{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":[null],"organism":["Drosophila melanogaster"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-13735"],"description":["RNA Seq analysis of total RNA from adult ovaries to determine differential gene expression between the following genotypes: w[1118] control strain, homozygous tox4 null allele, with or without GFP-tox4 transgenic rescue, homozygous PNUTS null allele with transgenic constructs disrupting PP1-binding or tox4-binding, each in triplicate. Read depth was approx. 45-55M reads/replicate."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Growth Protocol - Flies were grown at 25°C on standard media containing maize, sugar, yeast, agar and anti-fungal agents.","Library Construction - RNA-sequencing libraries were constructed using the Stranded Total RNA Prep. Ligation with Ribo-Zero Plus kit (Illumina, Inc.) according to the manufacturer’s protocol, except with a hybridization step using customised oligonucleotide probes for depletion of Drosophila rRNA.","Sequencing - 159 bp paired-end reads from biological triplicates for each condition were generated using the NovaSeq6000 system (Illumina).","Sample Collection - Ovaries were dissected in 1 x PBS and then transferred into TRIzol reagent.","Nucleic Acid Extraction - RNA was extracted from 10 pairs of ovary/sample. Total RNA was extracted according to the manufacturer’s instructions and RNA was stored in RNAse free water. Quantity and quality of RNA was quantified using Nanodrop ND-2000 (Thermo Fisher Scientific) and Agilent TapeStation system (Agilent)."],"figure_sub":["MINSEQE Score","Assays and Data","organisation","MAGE-TAB Files"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA"],"species":["Drosophila melanogaster"],"additional_accession":["ERP156843"],"pubmed_authors":["Ian Donaldson","Daimark Bennett"]},"is_claimable":false,"name":"Genome-wide study of the role of Tox4 on gene expression in adult Drosophila ovaries","description":"RNA Seq analysis of total RNA from adult ovaries to determine differential gene expression between the following genotypes: w[1118] control strain, homozygous tox4 null allele, with or without GFP-tox4 transgenic rescue, homozygous PNUTS null allele with transgenic constructs disrupting PP1-binding or tox4-binding, each in triplicate. Read depth was approx. 45-55M reads/replicate.","dates":{"release":"2025-05-06T00:00:00Z","modification":"2026-06-05T19:05:30.77Z","creation":"2024-01-24T12:37:21.421Z"},"accession":"E-MTAB-13735","cross_references":{"ENA":["ERP156843"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0005518","EFO_0003738","EFO_0004184"]}}