biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsSaad Salman Khan LodhiIllumina HiSeq 2500Standard molecular biology equipment (per Lexogen SENSE mRNA-seq kit protocol)Tissue Homogenizer (required to process mucosal tissue for the miRNeasy kit). Refrigerated Centrifuge (4 °C) (required for the miRNeasy protocol).NanoDrop ND-1000 spectrophotometer; Agilent 2100 BioanalyzerRNA-seq of coding RNAMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16565Doxorubicin (DOX) is a widely used chemotherapeutic agent that can cause off-target gastrointestinal (GI) toxicity. This experiment profiles DOX-induced transcriptomic responses by RNA-seq in mouse colon tissue (in vivo) across dose and time. Mice received DOX at 5 or 10 mg/kg by intravenous bolus injection on days 0 and 1, and were euthanized at 6, 24, 72, or 96 h after treatment initiation (the 6 h group was sampled prior to the second dose). Vehicle controls were dosed on the same schedule. Colon mucosal samples were collected for transcriptomic profiling, and raw paired-end FASTQ files are provided to support downstream analysis of GI toxicity mechanisms in vivo. A matched mouse colonoid (in vitro) RNA-seq dataset is deposited separately and can be linked via the related accession field and/or referenced in the manuscript.biostudies-arrayexpressNucleic Acid Extraction - Total RNA was extracted using the miRNeasy Mini Kit (Qiagen) following the manufacturer’s instructions. RNA quantity/purity were assessed by NanoDrop and RNA integrity was assessed by Agilent 2100 Bioanalyzer; samples with RIN > 6 and sufficient yield were used for library preparation.Sample Collection - Male C57BL/6J mice (10 weeks old) received doxorubicin (5 or 10 mg/kg) by i.v. bolus injection on days 0 and 1 and were euthanized at 6, 24, 72, or 96 h after treatment initiation (Gall et al. 2023). Colon mucosa was collected for transcriptomic profiling following reported procedures; vehicle controls were handled in parallel. Total RNA was extracted using the miRNeasy Mini Kit (Qiagen).Sequencing - Libraries were sequenced on an Illumina HiSeq 2500 platform using 100-bp paired-end reads (PE100), according to the manufacturer’s standard protocols.Library Construction - mRNA sequencing libraries were prepared from total RNA using the Lexogen SENSE mRNA-seq library preparation kit, following the manufacturer’s instructions, including sample indexing for multiplexing.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesSaad Salman Khan LodhifalseRNA-seq transcriptomics of doxorubicin (DOX) exposure in mouse colon tissue (in vivo; 0, 5, 10 mg/kg; 6, 24, 72, 96 h), with raw paired-end FASTQ files.Doxorubicin (DOX) is a widely used chemotherapeutic agent that can cause off-target gastrointestinal (GI) toxicity. This experiment profiles DOX-induced transcriptomic responses by RNA-seq in mouse colon tissue (in vivo) across dose and time. Mice received DOX at 5 or 10 mg/kg by intravenous bolus injection on days 0 and 1, and were euthanized at 6, 24, 72, or 96 h after treatment initiation (the 6 h group was sampled prior to the second dose). Vehicle controls were dosed on the same schedule. Colon mucosal samples were collected for transcriptomic profiling, and raw paired-end FASTQ files are provided to support downstream analysis of GI toxicity mechanisms in vivo. A matched mouse colonoid (in vitro) RNA-seq dataset is deposited separately and can be linked via the related accession field and/or referenced in the manuscript.2026-02-28T00:00:00Z2026-02-28T02:02:24.292Z2026-01-16T19:39:43.821ZE-MTAB-16565ERP187674EFO_0002944EFO_0004170EFO_0005518EFO_0003738EFO_0004184