{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Ben Towler"],"instrument_platform":["NextSeq 2000"],"study_type":["RNA-seq of coding RNA"],"organism":["Mus musculus"],"species":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15388"],"description":["RNAseq of mouse hip cartilage (hip caps) cultured for 44 hours in normoxia (21% O₂) or hypoxia (3% O₂), with or without 100 nM (2.6 µg/ml) recombinant human tissue inhibitor of metalloproteinases-3 (rhuTIMP-3) for the final 20 hours."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - The sequencing library was generated with the QuantSeq 3’ mRNA-Seq Library Prep kit FWD for Illumina (Lexogen).","Nucleic Acid Extraction - Total RNA was extracted with the miRNeasy kit (QIAGEN) with in-column DNA removal.","Sample Collection - Cartilage from mouse hip joints (hip caps) was dissected and cultured (two caps per well in a 96-well plate with serum-free Opti-MEM) under standard conditions for 72 hours. Half the samples were transferred to hypoxia (3% O₂) for 24 hours, after which rhuTIMP-3 was added to subsets of both normoxic and hypoxic samples for 20 hours. Hypoxic samples were cultured for a total of 44 hours in hypoxia. Samples were homogenized in QIAzol with the Precellys lysing kit CK28R and frozen at -80.","Sequencing - Sequencing was performed on a NextSeq 2000."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Ben Towler","Lisa Mullen","Manuela Mengozzi"],"additional_accession":[]},"is_claimable":false,"name":"Gene expression profile in mouse articular cartilage under normoxia (21% O2) and hypoxia (3% O2), with or without TIMP-3","description":"RNAseq of mouse hip cartilage (hip caps) cultured for 44 hours in normoxia (21% O₂) or hypoxia (3% O₂), with or without 100 nM (2.6 µg/ml) recombinant human tissue inhibitor of metalloproteinases-3 (rhuTIMP-3) for the final 20 hours.","dates":{"release":"2026-02-12T00:00:00Z","modification":"2026-02-12T11:16:59.671Z","creation":"2025-07-22T14:45:11.849Z"},"accession":"E-MTAB-15388","cross_references":{"ENA":["ERP177064"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003738","EFO_0004184"]}}