{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,20]],"date-time":"2026-08-20T06:41:58Z","timestamp":1787208118655,"version":"build-2736575974"},"reference-count":51,"publisher":"MDPI AG","issue":"11","license":[{"start":{"date-parts":[[2024,10,24]],"date-time":"2024-10-24T00:00:00Z","timestamp":1729728000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"the Science, Technology, and Innovation Commission of Shenzhen Municipality","award":["JCYJ20230807093208017"],"award-info":[{"award-number":["JCYJ20230807093208017"]}]},{"name":"the Science, Technology, and Innovation Commission of Shenzhen Municipality","award":["2024A1515013126"],"award-info":[{"award-number":["2024A1515013126"]}]},{"name":"the Guangdong Natural Science Foundation","award":["JCYJ20230807093208017"],"award-info":[{"award-number":["JCYJ20230807093208017"]}]},{"name":"the Guangdong Natural Science Foundation","award":["2024A1515013126"],"award-info":[{"award-number":["2024A1515013126"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Viruses"],"abstract":"<jats:p>Epstein\u2013Barr virus (EBV), a member of the gamma herpesvirus, is the first identified human oncovirus and is associated with various malignancies. Understanding the intricate interactions between EBV antigens and cellular pathways is crucial to unraveling the molecular mechanisms in EBV-mediated diseases. However, fully elucidating EBV\u2013host interactions and the associated pathogenesis remains a significant challenge. In this study, we employed large language models (LLMs) to screen 36,105 EBV-relevant scientific publications and summarize the current literature landscape on various EBV-associated diseases like Burkitt lymphoma (BL), diffuse large B-cell lymphoma (DLBCL), nasopharyngeal carcinoma (NPC), and so on. LLM-generated data indicate that the most-studied EBV-associated pathways are enriched in immune response, apoptosis, cell growth, and replication. The analyses of protein\u2013protein interactions (PPIs) reveal three principal EBV-related protein clusters: TP53-centered apoptotic factors, EBV-associated transcription factors, and immune response elements. Utilizing our dataset and public databases, we demonstrated that BLLF3-targeted TLR2-associated factors are effective diagnostic markers for DLBCL. Next, we confirmed the co-expression of LMP1-targeted calcium pathway factors in BL. Finally, we demonstrated the correlation and co-expression of LMP1-induced PARP1, HIF1A, HK2, and key glycolysis-related factors, further suggesting that LMP1 actively regulates the glycolysis pathway. Therefore, our study presents a comprehensive functional encyclopedia of the interactions between EBV antigens and host signaling pathways across various EBV-associated diseases, providing valuable insights for the development of therapeutic strategies.<\/jats:p>","DOI":"10.3390\/v16111660","type":"journal-article","created":{"date-parts":[[2024,10,24]],"date-time":"2024-10-24T04:11:38Z","timestamp":1729743098000},"page":"1660","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Decoding Critical Targets and Signaling Pathways in EBV-Mediated Diseases Using Large Language Models"],"prefix":"10.3390","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0009-0008-2721-4865","authenticated-orcid":false,"given":"Jingwen","family":"Yu","sequence":"first","affiliation":[{"name":"School of Public Health and Emergency Management, Southern University of Science and Technology, Shenzhen 518055, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yaohao","family":"Wang","sequence":"additional","affiliation":[{"name":"School of Public Health and Emergency Management, Southern University of Science and Technology, Shenzhen 518055, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Haidong","family":"Wang","sequence":"additional","affiliation":[{"name":"School of Public Health and Emergency Management, Southern University of Science and Technology, Shenzhen 518055, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhi","family":"Wei","sequence":"additional","affiliation":[{"name":"Department of Computer Science, New Jersey Institute of Technology, Newark, NJ 07102, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7296-8772","authenticated-orcid":false,"given":"Yonggang","family":"Pei","sequence":"additional","affiliation":[{"name":"School of Public Health and Emergency Management, Southern University of Science and Technology, Shenzhen 518055, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2024,10,24]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"3652","DOI":"10.1016\/j.cell.2022.08.026","article-title":"Epstein-Barr Virus: Biology and Clinical Disease","volume":"185","author":"Damania","year":"2022","journal-title":"Cell"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"1116","DOI":"10.4049\/jimmunol.160.3.1116","article-title":"A Fusion of the EBV Latent Membrane Protein-1 (LMP1) Transmembrane Domains to the CD40 Cytoplasmic Domain Is Similar to LMP1 in Constitutive Activation of Epidermal Growth Factor Receptor Expression, Nuclear Factor-Kappa B, and Stress-Activated Protein Kinase","volume":"160","author":"Hatzivassiliou","year":"1998","journal-title":"J. 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