{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Tongtong Wang"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15819"],"description":["Brown adipocyte-specific ChREBP knockout were generated by crossing mice with a floxed exon1a in the Mlxipl gene with Ucp1-Cre mice. These ChREBPflox/flox Ucp1-Cre+ (Cre+) mice and ChREBP-expressing control (Cre-) mice were studied under various conditions of BAT activation. Housing at room temperature (22°C, RT) was chosen as a control condition when BAT is mildly activated. Cold-exposure (6°C) was carried out for 1 day (acute cold ), as an early stage when proliferative processes of BAT adaptation are not yet taking place, or for 10 days (chronic cold) when BAT is fully expanded."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - the sequencing was performed at NovaSeq 6000 platform S4 flow cell (Illumina, San Diego) with PE150 strategy.","Nucleic Acid Extraction - Nuclei were loaded on a 10x Chip G directly","Library Construction - 10x 3' V3.1 library construction","Growth Protocol - none","Sample Treatment - cold exposure","Sample Collection - Frozen adipose tissue was minced into 1–3 mm pieces on ice. The minced tissue was homogenized in a Dounce homogenizer on ice in 0.1% CHAPS in CST buffer with 0.2U Rnase inhibitor, lysed for 5 min, and quenched by 1% BSA in PBS with 0.2U Rnase inhibitor. The homogenized adipose tissue was filtered through a 40 μm cell strainer and centrifuged at 500 x g for 5 min at 4°C. The pellet was resuspended and washed with 1% BSA in PBS with 0.2U Rnase inhibitor. The nuclei suspension was centrifuged again at 500 x g for 5 min at 4°C, resuspended in 1% BSA containing PBS with 1U Rnase inhibitor, and filtered through a 20 μm strainers."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Cell Ranger (v7.1.0) was used for demultiplexing and alignment to the reference genome GRCm38 (mm10). Single-nucleus mRNA-sequencing (snRNA-seq) data were processed using the Seurat [89] package (v5.1) in R. For quality control, nuclei with more than 15% mitochondrial reads, more than 25,000 mRNA counts or more than 5,000 detected genes were excluded. Genes found in fewer than 3 cells were removed. After quality control filtering, an average of 5,778 nuclei per sample were retained, with a median per-nucleus complexity across all samples of 2,163 features and 4,811 UMIs. Six samples were integrated using the Harmony (v1.2.3) algorithm, with default parameters and sample ID as a grouping variable.","Sequence Alignment - FASTQ files extracted from tar archives Alignment and quantification with Cell Ranger count (10x Genomics), parameters: --nosecondary --no-bam"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["single nucleus RNA sequencing"],"species":["Mus musculus"],"pubmed_title":["Single-nucleus mRNA-sequencing reveals dynamics of lipogenic and thermogenic adipocyte populations in murine brown adipose tissue in response to cold exposure"],"pubmed_authors":["Janina Behrens, Tongtong Wang, Christoph Kilian, Anna Worthmann, Joerg Heeren, Lorenz Adlung, Ludger Scheja","Tongtong Wang"],"additional_accession":[]},"is_claimable":false,"name":"Single-nucleus mRNA-sequencing reveals dynamics of lipogenic and thermogenic adipocyte populations in murine brown adipose tissue in response to cold exposure","description":"Brown adipocyte-specific ChREBP knockout were generated by crossing mice with a floxed exon1a in the Mlxipl gene with Ucp1-Cre mice. These ChREBPflox/flox Ucp1-Cre+ (Cre+) mice and ChREBP-expressing control (Cre-) mice were studied under various conditions of BAT activation. Housing at room temperature (22°C, RT) was chosen as a control condition when BAT is mildly activated. Cold-exposure (6°C) was carried out for 1 day (acute cold ), as an early stage when proliferative processes of BAT adaptation are not yet taking place, or for 10 days (chronic cold) when BAT is fully expanded.","dates":{"release":"2025-11-10T00:00:00Z","modification":"2026-05-27T14:44:24.045Z","creation":"2025-10-22T14:25:32.999Z"},"accession":"E-MTAB-15819","cross_references":{"ENA":["ERP182709"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0004917","EFO_0009809","EFO_0005518","EFO_0003816","EFO_0004184","EFO_0003969"],"doi":["10.1016/j.molmet.2025.102252"]}}