{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Tímea Bálint"],"organism":["Rattus norvegicus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17114"],"description":["Left ventricular myocardial transcriptomic profiling was performed in rats subjected to transverse aortic constriction (TAC)-induced heart failure and sham-operated controls to investigate gene expression changes associated with pressure overload-induced cardiac remodeling. The dataset was used in studies investigating novel molecular targets in heart failure, including G-protein-coupled receptor (GPCR)-associated pathways and microRNA-regulated target networks."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - For mRNA-Seq library construction, NEXTFLEX® Rapid Directional RNA-Seq Kit 2.0 with Poly(A) Beads 2.0 (PerkinElmer, Waltham, MA, USA) was applied according to the manufacturer’s protocol. The quality and quantity of the library was determined by using High Sensitivity DNA1000 ScreenTape system with 2200 Tapestation (Agilent Technologies, Santa Clara, CA, USA) and dsDNA HS Assay Kit with Qubit 3.0 Fluorometer (Thermo Fisher Scientific, Waltham, MA, USA).","Sequencing - Pooled libraries were diluted to 1.6 pM for 2x80 bp paired-end sequencing with 150-cycle High Output v2 Kit on the NextSeq 500 Sequencing System (Illumina, San Diego, CA, USA) according to the manufacturer’s protocol.","Nucleic Acid Extraction - Total RNA was isolated from rat heart tissue using a chloroform/isopropanol precipitation method. Samples were homogenized in QIAzol® reagent (Qiagen, Venlo, The Netherlands) with TissueLyser (Qiagen, Venlo, The Netherlands), followed by chloroform phase separation and isopropanol precipitation of total RNA. RNA pellets were washed with 75% ethanol and resuspended in nuclease-free water.","Sample Collection - Left ventricular myocardial samples were collected from rat hearts, snap-frozen in liquid nitrogen immediately after excision, and stored at −80°C until RNA extraction."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Raw sequencing reads were preprocessed by Cutadapt (version 3.0) to remove adapter sequences, poly(A) tails, and low-quality bases with a Phred score below 30. Reads shorter than 19 nt were filtered out. Quality control was performed using FastQC (version 0.11.8) and MultiQC (version 1.7). Reads were aligned to the Ensembl Rnor 6.0 reference genome using Hisat2 (version 2.0.4), and gene-level expression counts were generated using featureCounts (version 2.0.0). Differential expression analysis and transcript-per-million (TPM) calculations were performed in R using DESeq2 (version 1.10.1)."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NextSeq 500"],"pubmed_abstract":["The identification of novel drug targets is needed to improve the outcomes of heart failure (HF). G-protein-coupled receptors (GPCRs) represent the largest family of targets for already approved drugs, thus providing an opportunity for drug repurposing. Here, we aimed (i) to investigate the differential expressions of 288 cardiac GPCRs via droplet digital PCR (ddPCR) and bulk RNA sequencing (RNAseq) in a rat model of left ventricular pressure-overload; (ii) to compare RNAseq findings with those of ddPCR; and (iii) to screen and test for novel, translatable GPCR drug targets in HF. Male Wistar rats subjected to transverse aortic constriction (TAC, <i>n</i> = 5) showed significant systolic dysfunction vs. sham operated animals (SHAM, <i>n</i> = 5) via echocardiography. In TAC vs. SHAM hearts, RNAseq identified 69, and ddPCR identified 27 significantly differentially expressed GPCR mRNAs, 8 of which were identified using both methods, thus showing a correlation between the two methods. Of these, Prostaglandin-F2α-receptor (<i>Ptgfr</i>) was further investigated and localized on cardiomyocytes and fibroblasts in murine hearts via RNA-Scope. Antagonizing <i>Ptgfr</i> via AL-8810 reverted angiotensin-II-induced cardiomyocyte hypertrophy in vitro. In conclusion, using ddPCR as a novel screening method, we were able to identify GPCR targets in HF. We also show that the antagonism of <i>Ptgfr</i> could be a novel target in HF by alleviating cardiomyocyte hypertrophy."],"study_type":["RNA-seq of coding RNA"],"species":["Rattus norvegicus"],"pubmed_title":["Droplet Digital PCR Is a Novel Screening Method Identifying Potential Cardiac G-Protein-Coupled Receptors as Candidate Pharmacological Targets in a Rat Model of Pressure-Overload-Induced Cardiac Dysfunction"],"pubmed_authors":["Sayour NV, Tóth VÉ, Nagy RN, Vörös I, Gergely TG, Onódi Z, Nagy N, Bödör C, Váradi B, Ruppert M, Radovits T, Bleckwedel F, Zelarayán LC, Pacher P, Ágg B, Görbe A, Ferdinandy P, Varga ZV","Tímea Bálint"],"additional_accession":[]},"is_claimable":false,"name":"Left ventricular myocardial transcriptomic profiling for target discovery in a rat model of pressure overload-induced heart failure","description":"Left ventricular myocardial transcriptomic profiling was performed in rats subjected to transverse aortic constriction (TAC)-induced heart failure and sham-operated controls to investigate gene expression changes associated with pressure overload-induced cardiac remodeling. The dataset was used in studies investigating novel molecular targets in heart failure, including G-protein-coupled receptor (GPCR)-associated pathways and microRNA-regulated target networks.","dates":{"release":"2026-06-11T00:00:00Z","modification":"2026-06-11T01:00:46.894Z","creation":"2026-06-01T15:52:49.348Z"},"accession":"E-MTAB-17114","cross_references":{"pubmed":["37762130"],"ENA":["ERP194194"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"],"doi":["10.3390/ijms241813826"]}}