biostudies-arrayexpressJuan GarciaHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16225To our knowledge, this is the first time that single cell sequencing has been performed in Trophoblast Stem Cells derived organoids. One CT27 and one CT29 cell lines were ruptured and their nucleis were collected and sequenced for further analysis.biostudies-arrayexpressGrowth Protocol - Both the CT27 and CT 29 lines were maintained on 5 µg/mL collagen IV coated plates and using human TSC culture medium in a humidified incubator at 37 degrees and 5% CO2Sequencing - Partial lane dual index sequencing was performed via Illumina next generation sequencing (Illumina NovaSeqX) for a total of 200M read pairs per sample.Library Construction - Libraries were prepared using the 10X GEM-X Universal 3' Gene expression v4 4-plex according to manufacturer's instructions.Sample Collection - CT27 and CT29 cell lines were cultured and eventually they were flash-frozenNucleic Acid Extraction - nuclei for both cell lines were collected using the 10X Chromium Nuclei Isolation Kit with RNAse inhibitor following the manufacturer's instructions.OrganizationMINSEQE ScoreAssays and DataProcessed DataorganisationMAGE-TAB FilesData Transformation - Demultiplexing, barcode processing, gene counting and aggregations were made utilizing CellRanger 9.0.1 in Ubuntu.Sequence Alignment - The Seurat 5.3.0 packaged was utilized on R version 4.5.1 for downstream analysisMetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq XRNA-seq of coding RNA from single cellsHomo sapiensMeghan RiddellSumaiyah ShahaJuan GarciaBethan WilsonIvan DomingofalseSingle nuclei RNA-sequencing of placental organoids generated from CT27 and CT29 cell linesTo our knowledge, this is the first time that single cell sequencing has been performed in Trophoblast Stem Cells derived organoids. One CT27 and one CT29 cell lines were ruptured and their nucleis were collected and sequenced for further analysis.2026-06-25T00:00:00Z2026-06-25T16:09:33.82Z2025-11-20T13:48:44.629ZE-MTAB-16225ERP185414E-MTAB-16224EFO_0002944EFO_0004170EFO_0003789EFO_0005684EFO_0004917EFO_0005518EFO_0003816EFO_0004184