biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsDaniel VAIMANtranscription profiling by arrayHomo sapiensHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16571The epigenetic effects of STOX1A was evaluated through demethylation treatment by AZA-cytidine on control or STOX1A overexpressing JEG3 cellsbiostudies-arrayexpressHybridization - From the Genom'IC Cochin plateform protocols Cy3 labeling on Agilent microarraysGrowth Protocol - Cell culture in DMEM/PS/10% between 5 to 15 passages.Scaning - From the Genom'IC Cochin plateform protocols Cy3 labeling with a cognate scannerNucleic Acid Extraction - Classical Trizol procedure. 0.5 ml of triZol is added to the cells after removing medium and rinsing in PBS. Agitation 1/2 h and collection.Sample Treatment - Aza cytidine 3µM for three days or DMSO (changing every day)Sample Collection - Cell cultures were in DMEM/PS/10% FCS cultivated until ~50% confluence. Treatment for three days was DMSO or 5 AZA cytidinrLabeling - From the Genom'IC Cochin plateform protocols Cy3 labelingMIAME ScoreRaw DataOrganizationAssays and DataProcessed DataMAGE-TAB FilesArray DesignsDaniel VAIMANData Transformation - Normalization applies a log base 2 transformation to the data and a quantile normalization. This results in a matrix of 42,405 probes. The summarization step (the final step of the RMA normalization algorithm), which averages the probes assigned to the same transcript (gene), is not performed on Agilent arrays. This is why the resulting data matrix contains probes with identical annotations. Of the 42,405 probes, using Ingenuity annotations, 12,355 are unannotated and 30,050 are annotated, of which 13,821 are duplicated and therefore share the same annotations. The details can be found in the results file Anova_AA6vsControl_ING(42405).txt. Probes marked with a “D” in the “Notes” column are duplicated probes carrying the same annotations.falseSTOX1A overexpression triggers methylation-driven gene expression deregulations in JEG-3 chroiocarcinoma cellsThe epigenetic effects of STOX1A was evaluated through demethylation treatment by AZA-cytidine on control or STOX1A overexpressing JEG3 cells2026-02-19T00:00:00Z2026-05-27T14:56:23.238Z2026-01-26T11:54:04.244ZE-MTAB-16571EFO_0002768EFO_0002944EFO_0003814EFO_0003813EFO_0003789EFO_0005518EFO_0003816EFO_0003815EFO_0003969