{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Ya Chun Yu"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16196"],"description":["The aim of this study is to profile the distribution of the active histone modification H3K4me3 in BMDMs from WT and SLC1A5_var transgenic mice after low-dose LPS training. We compared the data of ChIP-seq performed on fragmented chromatin immunoprecipitated with anti-H3K4me3 antibody in naive and trained BMDM from both genotypes. Inter-group comparisons revealed increased differentially enriched peaks near promoters of pro-inflammatory genes of trained WT BMDMs, where as this changes were blunted in Tg BMDMs. Since SLC1A5_var function as unique mitochondrial glutamine transporter, the results indicate that altered glutaminolysis could impact epigenetic regulation under LPS-training,"],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Purified DNA was subjected to library construction using the NEBNext® UltraTM DNA Library Prep Kit for Illumina (New England Biolabs). In brief, the chipped DNA was ligated with adaptors for PCR with index primers for multiplexing sequencing.","Sample Collection - BMDM form both of WT and SLC1A5_var were trained with PBS or LPS overnight. Cells were washed and rested until day 6 and harvested.","Nucleic Acid Extraction - Approximately 5 × 106 BMDMs were fixed, and the nuclei were collected, after which the chromatin was isolated and immunoprecipitated using an anti-histone H3 (trimethylated K4) antibody (Abcam) and a high-sensitivity ChIP kit (Abcam) according to the manufacturer’s instructions.","Sequencing - High-throughput sequencing was performed as paired-end 150-bp sequencing using NovaSeq X Plus (Illumina)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq X"],"study_type":["ChIP-seq"],"species":["Mus musculus"],"pubmed_title":["Mitochondrial Glutaminolysis Governs the Epigenetic Training of Macrophages for Antitumor Immunity."],"pubmed_authors":["Ya Chun Yu, Yulseung Sung, Seonghun Lim, Jeoung Ah Kwon, Kuglae Kim, Do Sik Min, Hee Chan Yoo, Jung Min Han","Jung Min Han","Ya Chun Yu"],"additional_accession":[]},"is_claimable":false,"name":"ChIP-seq analysis of LPS trained BMDMs  reveals remodeling of Histone 3 Lysine 4 tri-methylation (H3K4me3)","description":"The aim of this study is to profile the distribution of the active histone modification H3K4me3 in BMDMs from WT and SLC1A5_var transgenic mice after low-dose LPS training. We compared the data of ChIP-seq performed on fragmented chromatin immunoprecipitated with anti-H3K4me3 antibody in naive and trained BMDM from both genotypes. Inter-group comparisons revealed increased differentially enriched peaks near promoters of pro-inflammatory genes of trained WT BMDMs, where as this changes were blunted in Tg BMDMs. Since SLC1A5_var function as unique mitochondrial glutamine transporter, the results indicate that altered glutaminolysis could impact epigenetic regulation under LPS-training,","dates":{"release":"2026-06-24T00:00:00Z","modification":"2026-06-24T03:04:00.41Z","creation":"2025-11-19T11:38:57.708Z"},"accession":"E-MTAB-16196","cross_references":{"ENA":["ERP191643"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002692","EFO_0005518","EFO_0004184"]}}