{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Ye Liu"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16140"],"description":["To examine the impaired osteoclastogenic program in Senp6^LysM BMMs, we performed RNA-seq on WT and Senp6^LysM BMMs stimulated with RANKL for 0 h (R0), 16 h (R16), and 36 h (R36), corresponding to sequential stages of early osteoclastogenesis."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - We performed RNA-seq on WT and Senp6LysM BMMs stimulated with RANKL for 0h (R0), 16h (R16), and 36h (R36), representing different stages of early osteoclastogenesis.","Sequencing - NovaSeq 6000,2x100bp","Nucleic Acid Extraction - BMM from Ctrl and Senp6LysM (n = 2) mice were seeded into 12-well plates and treated with RANKL for 0 hours (untreated), 16 hours, or 36 hours. Total RNA was isolated by TRIzol (Invitrogen) extraction, and genomic DNA was removed using DNA-freeTM DNA Removal kit (Thermo Fisher, AM1906).","Library Construction - RNA sequencing was performed by the Genomics Core at Van Andel Institute or BGI RNA-seq service. A total of 500 ng RNA from each sample was used for RNA-seq library preparation. Approximately 40 million reads were generated per library."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NA","Illumina NovaSeq 6000"],"study_type":["RNA-seq of total RNA"],"species":["Mus musculus"],"pubmed_title":["The deSUMOlyase SENP6 represses transposable elements-induced innate immune response to support osteoclastogenesis"],"pubmed_authors":["Ye Liu; Huadie Liu; Vladimir Molchanov; Yaguang Zhao; Saumya Bhagat; Lukai Zhai; Minmin Liu; Di Lu; H. Josh Jang; Tao Yang","Ye Liu"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of mouse bone-marrow–derived macrophages and osteoclast precursors (BMM, RANKL-16h, RANKL-36h) from wild-type and Senp6 conditional knockout mice","description":"To examine the impaired osteoclastogenic program in Senp6^LysM BMMs, we performed RNA-seq on WT and Senp6^LysM BMMs stimulated with RANKL for 0 h (R0), 16 h (R16), and 36 h (R36), corresponding to sequential stages of early osteoclastogenesis.","dates":{"release":"2026-09-28T00:00:00Z","modification":"2026-09-28T15:04:27.099Z","creation":"2025-11-14T16:41:19.611Z"},"accession":"E-MTAB-16140","cross_references":{"ENA":["ERP185105"],"EFO":["EFO_0002944","EFO_0004170","EFO_0009653","EFO_0005518","EFO_0004184"]}}