| 2025.04.29 |
Identification and characterization of a novel haemolytic and haemagglutinating bifunctional lectin from the coral Acropora millepora.
Takahashi Y, Kamimura R, Toyama R, Kita S, Ushijima Y, Taniyama S, Unno H, Hatakeyama T, Goda S. J Biochem. 2025;177(5):375-386. doi:10.1093/jb/mval010. PMID:39969171. |
| 2025.03.01 |
VarMeter2: An enhanced structure-based method for predicting pathogenic missense variants through Mahalanobis distance.
Ohno S, Ogura C, Yabuki A, Itoh K, Manabe N, Angata K, Togayachi A, Aoki-Kinoshita KF, Furukawa J-i, Inamori K-i, Inokuchi J-i, Kaname T, Nishihara S, Yamaguchi Y. Comput Struct Biotechnol J. 2025 Mar 1;27:1034-1047. doi:10.1016/j.csbj.2025.02.008. PMID:40160862. PMCID:PMC11952791. |
| 2025.02.24 |
Leveraging Stable-Diffusion Generated Images to Enhance Vision Transformers for Plant Disease Classification.
Mormille LH, Salama I, Atsumi M. Proc SPIE 13517 (Seventeenth International Conference on Machine Vision, ICMV 2024). 135170Y. doi:10.1117/12.3056609. |
| 2025.02.24 |
Domain-Specific Vision Transformer Pre-Training with Synthetic Data.
Mormille LH, Salama I, Atsumi M. ICAAI '24: Proceedings of the 2024 8th International Conference on Advances in Artificial Intelligence. pp.322-326. doi:10.1145/3704137.3704168. |
| 2025.01.08 |
Expanding the concept of ID conversion in TogoID by introducing multi-semantic and label features.
Ikeda S, Aoki-Kinoshita KF, Chiba H, Goto S, Hosoda M, Kawashima S, Kim JD, Moriya Y, Ohta T, Ono H, Takatsuki T. J Biomed Semantics. 2025 Jan 8;16(1):1. doi:10.1186/s13326-024-00322-1. PMID:39780290. PMCID:PMC11708180. |
| 2025.01.07 |
Serum O-glycosylated HBsAg levels correlate with HBV RNA in HBeAg positive CHB patients during antiviral therapy.
Yao B, Xu Q, Yamada Y, Angata K, Zhang Y, Narimatsu H, Yu D, Zhang X. Antiviral Res. 2025 Feb;234:106077. doi:10.1016/j.antiviral.2025.106077. PMID:39788207. |
| 2025.01 |
On Modeling Agent Behavior Change Through Multi-Typed Information Diffusion in Online Social Networks.
Miyashita M, Shinomiya N, Kasamatsu D, Ishigaki G. IEEE Access. 2025 Jan;13:8709-8722. doi:10.1109/ACCESS.2025.3528129. |
| 2024.11.30 |
MicroGlycoDB: A database of microbial glycans using Semantic Web technologies.
Lee S, Leclercq LD, Guerardel Y, Szymanski CM, Hurtaux T, Doering TL, Katayama T, Fujita K, Aoki K, Aoki-Kinoshita KF. BBA Adv. 2024 Nov 30;6:100126. doi:10.1016/j.bbadva.2024.100126. PMID:39720162. PMCID:PMC11667048. |
| 2024.11.29 |
Cooperation of GlycoPOST and UniCarbDR towards a comprehensive glycomics data repository workflow.
Takahashi Y, Karlsson NG, Okuda S, Aoki-Kinoshita KF. Anal Bioanal Chem. 2025 Feb;417(5):1015-1023. doi:10.1007/s00216-024-05673-3. PMID:39611991. PMCID:PMC11782440. |
| 2024.11.19 |
Updates implemented in version 4 of the GlyCosmos Glycoscience Portal.
Lee S, Ono T, Masaaki S, Fujita A, Matsubara M, Zappa A, Yamada I, Aoki-Kinoshita KF. Anal Bioanal Chem. 2025 Feb;417(5):907-919. doi:10.1007/s00216-024-05692-0. PMID:39690313. PMCID:PMC11782317. |
| 2024.09.30 |
The Human Glycome Atlas project for cataloging all glycan-related omics data in human.
Aoki-Kinoshita KF, Akune-Taylor Y, Ando H, Angata K, Fujita M, Furukawa J-i, Kaji H, et al. Glycobiology. 2024 Sep 30;34(11):cwae052. doi:10.1093/glycob/cwae052. PMID:39058648. PMCID:PMC11729707. |
| 2024.08.17 |
Toward integration of glycan chemical databases: an algorithm and software tool for extracting sugars from chemical structures.
Matsubara M, Bolton EE, Aoki-Kinoshita KF, Yamada I. Anal Bioanal Chem. 2025 Feb;415(5):945-956. doi:10.1007/s00216-024-05508-1. PMID:39212696. PMCID:PMC11782307. |
| 2024.08.16 |
Impact of preS1 evaluation in the management of chronic hepatitis B virus infection.
Hayashi Y, Tajiri K, Ozawa T, Angata K, Sato T, Togayachi A, Nagashima I, Shimizu H, Murayama A, Muraishi N, Narimatsu H, Yasuda I. Medicina (Kaunas). 2024 Aug 16;60(8):1334. doi:10.3390/medicina60081334. PMID:39202615. PMCID:PMC11356368. |
| 2024.08.13 |
Functional implications of glycans and their curation: insights from the workshop at the 16th International Biocuration Conference in Padua, Italy.
Martinez K, Agirre J, Akune Y, Aoki-Kinoshita KF, Arighi C, Axelsen KB, Bolton EE, Bordeleau E, Edwards NJ, Fadda E, Feizi T. Database (Oxford). 2024 Aug 13;2024:baae073. doi:10.1093/database/baae073. PMID:39137905. PMCID:PMC11321244. |
| 2024.07.31 |
Functional evaluation of novel variants of B4GALNT1 in a patient with hereditary spastic paraplegia and the general population.
Inamori K-i, Nakamura K, Shishido F, Hsu J-C, Nagafuku M, Nitta T, Ikeda J, Yoshimura H, Kodaira M, Tsuchida N, Matsumoto N, Uemura S, Ohno S, Manabe N, Yamaguchi Y, Togayachi A, Aoki-Kinoshita KF, Nishihara S, Furukawa J-i, Kaname T, Nakamura M, Shimohata T, Tadaka S, Shirota M, Kinoshita K, Nakamura Y, Ohno I, Sekijima Y, Inokuchi J-i. Front Neurosci. 2024 Jul 31;18:1437668. doi:10.3389/fnins.2024.1437668. PMID:39145292. PMCID:PMC11322347. |
| 2024.07.09 |
Stem cell therapy using bone marrow-derived Muse cells repairs radiation-induced intestinal injury through their intestine-homing via sphingosine monophosphate-sphingosine monophosphate receptor 2 interaction.
Miura T, Kado J, Takiyama H, Kawano M, Yamagiri A, Nishihara S, Yamada S, Nakayama F. Adv Radiat Oncol. 2024 Jul 9;9(9):101565. doi:10.1016/j.adro.2024.101565. PMID:39188997. PMCID:PMC11345296. |
| 2024.05.28 |
In silico simulation of glycosylation and related pathways.
Akune-Taylor Y, Kon A, Aoki-Kinoshita KF. Anal Bioanal Chem. 2024 Jul;416(16):3687-3696. doi:10.1007/s00216-024-05331-8. PMID:38748247. PMCID:PMC11180631. |
| 2024.05.23 |
What comes next in glycobiology.
Seeberger PH, Ge Y, Szymanski CM, Kolarich D, Thaysen-Andersen M, Packer NH, Fadda E, Davis B, Nishihara S, Rabinovich GA, Kwong PD, Strasser R. Cell. 2024 May 23;187(11):2628-2632. doi:10.1016/j.cell.2024.04.028. PMID:38788686.
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2024.03.26
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Large-scale animal model study uncovers altered brain pH and lactate levels as a transdiagnostic endophenotype of neuropsychiatric disorders involving cognitive impairment.
Hagihara H, Shoji H, Hattori S, Sala G, Takamiya Y, Tanaka M, Ihara M, Shibutani M, Hatada I, Hori K, Hoshino M, Nakao A, Mori Y, Okabe S, Matsushita M, Urbach A, Katayama Y, Matsumoto A, Nakayama KI, Katori S, Sato T, Iwasato T, Nakamura H, Goshima Y, Raveau M, Tatsukawa T, Yamakawa K, Takahashi N, Kasai H, Inazawa J, Nobuhisa I, Kagawa T, Taga T, Darwish M, Nishizono H, Takao K, Sapkota K, Nakazawa K, Takagi T, Fujisawa H, Sugimura Y, Yamanishi K, Rajagopal L, Hannah ND, Meltzer HY, Yamamoto T, Wakatsuki S, Araki T, Tabuchi K, Numakawa T, Kunugi H, Huang FL, Hayata-Takano A, Hashimoto H, Tamada K, Takumi T, Kasahara T, Kato T, Graef IA, Crabtree GR, Asaoka N, Hatakama H, Kaneko S, Kohno T, Hattori M, Hoshiba Y, Miyake R, Obi-Nagata K, Hayashi-Takagi A, Becker LJ, Yalcin I, Hagino Y, Kotajima-Murakami H, Moriya Y, Ikeda K, Kim H, Kaang B, Otabi H, Yoshida Y, Toyoda A, Komiyama NH, Grant SGN, Ida-Eto M, Narita M, Matsumoto K, Okuda-Ashitaka E, Ohmori I, Shimada T, Yamagata K, Ageta H, Tsuchida K, Inokuchi K, Sassa T, Kihara A, Fukasawa M, Usuda N, Katano T, Tanaka T, Yoshihara Y, Igarashi M, Hayashi T, Ishikawa K, Yamamoto S, Nishimura N, Nakada K, Hirotsune S, Egawa K, Higashisaka K, Tsutsumi Y, Nishihara S, Sugo N, Yagi T, Ueno N, Yamamoto T, Kubo Y, Ohashi R, Shiina N, Shimizu K, Higo-Yamamoto S, Oishi K, Mori H, Furuse T, Tamura M, Shirakawa H, Sato DX, Inoue YU, Inoue T, Komine Y, Yamamori T, Sakimura K, Miyakawa T. Elife. 2024 Mar 26;12:RP89376. doi: 10.7554/eLife.89376. PMID: 38529532.
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2024.02.21
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Restoration of injured motoneurons reduces microglial proliferation in the adult rat facial nucleus.
Ishijima T, Nakajima K. J Neuropathol Exp Neurol. 2024 Feb 21;83(3):168-180. doi: 10.1093/jnen/nlad116.
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2024.02.02
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Chondroitin sulfate modification of CSPG4 regulates the maintenance and differentiation of glioma initiating cells via integrin-associated signaling.
Niibori-Nambu A, Yamasaki Y, Kobayashi D, Angata K, Kuno A, Panawan O, Silsilivanit A, Narimatsu H, Araki N. Journal of Biological Chemistry. 2024 Mar;300(3):105706. doi: 10.1016/j.jbc.2024.105706. Epub 2024 Feb 2. PMID: 38309500 ; PMCID: PMC10958118.
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| 2024.02.02 |
Improving quality of service and HTTPS DDoS detection in MEC environment with a cyber deception-based architecture.
Kabdjou J, Shinomiya N. IEEE Access. vol.12, pp.23490-23503, 2024. doi: 10.1109/ACCESS.2024.3361476.
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| 2024.01.16 |
GlyComb: a novel glycoconjugate data repository that bridges glycomics and proteomics.
Takahashi Y, Shiota M, Fujita A, Yamada I, Aoki-Kinoshita KF. J Biol Chem. 2024 Feb;300(2):105624. doi:10.1016/j.jbc.2023.105624. PMID:38176651. PMCID:PMC10850976. |
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2024.01.04
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An N-glycome tissue atlas of 15 human normal and cancer tissue types determined by MALDI-imaging mass spectrometry.
Wallace EN, West CA, McDowell CT, Lu X, Bruner E, Mehta AS, Aoki-Kinoshita KF, Angel PM, Drake RR. Sci Rep. 2024 Jan 4;14(1):489. doi: 10.1038/s41598-023-50957-w. PMID: 38177192; PMCID: PMC10766640.
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2024.01.03
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GlyComb: A novel glycoconjugate data repository that bridges glycomics and proteomics.
Takahashi Y, Shiota M, Fujita A, Yamada I, Aoki-Kinoshita KF. J Biol Chem. 2024 Feb;300(2):105624. doi: 10.1016/j.jbc.2023.105624. Epub 2024 Jan 3. PMID: 38176651; PMCID: PMC10850976.
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2023.12.28
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Mesomorphic, magnetic and DFT studies of biphenyl-based molecule with various substituted anilines.
Iskandar NAJTN, Yeap GY, Yusop N, Ibrahim NB, Kikuchi K, Fukaya R, Kaneko K, Shimizu A, Maeta N, Ito MM. Liquid Crystals. 2023 Dec;51(8):1-11. doi: 10.1080/02678292.2023.2294958.
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2023.12.25
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Single-cell Glycogenomics Deciphers Links Between Altered Transcriptional Regulation and Aberrant Glycosylation in Alzheimer's Disease.
Matsui Y, Togayachi A, Sakamoto K, Angata K, Kadomatsu K, Nishihara S. bioRxiv. doi: https://doi.org/10.1101/2023.12.25.573290.
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2023.10.29
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Predicting the pathogenicity of missense variants based on protein instability to support diagnosis of patients with novel variants of ARSL.
Aoki E, Manabe N, Ohno S, Aoki T, Furukawa JI, Togayachi A, Aoki-Kinoshita K, Inokuchi JI, Kurosawa K, Kaname T, Yamaguchi Y, Nishihara S. Mol Genet Metab Rep. 2023 Oct 29;37:101016. doi: 10.1016/j.ymgmr.2023.101016. eCollection 2023 Dec. PMID: 38053926.
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2023.10.04
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Synthesis and mesomorphic properties of bent liquid crystals containing triazole mesogenic unit with terminal flexible alkyl chain and laterally ethoxy substituted Schiff base.
Ismail SN, Yeap GY, Alshargabi A, Cherin S, Ito MM, Kikuchi K, Fukaya R, Kaneko K, Shimizu A. Liquid Crystals. doi: 10.1080/02678292.2023.2259849.
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2023.09.06
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Development of an integrated and inferenceable RDF database of glycan, pathogen and disease resources.
Arakawa K, Ono T, Aoki-Kinoshita KF, Yamamoto Y. Sci Data. 2023 Sep 6;10(1):582. doi: 10.1038/s41597-023-02442-2. PMID: 37673902; PMCID: PMC10482848.
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2023.09.04
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Population-level immunity for transient suppression of COVID-19 waves in Japan from April 2021 to September 2022.
Kodera S, Ueta H, Unemi T, Nakata T, Hirata A. Vaccines. 2023 Sep 4;11(9):1457. doi: 10.3390/vaccines11091457. PMID: 37766133; PMCID: PMC10537865.
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2023.08.11
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Mechanisms of microglia proliferation in a rat model of facial nerve anatomy.
Ishijima T, Nakajima K. Biology (Basel). 2023 Aug 11;12(8):1121. doi: 10.3390/biology12081121.
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2023.07.20
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A Peer-to-peer energy trading model for optimizing both efficiency and fairness.
Kusatake E, Imahori M, Shinomiya N. Energies. 2023;16:5501. doi: 10.3390/en16145501.
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2023.07.18
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Switching mechanism from AR to EGFR signaling via 3-O-sulfated heparan sulfate in castration-resistant prostate cancer.
Ota H, Sato H, Mizumoto S, Wakai K, Yoneda K, Yamamoto K, Nakanishi H, Ikeda JI, Sakamoto S, Ichikawa T, Yamada S, Takahashi S, Ikehara Y, Nishihara S. Sci Rep. 2023 Jul 18;13(1):11618. doi: 10.1038/s41598-023-38746-x. PMID: 374639542.
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| 2023.07.05 |
Synthesis and molecular structure of V-shaped liquid crystalline compounds: Spectroscopic, mesomorphic, DFT investigations, electrochemical and fluorescence studies.
Salwadi NFL, Ooi CC, Yeap GY, Suah FBM, Cherin S, Ito MM, Kikuchi K, Fukaya R, Kaneko K, Shimizu A. Journal of Molecular Structure. 2023; 1283: 135304. https://doi.org/10.1016/j.molstruc.2023.135304. |
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2023.06.21
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Bridging glycoinformatics and cheminformatics: integration efforts between GlyCosmos and PubChem.
Cheng T, Ono T, Shiota M, Yamada I, Aoki-Kinoshita KF, Bolton EE. Glycobiology. 2023 Jun 21;33(6):454-463. doi: 10.1093/glycob/cwad028. PMID: 37129482; PMCID: PMC10284107.
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2023.06.03
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LMNglyPred: prediction of human N-linked glycosylation sites using embeddings from a pre-trained protein language model.
Pakhrin SC, Pokharel S, Aoki-Kinoshita KF, Beck MR, Dam TK, Caragea D, Kc DB. Glycobiology. 2023 Jun 3;33(5):411-422. doi: 10.1093/glycob/cwad033. PMID: 37067908.
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| 2023.06 |
Time-resolved small-angle X-ray scattering of protein cage assembly.
Sato D, Hikima T, Ikeguchi M. Methods Mol. Biol. 2023;2671:211-218. doi: 10.1007/978-1-0716-3222-2_12. PMID: 37308647.
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| 2023.05.01 |
Maximizing External Action with Information Provision Over Multiple Rounds in Online Social Networks
Miyashita M, Shinomiya N, Kasamatsu D, Ishigaki G. IEICE Transactions on Information and Systems. 2023 May ( Accepted, To be published); E106-D(5): 847-855. |
| 2023.01.25 |
Simultaneous determination of heparan sulfate, chondroitin/dermatan sulfates, and hyaluronan glycosaminoglycan disaccharides by high-performance liquid chromatography using a reverse-phase column with adamantyl groups
Hanamatsu H, Makino S, Ohara M, Suda G, Yokota I, Nishihara S, Sakamoto N, Furukawa JI. J Chromatogr A. 2023 Jan 25; 1689: 463748. doi: 10.1016/j.chroma.2022.463748. PMID: 36586283. |
| 2023.01.18 |
A Method for Reducing the Instability of Negawatts Considering Changes in the Behavior of Consumers
Takai K, Tamura Y, Shinomiya N. Energies 16. 2023; 3: 1072. doi: 10.3390/en16031072. (IF:3.252,CiteScore:5.0) |
| 2023.01.13 |
Construction of mouse cochlin mutants with different GAG-binding specificities and their use for immunohistochemistry.
Murakami K, Tamura R, Ikehara S, Ota H, Ichimiya T, Matsumoto N, Matsubara H, Nishihara S, Ikehara Y, Yamamoto K. Biochem J. 2023 Jan 13;480(1):41-56. doi: 10.1042/BCJ20220339. PMID: 36511224; PMCID: PMC9987951. |
| 2023.01.05 |
Introducing Inductive Bias on Vision Transformers through Gram Matrix Similarity based Regularization.
Mormille LH, Broni-Bediako C, Atsumi M. Artifi cial Life and Robotics. 2023; 28(1):106-116. |
| 2022.12.27 |
Length-Based Curriculum Learning for Efficient Pre-training of Language Models.
Nagatsuka, K., Broni-Bediako, C. & Atsumi, M. New Generation Computing. 2023 (to appear); 41(1). |
| 2022.12.02 |
Worldwide Glycoscience Informatics Infrastructure: The GlySpace Alliance
Lisacek F, Tiemeyer M, Mazumder R, Aoki-Kinoshita KF. JACS Au. 2022 Dec 2; 3(1): 4-12. doi: 10.1021/jacsau.2c00477.PMID: 36711080; PMCID: PMC9875223. |
| 2022.12 |
新型うつ傾向とネット依存・デジタル認知症傾向との関連の縦断分析
坂部創一，山崎秀夫. 環境情報科学学術研究論文集．36: 167-172． |
| 2022.12 |
Changes of signaling molecules in the axotomized rat facial nucleus.
Ishijima T, Nakajima K. J Chem Neuroanat. 2022 Dec; 126: 102179（ 12 pages）. doi: 10.1016/j.jchemneu.2022.102179. PMID: 36341893. |
| 2022.09.27 |
Morphological difference of Escherichia coli non-heme ferritin iron cores reconstituted in the presence and absence of inorganic phosphate.
Kuwata T, Sato D, Yanagida Y, Aoki E, Fujiwara K, Yoshimura H, Ikeguchi M. J Biol Inorg Chem. 2022 Sep; 27(6): 583-594. doi: 10.1007/s00775-022-01952-5.PMID: 35986810. |
| 2022.09.27 |
Non-linear disulphide-centred S-shaped oligomers with inner and outer spacers connected by aromatic azo moieties.
Yap PW, Osman F, Yeap GY, Nakamura Y, Kaneko K, Shimizu A, Ito MM. Liquid Crystals. 2023; 50(3): 379-392. https://doi.org/10.1080/02678292.2022.2127161. |
| 2022.09.14 |
Meeting report on the international symposium on microbial Glycoconjugates and the GlySpace alliance: from micro- to macroglycoscience (MiGGA symposium)
Hosoda M, Aoki K, Guerardel Y, Yamada I, Aoki-Kinoshita KF. Glycobiology. 2022 Nov 22; 32(12): 1066-1067. doi: 10.1093/glycob/cwac062. PMID: 36103332. |
| 2022.08.25 |
糖鎖遺伝子発現情報からの糖鎖構造推定ツールGlycoMapleの開発
細田正恵，木下聖子，藤田盛久. Journal of Japanese Biochemical Society. 2022; 94（4）: 623-628. |
| 2022.08 |
Cortical nicotinic enhancement of tone-evoked heightened activities and subcortical nicotinic enlargement of activated areas in mouse auditory cortex.
Nakanishi M, Nemoto M, Kawai HD. Neuroscience Research. 2022 Aug; 181: 55-65. doi: 10.1016/j.neures.2022.04.001. PMID: 35381300. |
| 2022.07.28 |
Involvement of cochlin binding to sulfated heparan sulfate/heparin in the pathophysiology of autosomal dominant late-onset hearing loss (DFNA9)
Honda T, Kawasaki N, Yanagihara R, Tamura R, Murakami K, Ichimiya T, Matsumoto N, Nishihara S, Yamamoto K. PLoS One. 2022 Jul 28;17(7):e0268485. doi:10.1371/journal.pone.0268485. PMID: 35901072; PMCID: PMC9333281. |
| 2022.07.28 |
Regularizing self-attention on vision transformers with 2D spatial distance loss.
Mormille, L.H., Broni-Bediako, C. & Atsumi, M. Artificial Life and Robotics. 2022; 27(3):586-593. |
| 2022.07.02 |
Turkeys possess diverse Siaα2-3Gal glycans that facilitate their dual susceptibility to avian influenza viruses isolated from ducks and chickens.
Kobayashi D, Hiono T, Ichii O, Nishihara S, Takase-Yoden S, Yamamoto K, Kawashima H, Isoda N, Sakoda Y. Virus Res. 2022 Jul 2; 315: 198771. doi:10.1016/j.virusres.2022.198771. PMID: 35429616. |
| 2022.06.29 |
Events Occurring in the Axotomized Facial Nucleus.
Nakajima K, Ishijima T. Cells. 2022 Jun 29; 11(13): 2068(30 pages). doi: 10.3390/cells11132068. PMID: 35805151; PMCID: PMC9266054. |
| 2022.06.26 |
Fut9 Deficiency Causes Abnormal Neural Development in the Mouse Cerebral Cortex and Retina.
Abdullah A, Hayashi Y, Morimura N, Kumar A, Ikenaka K, Togayachi A, Narimatsu H, Hitoshi S. Neurochem Res. 2022 Sep; 47(9): 2793-2804. doi: 10.1007/s11064-022-03651-8. PMID: 35753011. |
| 2022.06.23 |
Glycoproteomics.
Bagdonaite I, Malaker SA, Polasky DA, Riley NM, Schjoldager K, Vakhrushev SY, Halim A, Aoki-
Kinoshita KF, Nesvizhskii AI, Bertozzi CR, Wandall HH, Parker BL, Thaysen-Andersen M, Scott NE. Nat Rev Methods Primers. 2022; 2: 1-29. PMID: 35696078. |
| 2022.06.14 |
Functions of Glycosylation and Related Web Resources for Its Prediction.
Aoki-Kinoshita KF. Methods in molecular biology （Clifton, N.J.）. 2022; 2499: 135-144. doi: 10.1007/978-1-0716-2317-6_6.PMID: 35696078. |
| 2022.06.13 |
CarbArrayART: a new software tool for carbohydrate microarray data storage, processing, presentation, and reporting.
Akune Y, Arpinar S, Silva LM, Palma AS, Tajadura-Ortega, V, Aoki-Kinoshita KF, Ranzinger R, Liu Y, Feizi T. Glycobiology. 2022 Jun 13; 32(7): 552-555. doi: 10.1093/glycob/cwac018. PMID: 35352122; PMCID: PMC9191619. |
| 2022.05.23 |
Disaccharide-tag for highly sensitive identification of O-GlcNAc-modified proteins in mammalian cells
Abo H, Kume M, Pecori F, Miura T, Matsumoto N, Nishihara S, Yamamoto K. PLoS One. 2022 May 23;17(5):e0267804. doi: 10.1371/journal.pone.0267804. PMID: 35604954; PMCID: PMC9126400. |
| 2022.05.08 |
Computational Modeling of O-Linked Glycan Biosynthesis in CHO Cells.
Kouka T, Akase S, Sogabe I, Jin C, Karlsson NG, Aoki-Kinoshita, K.F. Molecules（ Basel, Switzerland）. 2022 Mar 8; 27（6）: 1766. doi: 10.3390/molecules27061766. PMID: 35335136; PMCID: PMC8950484. |
| 2022.04.22 |
GALAXY ver3: updated web application for glycosylation profiling based on 3D HPLC map
Yagi H, Amagasa E, Shiota M, Yamada I, Aoki-Kinoshita KF, Kato K. Glycobiology. 2022 Jul 13; 32（8）: 646-
650. doi: 10.1093/glycob/cwac025. PMID: 35452093. |
| 2022.01.05 |
Development of a novel monosaccharide substitution matrix for improved comparison of glycan structures.
Fujita, A, Aoki-Kinoshita, K.F. Carbohydrate research. 2022 Jan; 511: 108496. doi:10.1016/j.carres.2021.108496. PMID: 35030433. |
| 2021.12.02 |
DeepNGlyPred: A Deep Neural Network-Based Approach for Human N-Linked Glycosylation Site Prediction.
Pakhrin SC, Aoki-Kinoshita KF, Caragea D, Kc DB. Molecules. 2021 Dec 2;26(23):7314. doi: 10.3390/molecules26237314. PMID: 34885895; PMCID: PMC8658957. |
| 2021.11.25 |
SugarDrawer: A Web-Based Database Search Tool with Editing Glycan Structures.
Tsuchiya S, Matsubara M, Aoki-Kinoshita KF, Yamada I. Molecules. 2021 Nov 25;26(23):7149. doi: 10.3390/molecules26237149. PMID: 34885724; PMCID: PMC8659005. |
| 2021.11.22 |
RDFizing the biosynthetic pathway of E.coli O-antigen to enable semantic sharing of microbiology data.
Lee S, Ono T, Aoki-Kinoshita K. BMC Microbiol. 2021 Nov 22;21(1):325. doi: 10.1186/s12866-021-02384-y. PMID: 34809564; PMCID: PMC8607589. |
| 2021.10.18 |
Functional glyco-metagenomics elucidates the role of glycan-related genes in environments.
Takihara H, Miura N, Aoki-Kinoshita KF, Okuda S. BMC Bioinformatics. 2021 Oct 18;22(1):505. doi: 10.1186/s12859-021-04425-9. PMID: 34663219; PMCID: PMC8522060. |
| 2021.09.23 |
Dermatan-4-O-Sulfotransferase-1 Contributes to the Undifferentiated State of Mouse Embryonic Stem Cells
Ogura C, Nishihara S. Front Cell Dev Biol. 2021 Sep 23;9:733964. doi: 10.3389/fcell.2021.733964. PMID: 34631712; PMCID: PMC8495257. |
| 2021.09.09 |
GlycoBioinformatics
Aoki-Kinoshita KF, Lisacek F, Karlsson N, Kolarich D, Packer NH. Beilstein J Org Chem. 2021 Nov 9;17:2726-2728. doi: 10.3762/bjoc.17.184. PMID: 34858527; PMCID: PMC8593694. |
| 2021.07.13 |
Site-specific O-GlcNAcylation of Psme3 maintains mouse stem cell pluripotency by impairing P-body homeostasis.
Pecori F, Kondo N, Ogura C, Miura T, Kume M, Minamijima Y, Yamamoto K, Nishihara S. Cell Rep. 2021 Jul 13;36(2):109361. doi: 10.1016/j.celrep.2021.109361. PMID: 34260942. |
| 2021.06.25 |
Sulfated glycans containing NeuAcα2-3Gal facilitate the propagation of human H1N1 influenza A viruses in eggs.
Ichimiya T, Okamatsu M, Kinoshita T, Kobayashi D, Ichii O, Yamamoto N, Sakoda Y, Kida H, Kawashima H, Yamamoto K, Takase-Yoden S, Nishihara S. Virology. 2021 Jun 25;562:29-39. doi: 10.1016/j.virol.2021.06.008. Epub ahead of print. PMID: 34246113. |
| 2021.06.01 |
Glycome informatics: using systems biology to gain mechanistic insights into glycan biosynthesis.
Aoki-Kinoshita, K. Current opinion in chemical engineering 32 (2021): 100683.
https://doi.org/10.1016/j.coche.2021.100683 |
| 2021.04.19 |
Global mapping of glycosylation pathways in human-derived cells.
Huang YF, Aoki K, Akase S, Ishihara M, Liu YS, Yang G, Kizuka Y, Mizumoto S, Tiemeyer M, Gao XD, Aoki-Kinoshita KF, Fujita M. Dev Cell. 2021 Apr 19;56(8):1195-1209.e7. doi: 10.1016/j.devcel.2021.02.023. Epub 2021 Mar 16. PMID: 33730547; PMCID: PMC8086148. |
| 2021.02.06 |
Dermatan sulphate promotes neuronal differentiation in mouse and human stem cells.
Ogura C, Hirano K, Mizumoto S, Yamada S, Nishihara S. J Biochem. 2021 Feb 6;169(1):55-64. doi: 10.1093/jb/mvaa087. PMID: 32730567. |
| 2021.01.14 |
A defined glycosylation regulatory network modulates total glycome dynamics during pluripotency state transition.
Pecori F, Yokota I, Hanamatsu H, Miura T, Ogura C, Ota H, Furukawa JI, Oki S, Yamamoto K, Yoshie O, Nishihara S. Sci Rep. 2021 Jan 14;11(1):1276. doi: 10.1038/s41598-020-79666-4. PMID: 33446700; PMCID: PMC7809059. |
| 2021.01.08 |
GlycoPOST realizes FAIR principles for glycomics mass spectrometry data.
Watanabe Y, Aoki-Kinoshita KF, Ishihama Y, Okuda S. Nucleic Acids Res. 2021 Jan 8;49(D1):D1523-D1528. doi: 10.1093/nar/gkaa1012. PMID: 33174597; PMCID: PMC7778884. |
| 2021.01.08 |
The international glycan repository GlyTouCan version 3.0.
Fujita A, Aoki NP, Shinmachi D, Matsubara M, Tsuchiya S, Shiota M, Ono T, Yamada I, Aoki-Kinoshita KF. Nucleic Acids Res. 2021 Jan 8;49(D1):D1529-D1533. doi: 10.1093/nar/gkaa947. PMID: 33125071; PMCID: PMC7779025. |
| 2020.10.27 |
A consensus-based and readable extension of Linear Code for Reaction Rules (LiCoRR).
Kellman BP, Zhang Y, Logomasini E, Meinhardt E, Godinez-Macias KP, Chiang AWT, Sorrentino JT, Liang C, Bao B, Zhou Y, Akase S, Sogabe I, Kouka T, Winzeler EA, Wilson IBH, Campbell MP, Neelamegham S, Krambeck FJ, Aoki-Kinoshita KF, Lewis NE. Beilstein J Org Chem. 2020 Oct 27;16:2645-2662. doi: 10.3762/bjoc.16.215. PMID: 33178355; PMCID: PMC7607430. |
| 2020.10.23 |
Mucin-type O-glycosylation controls pluripotency in mouse embryonic stem cells via Wnt receptor endocytosis.
Pecori F, Akimoto Y, Hanamatsu H, Furukawa JI, Shinohara Y, Ikehara Y, Nishihara S. J Cell Sci. 2020 Oct 23;133(20):jcs245845. doi: 10.1242/jcs.245845. PMID: 32973111 |
| 2020.07.17 |
The GlyCosmos Portal: a unified and comprehensive web resource for the glycosciences.
Yamada I, Shiota M, Shinmachi D, Ono T, Tsuchiya S, Hosoda M, Fujita A, Aoki N.P, Watanabe Y, Fujita N, Angata K, Kaji H, Narimatsu H, Okuda S, Aoki-Kinoshita K.F. Nat Methods. 2020 Jul;17(7):649-650. doi: 10.1038/s41592-020-0879-8. PMID: 32572234 |
| 2020.06.01 |
GlyGen data model and processing workflow.
Kahsay R, Vora J, Navelkar R, Mousavi R, Fochtman BC, Holmes X, Pattabiraman N, Ranzinger R, Mahadik R, Williamson T, Kulkarni S, Agarwal G, Martin M, Vasudev P, Garcia L, Edwards N, Zhang W, Natale DA, Ross K, Aoki-Kinoshita KF, Campbell MP, York WS, Mazumder R. Bioinformatics. 2020 Jun 1;36(12):3941-3943. doi: 10.1093/bioinformatics/btaa238. PMID: 32324859; PMCID: PMC7320628. |
| 2020.04.16 |
E190V substitution of H6 hemagglutinin is one of key factors for binding to sulfated sialylated glycan receptor and infection to chickens.
Kikutani Y, Okamatsu M, Nishihara S, Takase-Yoden S, Hiono, T, de Vries R, McBride R, Matsuno K, Kida H, Sakoda Y. Microbiol. Immunol. 2020 Apr;64(4):304-312. doi: 10.1111/1348-0421.12773. Epub 2020 Feb 5. PMID: 31943329. |
| 2020.02 |
Functional analysis of glycosylation using Drosophila melanogaster.
Nishihara S. Glycoconj J. 2020 Feb;37(1):1-14. doi: 10.1007/s10719-019-09892-0. Epub 2019 Nov 26. PMID: 31773367. |
| 2020.01.28 |
GlyGen: Computational and Informatics Resources for Glycoscience.
York WS, Mazumder R, Ranzinger R, Edwards N, Kahsay R, Aoki-Kinoshita KF, Campbell MP, Cummings RD, Feizi T, Martin M, Natale DA, Packer NH, Woods RJ, Agarwal G, Arpinar S, Bhat S, Blake J, Castro LJG, Fochtman B, Gildersleeve J, Goldman R, Holmes X, Jain V, Kulkarni S, Mahadik R, Mehta A, Mousavi R, Nakarakommula S, Navelkar R, Pattabiraman N, Pierce MJ, Ross K, Vasudev P, Vora J, Williamson T, Zhang W. Glycobiology. 2020 Jan 28;30(2):72-73. doi: 10.1093/glycob/cwz080. PMID: 31616925; PMCID: PMC7335483. |
| 2020.01.28 |
The GlySpace Alliance: toward a collaborative global glycoinformatics community.
Aoki-Kinoshita KF, Lisacek F, Mazumder R, York WS, Packer NH. Glycobiology. 2020 Jan 28;30(2):70-71. doi: 10.1093/glycob/cwz078. PMID:31573039; PMCID: PMC6992953. |
| 2019.10.20 |
Highly sulfated hyaluronic acid maintains human induced pluripotent stem cells under feeder-free and bFGF-free conditions.
Miura T, Yuasa N, Ota H, Habu M, Kawano M, Nakayama F, Nishihara S. Biochem Biophys Res Commun. 2019 Oct 20;518(3):506-512. doi: 10.1016/j.bbrc.2019.08.082. Epub 2019 Aug 19. PMID: 31439376 |
| 2019.08.20 |
Updates to the Symbol Nomenclature for Glycans guidelines.
Neelamegham S, Aoki-Kinoshita K, Bolton E, Frank M, Lisacek F, Lütteke T, O'Boyle N, Packer NH, Stanley P, Toukach P, Varki A, Woods RJ; SNFG Discussion Group. Glycobiology. 2019 Aug 20;29(9):620-624. doi: 10.1093/glycob/cwz045. PMID: 31184695; PMCID: PMC7335484. |
| 2019.08.15 |
LM-GlycomeAtlas Ver. 1.0: A Novel Visualization Tool for Lectin Microarray-Based Glycomic Profiles of Mouse Tissue Sections.
Nagai-Okatani C, Aoki-Kinoshita KF, Kakuda S, Nagai M, Hagiwara K, Kiyohara K, Fujita N, Suzuki Y, Sato T, Angata K, Kuno A. Molecules. 2019 Aug 15;24(16):2962. doi: 10.3390/molecules24162962. PMID: 31443278; PMCID: PMC6719194. |
| 2019.07.22 |
Towards a standardized bioinformatics infrastructure for N- and O-glycomics.
Rojas-Macias MA, Mariethoz J, Andersson P, Jin C, Venkatakrishnan V, Aoki NP, Shinmachi D, Ashwood C, Madunic K, Zhang T, Miller RL, Horlacher O, Struwe WB, Watanabe Y, Okuda S, Levander F, Kolarich D, Rudd PM, Wuhrer M, Kettner C, Packer NH, Aoki-Kinoshita KF, Lisacek F, Karlsson NG. Nat Commun. 2019 Jul 22;10(1):3275. doi: 10.1038/s41467-019-11131-x. PMID: 31332201; PMCID: PMC6796180. |
| 2019.07.15 |
Cell Profiling Based on Sugar-Chain-Cell Binding Interaction and Its Application to Typing and Quality Verification of Cells.
Shinchi H, Nakamura T, Ota H, Nishihara S, Wakao M, Suda Y. Chembiochem. 2019 Jul 15;20(14):1810-1816. doi: 10.1002/cbic.201900028. Epub 2019 May 21. PMID: 30816597. |
| 2019.07.15 |
論文発表
GlycanFormatConverter: a conversion tool for translating the complexities of glycans.
Tsuchiya S, Yamada I, Aoki-Kinoshita KF. Bioinformatics. 2019 Jul 15;35(14):2434-2440. doi: 10.1093/bioinformatics/bty990. PMID: 30535258; PMCID: PMC6612873. |
