biostudies-arrayexpressUnknownTranscriptomicsGenomicsProteomicsfrederic lepretretranscription profiling by arrayMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14967The MAM326 cancer cell line was derived from a mammary tumor of bitransgenic FVB/N s-SHIP-GFP X C(3)1-Tag mice. The MAM326 cell line contained approximatively 10% of s-SHIP/GFP+ cells. This cell subpopulation was more resistant to drugs. To investigate the molecular basis of this chemoresistance, GFP+ cells (GFPpos files) and GFP-negative (GFPneg files) cells were isolated by fluorescence-activated cell sorting and analyzed for gene expression.biostudies-arrayexpressSample Collection - The MAM326 cancer cell line was derived from a mammary tumor of bitransgenic FVB/N s-SHIP-GFP X C(3)1-Tag mice. The MAM326 cell line contained approximatively 10% of s-SHIP/GFP+ cells. GFP+ cells and GFP-negative cells were isolated by fluorescence-activated cell sorting and analyzed for gene expression.Labeling - The cRNA was labeled, using the Low Input Quick Amp Labeling Kit (Agilent Technologies, Santa Clara, CA, USA) with Cyanine-3 (Cy3) according to the manufacturer's instructions.Scaning - Slide was scanned with Agilent SureScan Microarray Scanner G2505C using one color scan setting for 8x60k array slides (028005_D_F_20130207). The image was scanned with Feature Extraction (version 10.7.3.1, Agilent Technology), using the default settings.Nucleic Acid Extraction - Total RNA was isolated according to the manufacturer’s instructions (Macherey-Nagel) and assessed by the Agilent BioAnalyzer.Hybridization - The hybridization and washing of the slides were performed according to the manufacturer’s protocols (Agilent Technologies; One-Color Microarray-Based Gene Expression Analysis).MIAME ScoreRaw DataOrganizationAssays and DataProcessed DataMAGE-TAB FilesArray Designsfrederic lepretreData Transformation - Raw data were then filtered for intensity and quality signal by using Agilent GeneSpring. Percentile Shift Normalization with default settings to 75th percentile settings were used. Probes with intensity values below 20th percentile were filtered out using the “Filter Probesets by Expression” option. Irregular signals or “compromised” features have been removed using the “filter by flags: detected; not detected” quality control option. .For this study, differentially expressed genes were identified according to the criteria: t-test unpaired p (Corr) cut-off = 0.05 with Benjamini Hochberg False Discovery Rate correction.falseTranscriptome profiling of s-SHIP/GFP+ drug-resistant cells of the MAM326 murine mammary cancer cell lineThe MAM326 cancer cell line was derived from a mammary tumor of bitransgenic FVB/N s-SHIP-GFP X C(3)1-Tag mice. The MAM326 cell line contained approximatively 10% of s-SHIP/GFP+ cells. This cell subpopulation was more resistant to drugs. To investigate the molecular basis of this chemoresistance, GFP+ cells (GFPpos files) and GFP-negative (GFPneg files) cells were isolated by fluorescence-activated cell sorting and analyzed for gene expression.2025-07-01T00:00:00Z2025-03-21T17:11:43.514Z2025-03-21T17:11:43.514ZE-MTAB-14967EFO_0002768EFO_0002944EFO_0003814EFO_0003813EFO_0005518EFO_0003816EFO_0003815