{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["James Cleland"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["single nucleus RNA sequencing"],"organism":["Mus musculus domesticus"],"species":["Mus musculus domesticus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17108"],"description":["To test whether circulating gonadal hormones mediate sexual dimorphism in hepatocyte transcription, we performed single-nucleus RNA-sequencing on liver tissue from gonadectomised and sham control mice."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - Nuclei were released from cryopulverised liver tissue by homogenisation with a Qiagen TissueLyser III in hypotonic lysis buffer, resuspended in Sucrose PBS Triton X-100 MgCl2 (SBPSTM) buffer, fixed with MeOH/BS3, resuspended in SPBSTM and then stored at -80°C until use.","Sequencing - Libraries were sequenced on a NovaSeq6000 system with the following read lengths: read 1 34bp, read 2 184bp, index 1 10bp, index 2 10bp.","Library Construction - Sci-RNA-seq3 library preparation was performed in 96 well plates by reverse transcription (first index), ligation (second index), second strand synthesis, protease digestion, tagmentation and PCR (third index), bead-cleanup and quality control.","Sample Treatment - Half of the mice were gonadectomised and the other half subjected to the same surgical procedure except for gonad removal (sham controls).","Sample Collection - 6 week old wild type C57BL/6J mice of both sexes (Charles River) were gonadectomized according to standard procedures, then sacrificed by carbon thiopental overdose 5 weeks later. To partially control for time-of-day effects, tissue collection windows were kept as narrow as possible and groups were collected in alternating order. Estrous cycle stage was not assessed in females. Mice were not fasted before organ collection. Liver tissue was snap-frozen on liquid nitrogen, pulverised with a Covaris CP02 automated tissue pulverizer and stored at -80˚C as described previously (Panten et al. 2024)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["James Cleland"],"additional_accession":[]},"is_claimable":false,"name":"Single-nucleus RNA-seq of livers from gonadectomised and sham control mice","description":"To test whether circulating gonadal hormones mediate sexual dimorphism in hepatocyte transcription, we performed single-nucleus RNA-sequencing on liver tissue from gonadectomised and sham control mice.","dates":{"release":"2026-06-11T00:00:00Z","modification":"2026-06-11T01:00:46.482Z","creation":"2026-05-28T13:38:36.321Z"},"accession":"E-MTAB-17108","cross_references":{"ENA":["ERP194114"],"Biostudies":["E-MTAB-13987"],"EFO":["EFO_0002944","EFO_0004170","EFO_0009809","EFO_0005518","EFO_0004184","EFO_0003969"]}}