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A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [RNA-seq]

ABSTRACT: A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [RNA-seq]

PROVIDER: PRJNA1132515 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR29740900_1.fastq.gz	Fastqsanger.gz
	SRR29740900_2.fastq.gz	Fastqsanger.gz
	SRR29740901_1.fastq.gz	Fastqsanger.gz
	SRR29740901_2.fastq.gz	Fastqsanger.gz

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A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [scRNA-seq]

Project description:A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [scRNA-seq]

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A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [DNA methylation EPIC]

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A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [RNA-seq]

Project description:Glioblastoma remains incurable and, due to its infiltrative growth, high levels of treatment resistance and population of glioma initiating/stem cells (GICs), recurs in all patients. Here we design and characterize a novel induced-recurrence model in which mice xenografted with primary patient-derived GICs are treated with a therapeutic regimen closely recapitulating patient standard of care, followed by monitoring until tumours recur (IR-PDX). By tracking in vivo tumour growth, we confirm the patient specificity and initial efficacy of treatment prior to recurrence. Availability of longitudinally matched pairs of primary and recurrent GICs enabled patient-specific evaluation of the faithfulness with which the model recapitulated phenotypes associated with the true recurrence. Through comprehensive multi-omic analyses, we showed that the IR-PDX model recapitulated genomic, epigenetic, and transcriptional state heterogeneity changes upon recurrence in a patient-specific manner. The accuracy of the IR-PDX enabled both novel biological insights, including the positive association between glioblastoma recurrence and levels of ciliated neural stem cell-like tumour cells, and the identification of druggable patient-specific therapeutic vulnerabilities. This proof-of-concept study opens the possibility for prospective precision medicine approaches, in which the IR-PDX model is developed between first diagnosis and disease progression to identify target-drug candidates for use as second line of treatment at recurrence.

2025-03-20 | GSE271620 | GEO

A novel Induced-recurrence PDX model recapitulates epi-genomic features of Glioblastoma recurrence [scRNA-seq]

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Project description:A novel induced-recurrence PDX model recapitulates transcriptional and epi-genomic features of glioblastoma recurrence

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Longitudinal Performance of Epi proColon

Project description:This study will evaluate longitudinal performance of Epi proColon with respect to test positivity, longitudinal adherence to Epi proColon screening, adherence to follow-up colonoscopy and diagnostic yield, as well as assay failure rates.

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Characteristics PDX

Project description:Characteristics PDX

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Comparison of transcriptome profile between wild-type and Epi-df mutant plants

Project description:We identified and characterized a rice epigenetic mutant Epi-df which exhibits a dwarf stature and various floral defects that are inherited in a dominant fashion. We demonstrated that Epi-df participates in Polycomb repressive complex 2 (PRC2) mediated gene silencing. Epigenetic mutations results in ectopic expression of Epi-df and pleiotropic developmental defects in mutant plants. Moreover, ectopic expression of Epi-df leads to mis-regulated H3K27me3 and changed expression of hundreds of genes involved in a wide range of biological processes. We used microarrays to identify differentially expressed genes in Epi-df. For genome-wide expression analysis of Epi-df, three replicates of WT and Epi-df samples (RNA from 3-week-old seedlings) were analyzed on Affymetrix Genechip® Rice Genome arrays by an Affymetrix service facility (CapitalBio Corporation) according to the manufacturer’s protocols. Genes showing a 2-fold change with a q-value ≤ 0.05 were considered to be differentially expressed.

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