biostudies-arrayexpressRon George PhilipHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16227RNA-seq profiling of control (NCRM5) cells and isogenic (NCRM5) OCRL depleted cells of different cell types including iPSC-derived NSCs and NSCs differentiated to 30 day old neuronsbiostudies-arrayexpressSample Collection - Cells were cultured and maintained until ~75% confluency after which they were dissociated and pelleted.Nucleic Acid Extraction - Trizol was added to the cell pellet. RNA was then extracted from the trizol samples using the chloroform extraction method.Sequencing - RNA libraries sequenced on the Novaseq6000 platform using 2x100bp sequencing read length.Growth Protocol - humidified atmosphere with 5% CO2 at 37 C. NCRM5 and OCRL Knockout NSCs were maintained in Neural Expansion Media under similar incubator conditions. NCRM5 and OCRL Knockout NSCs were differentiated to 30 day old neurons in Neural differentiation media under similar incubator conditions.Library Construction - rRNA depletion was performed on the isolated RNA using the NEBNext® rRNA Depletion Kit v2 (Human/Mouse/Rat) with RNA Sample Purification Beads (Catalog no-E7405L) following which RNA libraries for RNA-seq were prepared using the NEBNext® Ultra™ II Directional RNA Library Prep with Sample Purification Beads (Catalog no-E7765L)Sample Treatment - Both control and OCRL Knockout cells were maintained in similar media conditions until RNA extraction.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - .sam files post alignment were converted to .bam files and indexed using samtools (1.9)Data Transformation - Read counts extraction and normalization was done using htseq (2.0.9)MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNAHomo sapiensRon George PhilipfalseMitochondria structure and function in OCRL depleted cellsRNA-seq profiling of control (NCRM5) cells and isogenic (NCRM5) OCRL depleted cells of different cell types including iPSC-derived NSCs and NSCs differentiated to 30 day old neurons2025-12-10T00:00:00Z2026-05-27T18:08:43.557Z2025-11-19T09:58:22ZE-MTAB-16227ERP185306EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969