biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsCharles GirardotNextSeq 500RNA-seq of coding RNAMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-13693To describe gene expression changes associated with differentiation of mouse presomitic mesoderm (PSM) cells into somites, RNA sequencing (paired-end) was performed using non-cultured, wild-type PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regions. Smart-seq2 protocol was used, and each condition includes six biological replicates.biostudies-arrayexpressSequencing - single-end sequencing on illumina NextSeq 500Growth 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), respectivelyLibrary Construction - RNA-seq libraries were prepared following the Smart-seq2 described in Picelli et al., Nat Protoc, 2014OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesCharles GirardotEmilia EspositofalseRNA-seq of wild-type mouse PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regionsTo describe gene expression changes associated with differentiation of mouse presomitic mesoderm (PSM) cells into somites, RNA sequencing (paired-end) was performed using non-cultured, wild-type PSM tissues that were microdissected into tailbud, posterior PSM, anterior PSM, and somite regions. Smart-seq2 protocol was used, and each condition includes six biological replicates.2025-08-06T00:00:00Z2025-08-07T00:02:08.294Z2024-01-04T14:12:45.261ZE-MTAB-13693ERP156460EFO_0004170EFO_0005518EFO_0003738EFO_0004184