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Taking profit of current advances in next generation sequencing and DNA methylation profiling, we have created datasets from approximately 150 formalin-fixed paraffin embedded (FFPE) tumours. These datasets enable for the first time integrative transcriptional and epigenetics studies in a context that consider the degradation and fixation-derived chemical alterations of the most extended archiving format in hospitals, and provide an independent cohort from current public databases for further validation of putative novel biomarkers. Alongside with the most profusely known glioblastomas, astrocytomas and oligodendrogliomas, we have also included for comparison purposes few examples of rare tumours that are often neglected in brain cancer research. Taken together, we provide a valuable tool to explore combined gene expression and DNA methylation patterns in the study of gliomas and glioneuronal tumours.<\/jats:p>","DOI":"10.1038\/s41597-025-04597-6","type":"journal-article","created":{"date-parts":[[2025,2,15]],"date-time":"2025-02-15T12:21:46Z","timestamp":1739622106000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":5,"title":["Transcriptomics and epigenomics datasets of primary brain cancers in formalin-fixed paraffin embedded format"],"prefix":"10.1038","volume":"12","author":[{"given":"Anabel","family":"Garc\u00eda-Heredia","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4770-4622","authenticated-orcid":false,"given":"Luna","family":"Guerra-N\u00fa\u00f1ez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paula","family":"Mart\u00edn-Climent","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Estefan\u00eda","family":"Rojas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8634-117X","authenticated-orcid":false,"given":"Ra\u00fal","family":"L\u00f3pez-Dom\u00ednguez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4925-4955","authenticated-orcid":false,"given":"Clara","family":"Alc\u00e1ntara-Dom\u00ednguez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cristina","family":"Alenda","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1229-0565","authenticated-orcid":false,"given":"Luis M.","family":"Valor","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,2,15]]},"reference":[{"key":"4597_CR1","doi-asserted-by":"publisher","DOI":"10.1016\/j.heliyon.2023.e18222","volume":"9","author":"I Ilic","year":"2023","unstructured":"Ilic, I. & Ilic, M. 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