{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,27]],"date-time":"2026-08-27T05:17:06Z","timestamp":1787807826918,"version":"build-2784847793"},"reference-count":60,"publisher":"MDPI AG","issue":"17","license":[{"start":{"date-parts":[[2026,8,25]],"date-time":"2026-08-25T00:00:00Z","timestamp":1787616000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Global Health at the United States- National Cancer Institute at the National Institutes of Health","award":["HHSN2612010000871\/NO2-PC-2010-00087"],"award-info":[{"award-number":["HHSN2612010000871\/NO2-PC-2010-00087"]}]},{"award":["HHSN2612010000871\/NO2-PC-2010-00087"],"award-info":[{"award-number":["HHSN2612010000871\/NO2-PC-2010-00087"]}],"id":[{"id":"https:\/\/ror.org\/040gcmg81","id-type":"ROR","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000061","name":"Fogarty International Center","doi-asserted-by":"crossref","id":[{"id":"10.13039\/100000061","id-type":"DOI","asserted-by":"crossref"}]},{"id":[{"id":"https:\/\/ror.org\/02xey9a22","id-type":"ROR","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000869","name":"Susan G. 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J. Mol. Sci.","IJMS"],"abstract":"<jats:p>Functional studies have shown that long noncoding RNAs (lncRNAs) play different roles in gene expression regulation, acting as epigenetic factors. Accumulating evidence indicates that lncRNAs modulate diverse biological processes, and their altered expression is associated with the development and progression of cancer, including BC. Here, aiming to identify lncRNAs associated with breast cancer, we performed a re-analysis of the expression data from 1071 tumors of eligible patients in the LACRN-MPBC Study. Using normalized data, we compared the expression profiles of triple-negative breast cancer (TNBC; 170 cases) and a heterogeneous group of non-TNBC tumors (782 cases). A total of 59 differentially expressed lncRNAs (DELncRNAs) could be identified based on the criteria of |log2FC| \u2265 1 and FDR &lt; 0.05, using the DESeq2 R package. In the Kaplan\u2013Meier survival analysis, we identified DELncRNAs that affect disease-free survival and\/or overall survival, with eight of them in TNBC and 27 in non-TNBC patients. Multivariate Cox proportional-hazards models were used to evaluate independent predictors of survival. Two DELncRNAs, VLDLR-AS1 and PART1, were identified as independent prognostic markers for TNBC patients, while seven (LINC00239, FAM30A, LINC00842, LINC01315, EGOT, LY6E-DT, and SLC25A21-AS1) were independent prognostic markers for non-TNBC patients. Our computational study identifies several candidate lncRNAs associated with clinical outcomes in breast cancer. However, the DELncRNAs identified here should be interpreted as preliminary candidates, which require future validation and functional studies to determine their biological roles and evaluate their potential as prognostic biomarkers.<\/jats:p>","DOI":"10.3390\/ijms27177617","type":"journal-article","created":{"date-parts":[[2026,8,25]],"date-time":"2026-08-25T15:01:07Z","timestamp":1787670067000},"page":"7617","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Long Noncoding RNAs (lncRNAs) as Biomarkers of Prognosis in TNBC and Non-TNBC Breast Cancer Patients"],"prefix":"10.3390","volume":"27","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8278-240X","authenticated-orcid":false,"given":"Marcio Luis","family":"Acencio","sequence":"first","affiliation":[{"name":"Bioinformatics Core Unit, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, L-4362 Esch-sur-Alzette, Luxembourg"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8697-4209","authenticated-orcid":false,"given":"Xinhui","family":"Wang","sequence":"additional","affiliation":[{"name":"Bioinformatics Core Unit, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, L-4362 Esch-sur-Alzette, Luxembourg"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1730-9931","authenticated-orcid":false,"given":"Flavia R. Rotea","family":"Mangone","sequence":"additional","affiliation":[{"name":"Centro de Investiga\u00e7\u00e3o Translacional em Oncologia\u2014CTO, Instituto do C\u00e2ncer do Estado de Sao Paulo (ICESP), Faculdade de Medicina da Universidade de S\u00e3o Paulo (FMUSP), Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"},{"name":"Comprehensive Center for Precision Oncology, Universidade de Sao Paulo, Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dirce Maria","family":"Carraro","sequence":"additional","affiliation":[{"name":"Clinical and Functional Group, Centro Internacional de Pesquisa (CIPE), AC Camargo Cancer Center, Sao Paulo 01508-010, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0089-0061","authenticated-orcid":false,"given":"Andrea S.","family":"Llera","sequence":"additional","affiliation":[{"name":"Molecular and Cellular Therapy Laboratory, Fundaci\u00f3n Instituto Leloir-CONICET, Buenos Aires C1405BWE, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5166-0832","authenticated-orcid":false,"given":"Eliana S. F. W.","family":"Abdelhay","sequence":"additional","affiliation":[{"name":"Bone Marrow Transplantation Unit, Instituto Nacional de C\u00e2ncer, Rio de Janeiro 20230-130, RJ, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8798-7941","authenticated-orcid":false,"given":"Nora","family":"Artagaveytia","sequence":"additional","affiliation":[{"name":"Hospital de Cl\u00ednicas, Facultad de Medicina, Universidad de la Rep\u00fablica, Montevideo 11600, Uruguay"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adrian","family":"Daneri-Navarro","sequence":"additional","affiliation":[{"name":"Department of Cellular and Molecular Biology, Universidad de Guadalajara, Guadalajara 44430, Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9556-3070","authenticated-orcid":false,"given":"Eduardo Moraes","family":"Reis","sequence":"additional","affiliation":[{"name":"Comprehensive Center for Precision Oncology, Universidade de Sao Paulo, Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"},{"name":"Department of Biochemistry, Institute of Chemistry, Universidade de Sao Paulo, Sao Paulo 05508-000, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Leonardo","family":"Sanches","sequence":"additional","affiliation":[{"name":"Comprehensive Center for Precision Oncology, Universidade de Sao Paulo, Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"},{"name":"Department of Biochemistry, Institute of Chemistry, Universidade de Sao Paulo, Sao Paulo 05508-000, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0342-8726","authenticated-orcid":false,"given":"Roger","family":"Chammas","sequence":"additional","affiliation":[{"name":"Centro de Investiga\u00e7\u00e3o Translacional em Oncologia\u2014CTO, Instituto do C\u00e2ncer do Estado de Sao Paulo (ICESP), Faculdade de Medicina da Universidade de S\u00e3o Paulo (FMUSP), Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"},{"name":"Comprehensive Center for Precision Oncology, Universidade de Sao Paulo, Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Osvaldo L.","family":"Podhajcer","sequence":"additional","affiliation":[{"name":"Molecular and Cellular Therapy Laboratory, Fundaci\u00f3n Instituto Leloir-CONICET, Buenos Aires C1405BWE, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3728-7848","authenticated-orcid":false,"given":"Carlos","family":"Velazquez","sequence":"additional","affiliation":[{"name":"Universidad de Sonora, Hermosillo 83000, Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0728-4937","authenticated-orcid":false,"given":"Maria A.","family":"Nagai","sequence":"additional","affiliation":[{"name":"Centro de Investiga\u00e7\u00e3o Translacional em Oncologia\u2014CTO, Instituto do C\u00e2ncer do Estado de Sao Paulo (ICESP), Faculdade de Medicina da Universidade de S\u00e3o Paulo (FMUSP), Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"},{"name":"Comprehensive Center for Precision Oncology, Universidade de Sao Paulo, Avenida Doutor Arnaldo, 251, 8\u00b0 Floor, Sao Paulo 01246-000, SP, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,8,25]]},"reference":[{"key":"ref_1","first-page":"209","article-title":"Global Cancer Statistics 2020: GLOBOCAN Estimates of Incidence and Mortality Worldwide for 36 Cancers in 185 Countries","volume":"71","author":"Sung","year":"2021","journal-title":"CA Cancer J. 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