{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Tao Zhou"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14740"],"description":["To identify the downstream mRNA targeted by CDIPTOSP/STAU1 for degradation, RNA-Seq analyses were performed on SKOV3 cells transfected with si-NC (control), si-CDIPTOSP, and si-STAU1."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - RNA-Seq on SKOV3 cells was performed by LC-Bio Technology (Hangzhou, China), involving library preparation with poly-A enrichment, cDNA synthesis, and sequencing on an Novaseq™ 6000 platform.","Sample Collection - OC cell lines (SKOV3, A2780, OVCAR3, HO8910 and CaoV3) and a normal ovarian epithelial cell line (IOSE80) were obtained from the Cell Bank of Chinese Academy of Sciences (Shanghai, China), and cultured in a humidified incubator at 37°C with 5% CO2. RPMI-1640 medium (Gibco, USA) supplemented with 1% penicillin/streptomycin (PS) (NCM Biotech, China) and 10% fetal bovine serum (FSP500, ExCell Bio, China) was used to culture IOSE80, SKOV3, A2780,HO8910 and CaoV3 cells. OVCAR3 cells were cultured in RPMI-1640 medium containing 20% fetal bovine serum. SiRNAs (Gene Pharma, Shanghai, China) targeting CDIPTOSP,STAU1, and a negative control (si-NC) were transfected into SKOV3 and A2780 cells using Lipofectamine 2000 (Invitrogen, USA).","Sequencing - Quality control was performed with FastQC, and reads were processed with Trimmomatic before alignment to the human reference genome using STAR aligner.","Nucleic Acid Extraction - Total RNA was extracted from cells transfected for 48 hours using TRIzol reagent (Vazyme, Nanjing, China). Subsequently, reverse transcription was performed using the HiScript III RT SuperMix for qPCR kit (Vazyme) in accordance with the manufacturer's instructions."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Transcript quantification was achieved with featureCounts, and differential expression analysis was carried out using DESeq2.Differentially expressed transcripts (DETs) were defined with fold change > 2 and false discovery rate (FDR) < 0.05."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of total RNA"],"species":["Homo sapiens"],"pubmed_authors":["Tao Zhou"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic analysis of the interactions between CDIPTOSP and STAU1","description":"To identify the downstream mRNA targeted by CDIPTOSP/STAU1 for degradation, RNA-Seq analyses were performed on SKOV3 cells transfected with si-NC (control), si-CDIPTOSP, and si-STAU1.","dates":{"release":"2025-12-31T00:00:00Z","modification":"2025-12-31T02:02:15.177Z","creation":"2025-01-02T16:17:06.441Z"},"accession":"E-MTAB-14740","cross_references":{"ENA":["ERP167461"],"EFO":["EFO_0002944","EFO_0004170","EFO_0009653","EFO_0005518","EFO_0003816","EFO_0004184"]}}