{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["jiayu chen"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16271"],"description":["Investigating the underlying mechanisms of hepatic lipid accumulation in hyperuricemic conditions. Using hepatic uricase knockout mice as a disease model, we examined transcriptional changes occurring in the mouse liver under hyperuricemic conditions, integrating these findings with the lipid accumulation phenotype."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - Animal samples were extracted using the Trizol method. The extracted RNA was dissolved in 50 μL of DEPC-treated water. The quantity and quality of the total RNA were assessed using a Qubit fluorometer and a Qsep400 high-throughput biofragment analyzer.","Sequencing - The qualified libraries were sequenced on either an Illumina platform or a BGI sequencing platform to generate 150 bp paired-end reads. Sequencing was performed using the sequencing-by-synthesis (SBS) principle.","Library Construction - Strand-specific RNA-seq libraries were prepared. Briefly, mRNA was enriched from total RNA using Oligo(dT) magnetic beads. The purified mRNA was fragmented using fragmentation buffer at an elevated temperature. First-strand cDNA was synthesized using random hexamer primers. Second-strand cDNA was synthesized incorporating dUTP in place of dTTP to achieve strand specificity, followed by end repair, A-tailing, and adapter ligation. Libraries were size-selected for insert sizes of 250-350 bp using DNA magnetic beads and then amplified by PCR. Final library quality was assessed using a Qubit fluorometer and a Qsep400 analyzer. For the DNB platform, the double-stranded DNA library was circularized to form single-stranded circular DNA, which was then rolled-circle amplified to produce DNA nanoballs (DNBs).","Sample Collection - Mice were euthanized by cervical dislocation at 12 weeks of age. The liver tissue was immediately dissected, rapidly frozen in liquid nitrogen, and subsequently stored at -80°C."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - FPKM= (mapped fragments of transcript)/(Total Count of mapped fragments (Millions) * Length of transcript (kb))"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["no","Qubit fluorometer","Illumina NovaSeq 6000","Qsep400"],"study_type":["RNA-seq of total RNA"],"species":["Mus musculus"],"pubmed_title":["Activation of mitophagy antagonizes high uric acid-induced hepatic lipid accumulation"],"pubmed_authors":["jiayu chen"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of UOX-KO Mouse Liver","description":"Investigating the underlying mechanisms of hepatic lipid accumulation in hyperuricemic conditions. Using hepatic uricase knockout mice as a disease model, we examined transcriptional changes occurring in the mouse liver under hyperuricemic conditions, integrating these findings with the lipid accumulation phenotype.","dates":{"release":"2025-11-26T00:00:00Z","modification":"2026-05-30T15:45:20.467Z","creation":"2025-11-24T07:57:00.311Z"},"accession":"E-MTAB-16271","cross_references":{"ENA":["ERP185523"],"EFO":["EFO_0002944","EFO_0004170","EFO_0009653","EFO_0005518","EFO_0003816","EFO_0004184"]}}