{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Pasqualino de Antonellis"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15292"],"description":["We 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."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic 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."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"data_protocol":["Data 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."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000","Chromium Controller"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Mus musculus"],"pubmed_authors":["Pasqualino de Antonellis","Michael Taylor","Maria Vladoiu","Cory Richman"],"additional_accession":[]},"is_claimable":false,"name":"Modelling group 3 medulloblastoma post radiotherapy","description":"We 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.","dates":{"release":"2025-07-10T00:00:00Z","modification":"2025-07-10T17:09:43.57Z","creation":"2025-06-30T21:02:14.42Z"},"accession":"E-MTAB-15292","cross_references":{"ENA":["ERP174339"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}