{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,22]],"date-time":"2025-12-22T20:59:39Z","timestamp":1766437179349,"version":"3.48.0"},"reference-count":108,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","license":[{"start":{"date-parts":[[2025,1,1]],"date-time":"2025-01-01T00:00:00Z","timestamp":1735689600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"}],"funder":[{"name":"Brazilian Government and Petrobras"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE Access"],"published-print":{"date-parts":[[2025]]},"DOI":"10.1109\/access.2025.3643796","type":"journal-article","created":{"date-parts":[[2025,12,12]],"date-time":"2025-12-12T18:36:52Z","timestamp":1765564612000},"page":"212469-212493","source":"Crossref","is-referenced-by-count":0,"title":["A Topical Review of Graph Embedding in Graph Neural Networks"],"prefix":"10.1109","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9013-3127","authenticated-orcid":false,"given":"Willian","family":"Borges De Lemos","sequence":"first","affiliation":[{"name":"Center for Computational Sciences, Federal University of Rio Grande (FURG), Rio Grande, Brazil"}]},{"given":"Lucas De Angelo Martins","family":"Ribeiro","sequence":"additional","affiliation":[{"name":"Center for Computational Sciences, Federal University of Rio Grande (FURG), Rio Grande, Brazil"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6937-7821","authenticated-orcid":false,"given":"Vanessa","family":"Telles Da Silva","sequence":"additional","affiliation":[{"name":"Center for Computational Sciences, Federal University of Rio Grande (FURG), Rio Grande, Brazil"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6572-1496","authenticated-orcid":false,"given":"Alessandro De Lima","family":"Bicho","sequence":"additional","affiliation":[{"name":"Center for Computational Sciences, Federal University of Rio Grande (FURG), Rio Grande, Brazil"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6986-7284","authenticated-orcid":false,"given":"Marcelo De Gomensoro","family":"Malheiros","sequence":"additional","affiliation":[{"name":"Department of Informatics, State University of Maring&#x00E1; (UEM), Maring&#x00E1;, Brazil"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6728-2725","authenticated-orcid":false,"given":"Marcelo Rita","family":"Pias","sequence":"additional","affiliation":[{"name":"Center for Computational Sciences, Federal University of Rio Grande (FURG), Rio Grande, Brazil"}]}],"member":"263","reference":[{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1016\/j.neucom.2021.06.034"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1007\/s10618-023-00941-9"},{"key":"ref3","doi-asserted-by":"publisher","DOI":"10.1109\/tetc.2023.3282539"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1109\/tpami.2021.3124805"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1109\/ACCESS.2025.3542334"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1007\/s00778-024-00864-x"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1109\/tcss.2019.2962819"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty294"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-021-04055-1"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.1093\/gigascience\/giaa081"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1145\/3219819.3219890"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1093\/jamia\/ocaa136"},{"article-title":"How powerful are graph neural networks?","volume-title":"Proc. Int. Conf. Learn. Represent.","author":"Xu","key":"ref13"},{"key":"ref14","article-title":"A tutorial on network embeddings","author":"Chen","year":"2018","journal-title":"arXiv:1808.02590"},{"issue":"43","key":"ref15","first-page":"1","article-title":"Benchmarking graph neural networks","volume":"24","author":"Dwivedi","year":"2023","journal-title":"J. Mach. Learn. Res."},{"key":"ref16","article-title":"Graph learning: A comprehensive survey and future directions","author":"Wei","year":"2022","journal-title":"arXiv:2212.08966"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2018.2878247"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1109\/ACCESS.2024.3456913"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1145\/2623330.2623732"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.1145\/2939672.2939754"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.1162\/089976603321780317"},{"key":"ref22","article-title":"Unsupervised deep for clustering analysis","author":"Cai","year":"2017","journal-title":"arXiv:1706.02263"},{"key":"ref23","doi-asserted-by":"publisher","DOI":"10.48550\/arXiv.1310.4546"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1109\/access.2020.3047116"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2020.3006475"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1109\/TKDE.2018.2807452"},{"key":"ref27","doi-asserted-by":"publisher","DOI":"10.48550\/ARXIV.1609.02907"},{"key":"ref28","first-page":"1024","article-title":"Inductive representation learning on large graphs","volume-title":"Proc. 31st Int. Conf. Neural Inf. Process. Syst.","volume":"30","author":"Hamilton"},{"key":"ref29","article-title":"Graph attention networks","author":"Veli\u010dkovi\u0107","year":"2017","journal-title":"arXiv:1710.10903"},{"key":"ref30","doi-asserted-by":"publisher","DOI":"10.1145\/2736277.2741093"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1016\/j.aiopen.2021.01.001","article-title":"Graph neural networks: A review of methods and applications","volume":"1","author":"Zhou","year":"2020","journal-title":"AI Open"},{"key":"ref32","first-page":"5998","article-title":"Attention is all you need","volume-title":"Proc. Adv. Neural Inf. Process. Syst.","volume":"30","author":"Vaswani"},{"key":"ref33","article-title":"BERT: Pre-training of deep bidirectional transformers for language understanding","author":"Devlin","year":"2018","journal-title":"arXiv:1810.04805"},{"key":"ref34","article-title":"GPT-4 technical report","volume-title":"arXiv:2303.08774","author":"Achiam","year":"2023"},{"key":"ref35","article-title":"The llama 3 herd of models","author":"Grattafiori","year":"2024","journal-title":"arXiv:2407.21783"},{"key":"ref36","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2024.3486747"},{"key":"ref37","article-title":"Language models are few-shot learners","author":"Brown","year":"2020","journal-title":"arXiv:2005.14165"},{"volume-title":"Improving Language Understanding by Generative Pre-Training","year":"2018","author":"Radford","key":"ref38"},{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.24963\/ijcai.2018\/362"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1109\/access.2023.3278271"},{"key":"ref41","first-page":"10576","article-title":"Dimensionality reduction: Theoretical perspective on practical measures","volume-title":"Proc. Adv. Neural Inf. Process. Syst.","volume":"32","author":"Bartal"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-023-36492-2"},{"key":"ref43","article-title":"Variational graph auto-encoders","author":"Kipf","year":"2016","journal-title":"arXiv:1611.07308"},{"key":"ref44","article-title":"Cora, citeseer, coauthorcs, polblogs and sbm","author":"Qian","year":"2025","journal-title":"IEEE Dataport"},{"key":"ref45","first-page":"4580","article-title":"Deep graph infomax","volume-title":"Proc. Int. Conf. Learn. Represent.","author":"Veli\u010dkovi\u0107"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.1109\/tnnls.2022.3151046"},{"key":"ref47","doi-asserted-by":"publisher","DOI":"10.1109\/tbdata.2022.3177455"},{"key":"ref48","doi-asserted-by":"publisher","DOI":"10.1109\/TNSE.2024.3514171"},{"key":"ref49","doi-asserted-by":"publisher","DOI":"10.1109\/TPAMI.2021.3081010"},{"key":"ref50","doi-asserted-by":"publisher","DOI":"10.5555\/3327345.3327389"},{"key":"ref51","first-page":"2787","article-title":"Translating embeddings for modeling multi-relational data","volume-title":"Proc. 27th Int. Conf. Neural Inf. Process. Syst.","author":"Bordes"},{"key":"ref52","doi-asserted-by":"publisher","DOI":"10.4324\/9780203786031-11"},{"key":"ref53","doi-asserted-by":"publisher","DOI":"10.1109\/access.2021.3067901"},{"key":"ref54","doi-asserted-by":"publisher","DOI":"10.1109\/tnnls.2024.3374464"},{"key":"ref55","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2021.3112746"},{"key":"ref56","doi-asserted-by":"publisher","DOI":"10.1109\/tpami.2022.3202158"},{"key":"ref57","doi-asserted-by":"publisher","DOI":"10.1109\/tip.2023.3293774"},{"key":"ref58","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.134526.1"},{"key":"ref59","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz718"},{"key":"ref60","doi-asserted-by":"publisher","DOI":"10.14778\/3421424.3421430"},{"key":"ref61","doi-asserted-by":"publisher","DOI":"10.1017\/atsip.2020.13"},{"key":"ref62","doi-asserted-by":"publisher","DOI":"10.7717\/peerj-cs.357"},{"key":"ref63","doi-asserted-by":"publisher","DOI":"10.1109\/tcyb.2019.2932096"},{"key":"ref64","doi-asserted-by":"publisher","DOI":"10.7717\/peerj-cs.341"},{"key":"ref65","doi-asserted-by":"publisher","DOI":"10.14778\/3407790.3407828"},{"key":"ref66","doi-asserted-by":"publisher","DOI":"10.1089\/big.2021.0107"},{"key":"ref67","doi-asserted-by":"publisher","DOI":"10.1109\/tpami.2020.3029762"},{"key":"ref68","doi-asserted-by":"publisher","DOI":"10.1016\/j.dajour.2023.100362"},{"key":"ref69","doi-asserted-by":"publisher","DOI":"10.1109\/tnnls.2022.3223018"},{"key":"ref70","doi-asserted-by":"publisher","DOI":"10.1109\/tpami.2021.3061162"},{"key":"ref71","doi-asserted-by":"publisher","DOI":"10.1145\/3542944"},{"key":"ref72","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2023.3270119"},{"key":"ref73","doi-asserted-by":"publisher","DOI":"10.1109\/access.2020.2995406"},{"key":"ref74","article-title":"Representation learning on graphs: Methods and applications","author":"Hamilton","year":"2017","journal-title":"arXiv:1709.05584"},{"key":"ref75","doi-asserted-by":"publisher","DOI":"10.1007\/s41109-020-00329-4"},{"key":"ref76","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2024.3385847"},{"key":"ref77","doi-asserted-by":"publisher","DOI":"10.3233\/sw-233514"},{"key":"ref78","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2023.3235944"},{"key":"ref79","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2024.3486915"},{"key":"ref80","doi-asserted-by":"publisher","DOI":"10.1007\/s00521-022-08076-6"},{"key":"ref81","doi-asserted-by":"publisher","DOI":"10.1109\/ACCESS.2024.3368637"},{"key":"ref82","article-title":"Cora","author":"McCallum","year":"2024","journal-title":"IEEE Dataport"},{"key":"ref83","first-page":"1399","article-title":"Query-driven active surveying for collective classification","volume-title":"Proc. Int. Workshop Mining Learn. with Graphs","author":"Namata"},{"issue":"3","key":"ref84","doi-asserted-by":"crossref","first-page":"e1399","DOI":"10.1002\/wrna.1399","article-title":"Community detection in graphs","volume":"9","author":"Wang","year":"2017","journal-title":"Wiley Interdiscipl. Rev., Comput. Statist."},{"key":"ref85","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbaa344"},{"key":"ref86","doi-asserted-by":"publisher","DOI":"10.1111\/2041-210x.13738"},{"key":"ref87","doi-asserted-by":"publisher","DOI":"10.1007\/s41109-019-0197-1"},{"key":"ref88","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2019.2951398"},{"key":"ref89","doi-asserted-by":"publisher","DOI":"10.1109\/tpami.2021.3081744"},{"key":"ref90","doi-asserted-by":"publisher","DOI":"10.3390\/a15100379"},{"key":"ref91","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2020.3045924"},{"key":"ref92","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2022.3230743"},{"key":"ref93","doi-asserted-by":"publisher","DOI":"10.1109\/access.2019.2920671"},{"key":"ref94","doi-asserted-by":"publisher","DOI":"10.1145\/3729215"},{"key":"ref95","doi-asserted-by":"publisher","DOI":"10.7717\/peerj-cs.429"},{"key":"ref96","doi-asserted-by":"publisher","DOI":"10.14778\/3377369.3377376"},{"key":"ref97","doi-asserted-by":"publisher","DOI":"10.1109\/access.2019.2932396"},{"key":"ref98","doi-asserted-by":"publisher","DOI":"10.1109\/access.2022.3191666"},{"key":"ref99","doi-asserted-by":"publisher","DOI":"10.1109\/mcg.2022.3160104"},{"key":"ref100","first-page":"88","article-title":"Demystifying oversmoothing in attention-based graph neural networks","volume-title":"Proc. 37th Int. Conf. Neural Inf. Process. Syst.","author":"Wu"},{"key":"ref101","first-page":"88","article-title":"Embedding Planar Graphs into Graphs of Treewidth O (log3 n)","volume-title":"Proc. Annu. ACM-SIAM Symp. Discrete Algorithms (SODA)","author":"Azar"},{"key":"ref102","doi-asserted-by":"publisher","DOI":"10.1145\/1330107.1330122"},{"key":"ref103","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2019.2947478"},{"key":"ref104","doi-asserted-by":"publisher","DOI":"10.1109\/tkde.2024.3437479"},{"key":"ref105","article-title":"Harnessing the universal geometry of embeddings","author":"Jha","year":"2025","journal-title":"arXiv:2505.12540"},{"key":"ref106","article-title":"The platonic representation hypothesis","author":"Huh","year":"2024","journal-title":"arXiv:2405.07987"},{"key":"ref107","article-title":"PanRep: Graph neural networks for extracting universal node embeddings in heterogeneous graphs","author":"Ioannidis","year":"2021","journal-title":"arXiv:2007.10445"},{"article-title":"Distance encoding: Design provably more powerful neural networks for graph representation learning","volume-title":"Proc. 34th Int. Conf. Neural Inf. Process. Syst.","author":"Li","key":"ref108"}],"container-title":["IEEE Access"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx8\/6287639\/10820123\/11299063.pdf?arnumber=11299063","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,12,22]],"date-time":"2025-12-22T18:43:02Z","timestamp":1766428982000},"score":1,"resource":{"primary":{"URL":"https:\/\/ieeexplore.ieee.org\/document\/11299063\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025]]},"references-count":108,"URL":"https:\/\/doi.org\/10.1109\/access.2025.3643796","relation":{},"ISSN":["2169-3536"],"issn-type":[{"type":"electronic","value":"2169-3536"}],"subject":[],"published":{"date-parts":[[2025]]}}}