Transcriptomics and epigenomics datasets of primary brain cancers in formalin-fixed paraffin embedded format.

in Scientific data by Anabel García-Heredia, Luna Guerra-Núñez, Paula Martín-Climent, Estefanía Rojas, Raúl López-Domínguez, Clara Alcántara-Domínguez, Cristina Alenda, Luis M Valor

TLDR

  • Researchers created datasets from 150 FFPE tumours to study gliomas and identify biomarkers and therapeutic targets.

Abstract

The access of public omics-based datasets is of paramount importance in brain cancer research as allows the proposal and validation of both biomarkers and therapeutic targets in gliomas, especially in the most prevalent and aggressive glioblastomas. 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.

Overview

  • The study created datasets from approximately 150 formalin-fixed paraffin embedded (FFPE) tumours for the propose and validation of biomarkers and therapeutic targets in gliomas, especially glioblastomas.
  • The datasets enable integrative transcriptional and epigenetics studies in FFPE tumours, considering degradation and fixation-derived chemical alterations.
  • The study provides an independent cohort for further validation of putative novel biomarkers and includes examples of rare tumours for comparison purposes.

Comparative Analysis & Findings

  • The study provides a valuable tool for exploring combined gene expression and DNA methylation patterns in gliomas and glioneuronal tumours.
  • The datasets include information from approximately 150 FFPE tumours, including glioblastomas, astrocytomas, oligodendrogliomas, and rare tumours.
  • The study's findings will allow for the proposal and validation of biomarkers and therapeutic targets in gliomas, especially glioblastomas.

Implications and Future Directions

  • The study's findings have the potential to improve our understanding of gliomas and lead to the identification of novel biomarkers and therapeutic targets.
  • Future studies can utilize these datasets to further validate novel biomarkers and therapeutic targets and explore their clinical applications.
  • The study's findings also highlight the importance of considering degradation and fixation-derived chemical alterations in FFPE tumours for integrative studies.
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