biostudies-arrayexpressYe LiuMus musculusBowtie2https://www.ebi.ac.uk/biostudies/studies/E-MTAB-17175To examine the impaired osteoclastogenic program in Senp6^LysM BMMs, we performed H3K9me3 CUT&RUN on WT and Senp6^LysM BMMs stimulated with RANKL for 16 h (R16) corresponding to sequential stages of early osteoclastogenesis.biostudies-arrayexpressNucleic Acid Extraction - EpiCypher CUT&RUN KitLibrary Construction - CUT&RUN libraries were prepared by the Van Andel Institute Genomics Core using a standard ChIP-style library preparation workflow.Sample Collection - BMMs from Ctrl (n = 3) and Senp6LysM (n = 2) mice were seeded into 12-well plates and treated with RANKL for 16 h. H3K9me3 CUT&RUN libraries were prepared from 50,000 cells per sample according to the EpiCypher CUT&RUN Kit v6 protocol.Sequencing - Element AVITI 2x75bpOrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesSequence Alignment - Raw CUT&RUN reads were adapter-trimmed and aligned to the mm39 reference genome using Bowtie2 v2.5.4, with parallel alignment to the E. coli spike-in genome for normalization.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsElement AVITICUT&RUNMus musculusThe deSUMOlyase SENP6 represses transposable elements-induced innate immune response to support osteoclastogenesisYe Liu; Huadie Liu; Vladimir Molchanov; Yaguang Zhao; Saumya Bhagat; Lukai Zhai; Minmin Liu; Di Lu; H. Josh Jang; Tao YangYe LiufalseH3K9me3 CUT&RUN of mouse bone-marrow–derived macrophages and osteoclast precursors (RANKL-16h) from wild-type and Senp6 conditional knockout miceTo examine the impaired osteoclastogenic program in Senp6^LysM BMMs, we performed H3K9me3 CUT&RUN on WT and Senp6^LysM BMMs stimulated with RANKL for 16 h (R16) corresponding to sequential stages of early osteoclastogenesis.2026-09-28T00:00:00Z2026-09-28T15:03:24.128Z2026-06-16T21:15:13.149ZE-MTAB-17175ERP195219E-MTAB-16140E-MTAB-16167EFO_0002944EFO_0009973EFO_0004170EFO_0004917EFO_0005518EFO_0004184