{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T11:05:56Z","timestamp":1777547156060,"version":"3.51.4"},"reference-count":50,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2024,8,20]],"date-time":"2024-08-20T00:00:00Z","timestamp":1724112000000},"content-version":"vor","delay-in-days":26,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Hainan Provincial Natural Science Foundation of China","award":["322RC570"],"award-info":[{"award-number":["322RC570"]}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62362020"],"award-info":[{"award-number":["62362020"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Specific Research Fund of The Innovation Platform for Academicians of Hainan Province","award":["YSPTZX202410"],"award-info":[{"award-number":["YSPTZX202410"]}]},{"name":"Research Start-up Fund of Hainan University","award":["KYQD(ZR)-22016"],"award-info":[{"award-number":["KYQD(ZR)-22016"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,7,25]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The prediction of metabolite\u2013protein interactions (MPIs) plays an important role in plant basic life functions. Compared with the traditional experimental methods and the high-throughput genomics methods using statistical correlation, applying heterogeneous graph neural networks to the prediction of MPIs in plants can reduce the cost of manpower, resources, and time. However, to the best of our knowledge, applying heterogeneous graph neural networks to the prediction of MPIs in plants still remains under-explored. In this work, we propose a novel model named heterogeneous neighbor contrastive graph attention network (HNCGAT), for the prediction of MPIs in Arabidopsis. The HNCGAT employs the type-specific attention-based neighborhood aggregation mechanism to learn node embeddings of proteins, metabolites, and functional-annotations, and designs a novel heterogeneous neighbor contrastive learning framework to preserve heterogeneous network topological structures. Extensive experimental results and ablation study demonstrate the effectiveness of the HNCGAT model for MPI prediction. In addition, a case study on our MPI prediction results supports that the HNCGAT model can effectively predict the potential MPIs in plant.<\/jats:p>","DOI":"10.1093\/bib\/bbae397","type":"journal-article","created":{"date-parts":[[2024,7,27]],"date-time":"2024-07-27T14:09:26Z","timestamp":1722089366000},"source":"Crossref","is-referenced-by-count":5,"title":["HNCGAT: a method for predicting plant metabolite\u2013protein interaction using heterogeneous neighbor contrastive graph attention network"],"prefix":"10.1093","volume":"25","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6943-5585","authenticated-orcid":false,"given":"Xi","family":"Zhou","sequence":"first","affiliation":[{"name":"School of Tropical Agriculture and Forestry, Hainan University , 58 Renmin Avenue, Haikou 570228, Hainan ,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jing","family":"Yang","sequence":"additional","affiliation":[{"name":"School of Tropical Agriculture and Forestry, Hainan University , 58 Renmin Avenue, Haikou 570228, Hainan ,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yin","family":"Luo","sequence":"additional","affiliation":[{"name":"School of Tropical Agriculture and Forestry, Hainan University , 58 Renmin Avenue, Haikou 570228, Hainan ,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0937-049X","authenticated-orcid":false,"given":"Xiao","family":"Shen","sequence":"additional","affiliation":[{"name":"School of Computer Science and Technology , Hainan University, 58 Renmin Avenue, Haikou 570228, Hainan ,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2024,8,20]]},"reference":[{"key":"2025011415463670800_ref1","doi-asserted-by":"crossref","first-page":"212","DOI":"10.1039\/C4NP00072B","article-title":"Modern plant metabolomics: advanced natural product gene 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