biostudies-arrayexpressPasqualino de AntonellisMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15292We have employed single cell RNA sequencing using the 10x Genomics platform to study the molecular mechanisms underlying resistance to treatment. In clinically relevant mouse models of G3 medulloblastoma, CT-guided fractionated radiotherapy was given to induce the clonal selection of radioresistant subpopulations. Comparison of recurrent and treatment naïve tumors revealed a prognostic gene expression signature reflective of radio-resistance.biostudies-arrayexpressNucleic Acid Extraction - Approximately 10,000–16,000 tissue dissociated viable cells were loaded per sample on the Chromium Controller for encapsulation into gel beads-in-emulsion (GEMS) for reverse transcription of barcoded RNA.Library Construction - Dynabead clean-up, PCR amplification and SPRIselect bead clean-up were carried out using the Chromium Single Cell 3' Gel Bead kit. Indexed single-cell libraries were generated using the Chromium Single Cell 3' Library kit and the Chromium i7 Multiplex kit.Sequencing - Each 10X library was subjected to quality control using the Agilent 2100 Bioanalyzer system and sequenced using the Illumina sequencing platform by The Centre for Applied Genomics.Sample Collection - Fresh tumor tissues were resected under a stereoscope at endpoint. PDX tumor tissues were mechanically and enzymatically dissociated using a collagenase-based dissociation method.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesData Transformation - Human single-cell datasets were normalized using methods derived from the Scran pipeline and size factors were calculated and applied to normalize gene expression, generating normalized log-expression values for each dataset.UnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000Chromium ControllerRNA-seq of coding RNA from single cellsMus musculusPasqualino de AntonellisMichael TaylorMaria VladoiuCory RichmanfalseModelling group 3 medulloblastoma post radiotherapyWe have employed single cell RNA sequencing using the 10x Genomics platform to study the molecular mechanisms underlying resistance to treatment. In clinically relevant mouse models of G3 medulloblastoma, CT-guided fractionated radiotherapy was given to induce the clonal selection of radioresistant subpopulations. Comparison of recurrent and treatment naïve tumors revealed a prognostic gene expression signature reflective of radio-resistance.2025-07-10T00:00:00Z2025-07-10T17:09:43.57Z2025-06-30T21:02:14.42ZE-MTAB-15292ERP174339EFO_0002944EFO_0004170EFO_0005684EFO_0005518EFO_0003816EFO_0004184