{"database":"NODE","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"submitter":["Guangdun Peng"],"technology_type":["RNA-Seq"],"full_dataset_link":["https://www.biosino.org/node/experiment/detail/OEX00028250"],"experiment_platform":["Illumina NovaSeq 6000"],"experiment_library_layout":["Paired"],"experiment_library_selection":["cDNA"],"sample_count":["26"],"tissue":["['lung']"],"taxonomy":["['Mus musculus']"],"experiment_protocol":["Developmental lungs were separated from wild-type embryos or fetuses at embryonic day 12.5, 13.5, 14.5, 15.5, 16.5, 17.5, 18.5 and postnatal day 0 (P0), and the lungs images were taken for recording.  Collected lungs were embedded in a tissue-freezing medium (Leica Microsystems, cat. no. 020108926), then transferred to -80 °C for storage. Each developmental lung was cryo-sectioned (Leica CM3050 S) along the dorsal-ventral axis at 10 μm, and at least four sections of each lung were selected due to the morphology for spatial transcriptome preparation by modified 10x Genomics Visium platform suitable to those samples. Shortly, we optimize the permeabilized condition with the Visium Spatial Tissue Optimization Kit. The ideal lung tissue permeabilized condition was set to 3 min. Selected sections were stained with 1% cresyl violet solution and imaged using a Zeiss Axio Observer 7 microscope under a 10-lensmagnification, then processed for spatial transcriptomics using Visium Spatial Gene Expression Kit (10x Genomics) according to the manufacturer’s instructions.  The resulting cDNA was synthesized, amplified and then purified using 0.6X AMpureX beads. The cDNA library was prepared by Library Construction Kit (10x Genomics) and then evaluated by Qubit 4.0 Fluorometer and Qsep100 Bio-Fragment Analyzer (Bioptic). The cDNA libraries were sequenced on Illumina Novaseq 6000 system with paired-end 150bp reads, aiming for 100k raw reads per spot."],"repository":["NODE"],"additional_accession":[]},"is_claimable":false,"name":"Spatial Transcriptome","description":"we obtained mouse embryonic and fetal lungs from E12.5-P0 embryos at approximately daily intervals for ensuring continuity of spatial transcriptome data collection for lung development. Fresh intact lungs from each developmental stage, embedded in OCT, were cryosectioned into at least four sections for spatial transcriptomic sequencing utilizing 10× Genomics Visium platform.","dates":{"publication":"2024-06-03","submission":"2024-06-03"},"accession":"OEX00028250","cross_references":{"NODE":["OEP00005365"]}}