{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Márta Szabó"],"organism":["Rattus norvegicus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17177"],"description":["Rosiglitazone is an antidiabetic drug associated with controversial cardiovascular effects; however, its molecular impact on healthy myocardium remains insufficiently characterized. Therefore, this experiment aimed to identify rosiglitazone-induced gene expression changes related to cardiotoxicity in non-diabetic rat hearts using a multi-omics approach. The study was designed to support the development of preclinical strategies capable of detecting early molecular signatures associated with drug-induced cardiotoxicity. Male Wistar rats received daily oral rosiglitazone administration for 28 days, followed by sham surgery and tissue collection. Hearts were isolated and perfused using the Langendorff system to remove residual blood before downstream molecular analyses."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Following isolation, heart tissues were immediately snap-frozen in liquid nitrogen and mechanically powdered while maintained at cryogenic temperature to preserve RNA integrity.","Library Construction - Libraries were prepared using the QuantSeq 3′ mRNA-Seq Library Prep Kit FWD for Illumina.","Nucleic Acid Extraction - Total RNA was isolated from rat heart left ventricular tissue using Viogene miTotal RNA Extraction Miniprep System kit (Viogene Biotek) according to the manufacturer’s protocol. Tissue disruption and homogenization was beated for 15 s in Silamat S5 (Ivoclar Vivadent) with 4 glass beads in VRX lysis buffer. On column DNaseI digestion was performed with 5 U DNaseI (EN0521, Thermo Scientific) in 50 µl reaction volume. RNA was eluted with 30 µl nuclease-free water. Total RNA concentration was determined by Qubit RNA HS Assay Kit with Qubit 3.0 Fluorometer (Thermo Fisher Scientific, Waltham, MA, USA). The RNA Integrity Numbers were determined by RNA ScreenTape system with 2200 Tapestation (Agilent Technologies, Santa Clara, CA, USA).","Sequencing - Pooled libraries were diluted to 1.8 nM for dual indexed, 1x126 bp single read sequencing with S2 Reagent Kit 1.5 (100 cycles) on Novaseq6000 Sequencing System (Illumina, San Diego, CA, USA) according to the manufacturer’s protocol."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Sequencing reads were processed with Cutadapt (v4.1) to remove adapter sequences, poly(A) stretches, and low-quality bases with Phred scores below 30. Reads shorter than 19 nucleotides after trimming were excluded from further analysis. Quality assessment of the processed reads was performed by FastQC (v0.11.9) and MultiQC (v1.13). The filtered reads were subsequently aligned to the rat reference genome from Ensembl (genome assembly: Rnor_6; Ensembl release 104) using HISAT2 (v2.2.1), and gene-level read counts were computed with featureCounts (v2.0.1) based on the corresponding reference annotation."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NextSeq 2000"],"study_type":["RNA-seq of coding RNA"],"species":["Rattus norvegicus"],"pubmed_authors":["Márta Szabó"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of non-diabetic rat hearts treated with rosiglitazone against vehicle-treated controls","description":"Rosiglitazone is an antidiabetic drug associated with controversial cardiovascular effects; however, its molecular impact on healthy myocardium remains insufficiently characterized. Therefore, this experiment aimed to identify rosiglitazone-induced gene expression changes related to cardiotoxicity in non-diabetic rat hearts using a multi-omics approach. The study was designed to support the development of preclinical strategies capable of detecting early molecular signatures associated with drug-induced cardiotoxicity. Male Wistar rats received daily oral rosiglitazone administration for 28 days, followed by sham surgery and tissue collection. Hearts were isolated and perfused using the Langendorff system to remove residual blood before downstream molecular analyses.","dates":{"release":"2026-09-01T00:00:00Z","modification":"2026-09-01T05:18:21.533Z","creation":"2026-06-16T21:29:05.205Z"},"accession":"E-MTAB-17177","cross_references":{"ENA":["ERP195220"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"]}}