{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":[null],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14066"],"description":["Proof of principle and optimization experiment on cardioid with10X-based-iPS2-seq was performed on two batches of hPSC-derived cardioids at day 7.5 and pooled together after sample multiplexing. hPSC were primed and treated with Tetracycline 5 days prior cardiac differentiation. CG000388 Rev B (when multiplexing) User Guide was followed with sample multiplexing, provided information of the multiplexing for the cellranger aggr is provided. Sequencing has been performed on a Nextseq 1000 on a P2 Illumina kit 100 cycles. Sequencing run: Read1, 28 cycles; Index1, 10 cycles; Index2, 10 cycles, Read2, 90 cycles."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - CG000388 Rev B (with cell multiplexing oligos). hPS-2seq barcode enrichment protocol was performed with custom primers binding on the TET repressor.","Nucleic Acid Extraction - 10X genomics technology with CG000388 Rev B (with cell multiplexing oligos). Cells were loaded on a chip G.","Sample Collection - Digestion with versene and trippleE. Then cells were labeled with CMO, sorted for vital cells and then loaded on the 10X controller.","Sequencing - Nextseq 1000 P2 100 cycles. Cell multiplexing barcodes were pulled in molar ratio compared to the gen expression library 1:6. hPS2seq barcodes were pulled in molar ratio compared to the gen expression library 1:20."],"figure_sub":["MINSEQE Score","Assays and Data","Processed Data","organisation","MAGE-TAB Files"],"data_protocol":["Data Transformation - Data provided are row. Use the atached aggregation.csv and config.csv files to run cell ranger aggr (aggregation.csv) and then cell ranger multi (config.csv)","Data Transformation - shRNA information is atached to allow running CatcheR.","Data Transformation - an RDS file is atached with the full processed data. Data can be read with readRDS() function in R and then it can be read and used with monocle 3. Additional txt files with data annotation and count data are  provided to be analyzed with different platforms."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NextSeq 1000"],"study_type":["RNA-seq of coding RNA from single cells"],"species":["Homo sapiens"],"additional_accession":["E-MTAB-14065"],"pubmed_authors":["Elisa Balmas"]},"is_claimable":false,"name":"Proof of principle for iPS2-10X-seq: cardioids experiment during 3D cardiac differentiation","description":"Proof of principle and optimization experiment on cardioid with10X-based-iPS2-seq was performed on two batches of hPSC-derived cardioids at day 7.5 and pooled together after sample multiplexing. hPSC were primed and treated with Tetracycline 5 days prior cardiac differentiation. CG000388 Rev B (when multiplexing) User Guide was followed with sample multiplexing, provided information of the multiplexing for the cellranger aggr is provided. Sequencing has been performed on a Nextseq 1000 on a P2 Illumina kit 100 cycles. Sequencing run: Read1, 28 cycles; Index1, 10 cycles; Index2, 10 cycles, Read2, 90 cycles.","dates":{"release":"2025-10-27T00:00:00Z","modification":"2025-10-27T09:34:29.117Z","creation":"2024-05-10T18:09:09.116Z"},"accession":"E-MTAB-14066","cross_references":{"ENA":["ERP160155"],"Biostudies":["E-MTAB-14065"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005684","EFO_0005518","EFO_0003816","EFO_0004184"]}}