biostudies-arrayexpressMiguel Gonzalez AceraMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15485Whole right brain hemispheres of mice with T-cell-driven small intestinal inflammation caused by anti-CD3 injection and controls to study the impact of gut inflammation on the brainbiostudies-arrayexpressSequencing - The clustering of the index-coded samples was performed according to the manufacturer’s instructions. After cluster generation, the library preparations were sequenced on an Illumina platform and paired-end reads were generatedSample Collection - Mice were sacrificed after 6 or 24 hours of aCD3 or 24 hours of isotype control, respectively. After transcardial perfusion, right brain hemispheres were dissected and isolated RNA sent for sequencingNucleic Acid Extraction - RNA isolation was performed using the RNeasy Mini kit (QIAGEN) following the manufacturer’s instructions.Sample Treatment - Male C57BL/6J mice were injected intraperitoneally with 30µg purified NA/LE Hamster anti-mouse CD3e antibody (BD Bioscience) in PBS, whereas control mice received 30µg Hamster IgG NA/LE isotype control (BD Bioscience)Library Construction - Messenger RNA was purified from total RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers, followed by the second strand cDNA synthesis using either dUTP for directional library or dTTP for non-directional library. The library was checked with Qubit and real-time PCR for quantification and bioanalyzer for size distribution detection. Quantified libraries will be pooled and sequenced on Illumina platforms, according to effective library concentration and data amount.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Normalization of the data was performed by DESeq2 using the mean of ratios.Sequence Alignment - Sequence mapping and alignment was performed using STAR v2.7.10bUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNAMus musculusHeidi LimbergerJay PatankarMiguel Gonzalez AcerafalseBulk RNA-Sequencing of brain hemispheres of mice with anti-CD3-induced small intestinal inflammationWhole right brain hemispheres of mice with T-cell-driven small intestinal inflammation caused by anti-CD3 injection and controls to study the impact of gut inflammation on the brain2026-01-01T00:00:00Z2026-01-02T02:02:37.613Z2025-08-13T14:43:55.53ZE-MTAB-15485ERP178734E-MTAB-15482E-MTAB-15484E-MTAB-15483E-MTAB-15489E-MTAB-15488EFO_0002944EFO_0004170EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969