{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Luciano Cascione"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15933"],"description":["We investigated the transcriptomic profiles of non-stimulated samples from day 14 of differentiation with those from day 0"],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - The libraries have been sequenced using HiSeq2000 in the Genomics Facility of the institute of oncology research","Sample Collection - sample preparation began with gel digestion of muscle constructs using Trizol (TR118 MRC), followed by phase separation with 1-Bromo-3-chloropropane (B9673).","Library Construction - NEBNext UltraExpress RNA Library Prep Kit for Illumina (New England BioLabs Inc.) was employed with the NEBNext Multiplex Oligos for Illumina (New England BioLabs Inc.) and NEBNext® Poly(A) mRNA Magnetic Isolation Module for cDNA synthesis with the addition of barcode sequences.","Nucleic Acid Extraction - RNA extraction from muscle cells was then performed according to ReliaPrep™ RNA Miniprep Systems’ protocol (Promega), which included DNase treatment."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg38 whole genome using STAR with default paramenters. Genes' Expression have been quantified using HT-Seq count using gencode v22 as gtf.","Data Transformation - Read counts have been normalized with TMM algorithm, and converted into log2 counts per million of mapped reads (cpm)"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina HiSeq 2000"],"pubmed_abstract":["Image 1."],"study_type":["RNA-seq of coding RNA"],"species":["Homo sapiens"],"pubmed_title":["Biofabrication of a 3D human skeletal muscle microenvironment to study the early steps of fibrosis"],"pubmed_authors":["Luciano Cascione"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomics profile of myobundles' maturation level","description":"We investigated the transcriptomic profiles of non-stimulated samples from day 14 of differentiation with those from day 0","dates":{"release":"2025-10-30T00:00:00Z","modification":"2026-06-16T12:20:49.558Z","creation":"2025-10-30T15:19:51.583Z"},"accession":"E-MTAB-15933","cross_references":{"ENA":["ERP183400"],"EFO":["EFO_0002944","EFO_0004170","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"],"doi":["10.1016/j.mtbio.2025.102386"]}}