{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Single Cell Omics Platform CBMR"],"organism":["Mus musculus"],"software":["nf-core/rnaseq v3.5.0"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17580"],"description":["BAT transcriptome from control and brown adipocyte-specific Rev-erbα/β double knockout mice housed at thermoneutrality or cold-challenged for 6 hours. Brown adipose tissue (BAT) samples were collected from control and brown adipocyte-specific Rev-erbα/β double knockout mice (Ucp1-Cre; Nr1d1/2 fl/fl) on a C57BL/6J background. Male mice 13-16 weeks old were maintained under thermoneutral conditions (29°C). The thermoneutral group were group housed. The cold-challenged group were singly housed for 4 days at 29°C and then exposed to cold (4°C) for 6 hours (ZT4 to ZT10). BAT was collected, snap-frozen prior, and kept at -70 °C before the RNA extraction."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - polyadenylated mRNA was isolated from 1 μg of total RNA by incubation with oligo-dT beads and prepared according to manufacturer’s protocol (TrueSeq 2, Illumina). Isolated RNA was treated with DNase I (NEBM0303L) by mixing 250 ng of RNA, 8 Units of DNase I and DNase buffer in 10 µl reaction volume per sample and incubation the reaction mix for 15 min at 37 °C. Reaction was quenched by thorough vortexing of the samples and incubation at 85 °C for 5 min.","Sequencing - Sequencing was performed on an Illumina NovaSeq 6000 platform using SP 100-cycle v1.5 reagents, generating 52-bp paired-end reads. Libraries were sequenced at a molarity of 2 nM with a 1% PhiX spike-in control.","Sample Treatment - 12- to 16-week-old mice were individually housed and placed into climate-controlled rodent incubators (Memmert HPP750Life) set to 29°C to acclimate to thermoneutrality for two weeks. Cold exposure mice were then moved to an incubator set to 4°C and kept there until dissection. Tissues were harvested between 9 AM (ZT3) and 1PM (ZT7)","Sample Collection - Tissues were harvested at the end of cold challenge between 9 AM (ZT3) and 1PM (ZT7).","Growth Protocol - Light in the facility was set to a 12 h light/dark cycle (light: 6 AM-6 PM and dark: 6 PM-6 AM) at 22±2°C. Studies were performed in male and female mice between 12 and 16 weeks of age.","Library Construction - mRNA-seq libraries were prepared using the Universal Plus mRNA-seq library preparation kit with NuQuant (TECAN, Männedorf, Switzerland, Cat. #M01485 V8) according to the manufacturer’s instructions."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - FASTQ files were analyzed using nf-core/rnaseq v3.5.0 with the parameters --with_umi, --skip_umi_extract, and --umitools_umi_separator \\\":\\\", using the Mus musculus GRCm38 reference genome.","Data Transformation - Uploaded data is raw reads, each row is a gene and each column is a sample. No normalization has been performed."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA"],"species":["Mus musculus"],"pubmed_title":["Mitochondrial carrier SLC25A34 links clock, diet, and temperature control of adipocyte lipid cycling"],"pubmed_authors":["Iuliia Karavaeva, Astrid Linde Basse, Samuel A. J. Trammell, Mohammed Faiz Hussain, Lasse Kruse Markussen, Jesper F. Havelund, Marie Sophie Isidor, Adam Chatoff, Andrea A. Huacachino, Hannah J. Richter, Meghna Birla, Sabina Chubanava, Yann Deleye, Rini Arianti, David Tandio, Sarah E. Utzon, Zafir Kaiser, Yachen Shen, Ditte Neess, Hannes Embring, Dilip Menon, Olivia J. Conway, Frederike Sass, Fabian Finger, Lidia Argemi-Muntadas, Tao Ma, Elahu G. Sustarsic, Cecilie Kynding Kristensen, Rebecca L. McIntyre, Genesee J. Martinez, Anna Sofie Husted, Matthew J. Emmett, Zachary A. Kipp, Mikkel Frost, Mark P. Jedrychowski, Michel van Weeghel, Homa Majd, Ekaterina Zhuravleva, Robert W. McGarrah, Kaja Plucińska, Mohit K. Midha, Andreas Prokesch, Paul Cohen, James G. Granneman, Patrick Seale, Riekelt H. Houtkooper, Jacob B. Hansen, Steven P. Gygi, Thue W. Schwartz, Matthew P. Gillum, Terry D. Hinds, Jr., Raymond E. Soccio, Phillip J. White, Edmund R. S. Kunji, Thomas Moritz, Jonas T. Treebak, Endre Kristóf, Susanne Mandrup, Brice Emanuelli, Nathaniel W. Snyder, Daniel J. Fazakerley, Lawrence Kazak, Nils J. Færgeman, Mitchell A. Lazar, Zachary Gerhart Hines,","Iuliia Karavaeva","Single Cell Omics Platform CBMR","Zachary Gerhart-Hines"],"additional_accession":[]},"is_claimable":false,"name":"Mitochondrial carrier SLC25A34 links clock, diet, and temperature control of adipocyte lipid cycling","description":"BAT transcriptome from control and brown adipocyte-specific Rev-erbα/β double knockout mice housed at thermoneutrality or cold-challenged for 6 hours. Brown adipose tissue (BAT) samples were collected from control and brown adipocyte-specific Rev-erbα/β double knockout mice (Ucp1-Cre; Nr1d1/2 fl/fl) on a C57BL/6J background. Male mice 13-16 weeks old were maintained under thermoneutral conditions (29°C). The thermoneutral group were group housed. The cold-challenged group were singly housed for 4 days at 29°C and then exposed to cold (4°C) for 6 hours (ZT4 to ZT10). BAT was collected, snap-frozen prior, and kept at -70 °C before the RNA extraction.","dates":{"release":"2026-09-23T00:00:00Z","modification":"2026-09-23T13:38:51.502Z","creation":"2026-09-04T12:34:30.593Z"},"accession":"E-MTAB-17580","cross_references":{"ENA":["ERP204955"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184","EFO_0003969"]}}