characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2023-03-31T00:22:24Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2023-03-31T00:22:24Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA112203759
characteristics.characteristic: External Id
characteristics.text: Cancer Research UK Cambridge Institute.
characteristics.characteristic: INSDC center name
characteristics.text: 2023-03-31T00:22:24Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-03-31T00:22:24Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS14314564
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12511:e31_SI
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: house mouse
characteristics.characteristic: common name
characteristics.text: Protocols: Mouse embryos from the appropriate somite stages (8 to 35 somites) were dissected in RNAse-free conditions in cold PBS, on silicone plates. To dissect out the somites, embryos were treated with dispase II (1mg/mL in DMEM) for 30-45 seconds at 37°C. The three most posterior pairs of somites were then collected using tungsten needles, dissecting out every somite separately. We labelled each somite pair as somite I, II or III, from the most posterior to the most anterior, respectively. Each individual somite was placed in 10µL of lysis buffer (Takara) containing RNase inhibitor. One somite from each pair was flash frozen in liquid nitrogen and stored at -80°C for later processing for RNA-seq. The matching somites were directly processed to generate ATAC-seq libraries. Reverse transcription was performed directly on frozen lysed somites and cDNA was amplified with 8 cycles of PCR. RNA-seq libraries were generated using 100pg of amplified cDNA with the SMART-seq v4 Ultra Low Input RNA Kit for Sequencing (TaKaRa, 634891) and the NEXTERA XT DNA Library Preparation kit (Illumina, FC-131-1096), according to the manufacturer’s instructions, except only a quarter of the recommended reagents’ amount was used. The resulting libraries were quantified using a Qubit instrument and their size distributions were assessed with a TapeStation machine.
characteristics.characteristic: description
characteristics.text: embryo stage
characteristics.characteristic: developmental stage
characteristics.text: wild type genotype
characteristics.characteristic: genotype
characteristics.text: e31
characteristics.characteristic: individual
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: somite 35
characteristics.characteristic: organism part
characteristics.text: posterior
characteristics.characteristic: sampling site
characteristics.text: Mus musculus
characteristics.characteristic: scientific_name
characteristics.text: male
characteristics.characteristic: sex
characteristics.text: C57BL/6J
characteristics.characteristic: strain
characteristics.text: e31_SI
characteristics.characteristic: title