expression and mass data , GLYCOBIOLOGY, 15( 11), 1206- 1206, Nov. 2005
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| 33 | Application of a probabilistic tree model for determining profiles in glycan tree structures , IPSJ SIG technical reports, 2005( 99), 1- 8, Oct. 7, 2005 |
| 34 | Applied physics in bioinformatics , 応用物理, 74( 12), , 2005
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