biostudies-arrayexpressWayo MatsushimaMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14692To determine the effects of Zscan10 on transcriptome, mouse ES cells (mESCs) carrying Zscan10 gene endogenously tagged with an FKBP12(F36V) degron were treated with dTAGv-1 to induce Zscan10 degradation and were assayed with RNA-seq.biostudies-arrayexpressNucleic Acid Extraction - RNA was extracted with High Pure RNA Isolation Kit (Roche, 11828665001).Library Construction - 500 ng of the isolated RNA was used to prepare RNA-seq libraries using QuantSeq 3′ mRNA-Seq V2 Library Prep Kit (Lexogen, 191.24) following the manufacturer’s instruction.Sample Collection - 1 million mESCs were detached with Accutase (Innovative Cell Technologies).Sequencing - The libraries were PE75 sequenced either on a NextSeq500 (Illumina) or an AVITI (Element Biosciences) by the Gene Expression Core Facility (GECF) at EPFL.Growth Protocol - Mouse embryonic stem cells (mESCs) were cultured in 2i+LIF medium composed of DMEM (Thermo Fisher, 10566-024), 10% ES Cell FBS (Thermo Fisher, 16141079), 1X MEM Non-Essential Amino Acids Solution (Thermo Fisher, 11140050), 1 mM sodium pyruvate (Thermo Fisher, 11360-039), 100 µM 2-Mercaptoethanol (Thermo Fisher, 31350-010), 100 U/ml Penicillin-Streptomycin (Thermo Fisher, 15140-122), 100 ng/ml of mouse LIF (Protein Production and Structure Core Facility, EPFL), 3 μM of GSK3 inhibitor (CHIR99021; Tocris Biosciences, 4423), and 2 μM of MEK1/2 inhibitor (PD0325901; Tocris Biosciences, 4192).Sample Treatment - To induce the degradation of Zscan10 endogenously tagged with an FKBP12(F36V), the cells were cultured in medium containing either 500 nM dTAGv-1 (MedChemExpress, HY-145514) or the same volume of DMSO for 72 h prior to harvest.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - Raw read mapping to mm10, filtering, and per 3′ UTR read quantification were performed with SLAM-DUNK with the parameters “-5 12 -n 100 -m -rl 75 -q --skip-sam”.Data Transformation - Raw read mapping to mm10, filtering, and per 3′ UTR read quantification were performed with SLAM-DUNK with the parameters “-5 12 -n 100 -m -rl 75 -q --skip-sam”.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsElement AVITIRNA-seq of coding RNAMus musculusWayo MatsushimafalseRNA-seq of mESCs treated with dTAGv-1 to induce endogenous Zscan10 degradationTo determine the effects of Zscan10 on transcriptome, mouse ES cells (mESCs) carrying Zscan10 gene endogenously tagged with an FKBP12(F36V) degron were treated with dTAGv-1 to induce Zscan10 degradation and were assayed with RNA-seq.2026-08-01T00:00:00Z2026-08-01T01:01:03.581Z2024-12-10T21:59:32.484ZE-MTAB-14692ERP166985E-MTAB-14689EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969