{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Charles Girardot"],"instrument_platform":["NextSeq 500"],"study_type":["ATAC-seq"],"organism":["Mus musculus"],"species":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-13692"],"description":["To describe chromatin accessibility changes associated with differentiation of mouse presomitic mesoderm (PSM) cells into somites, ATAC sequencing (paired-end) was performed using non-cultured, wild-type PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regions. Omni-ATAC protocol was used, and each condition includes six biological replicates.�"],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - paired-end sequencing on illumina NextSeq 500","Library Construction - ATAC-seq library were prepared following the Omni-ATAC protocol (Corces et al., Nat Methods, 2017).","Growth Protocol - Mice were crossed, and females were dissected 10 days after a detection of vaginal plug, and the PSM tissues isolated.","Growth Protocol - PSM explants of E10.5 wild-type embryos were microdissected into tail bud, posterior PSM, anterior PSM, and somite regions by micro scalpel in cold PBS. Each tissue region was transferred into a micro well (ibidi, #80486) and mechanically dissociated to a cell suspension in 4.2 �l cold PBS. Finally, 0.7 �l and 3.3 �l cell suspensions were used for RNA-sequencing (RNA-seq) and ATAC-sequencing (ATAC-seq), respectively"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Charles Girardot","Emilia Esposito"],"additional_accession":[]},"is_claimable":false,"name":"ATAC-seq of wild-type mouse PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regions","description":"To describe chromatin accessibility changes associated with differentiation of mouse presomitic mesoderm (PSM) cells into somites, ATAC sequencing (paired-end) was performed using non-cultured, wild-type PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regions. Omni-ATAC protocol was used, and each condition includes six biological replicates.�","dates":{"release":"2025-08-06T00:00:00Z","modification":"2025-08-07T00:01:25.679Z","creation":"2024-01-04T14:11:51.262Z"},"accession":"E-MTAB-13692","cross_references":{"ENA":["ERP156459"],"EFO":["EFO_0007045","EFO_0004170","EFO_0005518","EFO_0004184"]}}