{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Diana Nascimento"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-9978"],"description":["Human umbilical cord matrix-derived mesenchymal stromal cells (UCM-MSC) are advantageous since can be easily obtained and display special interest as universal and feasible add-on therapy for myocardial infarction (MI). In this study, UCM-MSC from two umbilical cords, UC-A and UC-B, were transplanted in a murine MI model to investigate consistency and durability of the therapeutic benefits. Both cellular products supported sustained and long-term beneficial therapeutic effect. In vitro, the two cell products displayed similar ability to induce the formation of vessel-like structures and comparable transcriptome in normoxia and hypoxia, apart from expression differences in a small subset of genes associated with MHC Class I. These findings support that UCM-MSC are strong candidates to assist the treatment of MI whilst calling for the discussion on methodologies to characterize and select best performing UCM-MSC before clinical application."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Ion AmpliSeq™ Transcriptome Human Gene Expression Kit. Amplicons were digested with the proprietary FuPa enzyme, then barcoded adapters were ligated onto the target amplicons. The library amplicons were bound to magnetic beads, and residual reaction components were washed off. Libraries were amplified, repurified and individually quantified using Agilent TapeStation High Sensitivity tape. Individual libraries were diluted to a final concentration of 50 pM and pooled equally, with twelve individual samples per pool for further processing.","Sequencing - Emulsion PCR, templating and 550 chip loading was performed with an Ion Chef Instrument (Thermo-Fisher). Sequencing was performed on an Ion S5XLTM sequencer (Thermo-Fisher).","Sample Collection - Samples were collected as described in: Santos J, Soares R, Martins JP, Basto V, Coelho M, Cruz P, Cruz H. Isolation method of precursor cells from human umbilical cord. Portugal: Medinfar, ECBio; 2008. (INPI ed., vol. 103843).","Nucleic Acid Extraction - Total RNA from UCM-MSC submitted to normoxia or hypoxia for 24h was isolated using the RNeasy Plus Mini Kit (QIAGEN)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - rpm transformation"],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Ion Torrent S5 XL"],"study_type":["RNA-seq of coding RNA"],"species":["Homo sapiens"],"pubmed_authors":["Rita Gomes","Diana Nascimento"],"additional_accession":[]},"is_claimable":false,"name":"RNA-sequencing of human umbilical cord-derived MSC (UCX) in normoxia and hypoxia","description":"Human umbilical cord matrix-derived mesenchymal stromal cells (UCM-MSC) are advantageous since can be easily obtained and display special interest as universal and feasible add-on therapy for myocardial infarction (MI). In this study, UCM-MSC from two umbilical cords, UC-A and UC-B, were transplanted in a murine MI model to investigate consistency and durability of the therapeutic benefits. Both cellular products supported sustained and long-term beneficial therapeutic effect. In vitro, the two cell products displayed similar ability to induce the formation of vessel-like structures and comparable transcriptome in normoxia and hypoxia, apart from expression differences in a small subset of genes associated with MHC Class I. These findings support that UCM-MSC are strong candidates to assist the treatment of MI whilst calling for the discussion on methodologies to characterize and select best performing UCM-MSC before clinical application.","dates":{"release":"2021-01-07T00:00:00Z","modification":"2022-01-31T19:59:03.25Z","creation":"2022-01-31T19:59:03.25Z"},"accession":"E-MTAB-9978","cross_references":{"ENA":["ERP126168"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"]}}