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FFPE-samples from cavitational ultrasonic surgical aspirates are suitable for RNA profiling of gliomas

ABSTRACT: FFPE-samples from cavitational ultrasonic surgical aspirates are suitable for RNA profiling of gliomas

PROVIDER: PRJNA701629 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13699900_1.fastq.gz	Fastqsanger.gz
	SRR13699900_2.fastq.gz	Fastqsanger.gz
	SRR13699901_1.fastq.gz	Fastqsanger.gz
	SRR13699901_2.fastq.gz	Fastqsanger.gz
	SRR13699902_1.fastq.gz	Fastqsanger.gz

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FFPE-samples from cavitational ultrasonic surgical aspirates are suitable for RNA profiling of gliomas

Project description:During surgical procedures of gliomas, tissular material obtained from cavitational ultrasonic surgical aspirators (CUSAs) is generally discarded but can exceed amount and quality of certain tumour core resections (TCRs). From archived FFPE-samples, we compared the profiles of somatic mutations and gene expression in the solid material from aspirates and TCRs obtained from the same patients in selected gliomas encompassing grade II to IV. Despite the characteristic heterogeneity of gliomas, we found substantial similarities between the corresponding aspirates and TCRs that included mutations used in the clinical routine and glioma-associated transcriptional signatures. Based on these results, we confirmed the suitability of CUSA-fixed biomaterial from glioma surgeries for downstream applications.

2021-10-20 | GSE166696 | GEO

FFPE samples from cavitational ultrasonic surgical aspirates are suitable for RNA profiling of gliomas.

Project description:During surgical procedures for gliomas, tissue material obtained from cavitational ultrasonic surgical aspirators (CUSAs) is generally discarded but can actually exceed the amount and quality of certain tumour core resections (TCRs). Despite reports indicating the suitability of CUSA-derived material for diagnosis and research, its use is still marginal. We extended these conclusions to formalin-fixed, paraffin-embedded (FFPE) samples, the most common format for archival tumour tissue in anatomical pathology departments, by conducting for the first time RNA-seq analysis in CUSA aspirates. We compared the molecular diagnosis of somatic mutations used in the clinical routine and the gene expression profiles of fixed solid material from CUSA aspirates and TCRs from the same patients in selected gliomas encompassing grades II to IV. Despite the characteristic heterogeneity of gliomas, we found substantial similarities between the corresponding aspirates and TCRs that included transcriptional signatures associated with glioma subtypes. Based on these results, we confirmed that CUSA-fixed biomaterials from glioma surgeries are appropriate for downstream applications and biomarkers screening.

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