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The arrays were stained using a Fluidics Station 400 (Affymetrix).","name":"P-GSE38836-6","parameters":[{"@id":"#140018370977216","parameterName":{"@id":"3Hq6ViAPdhnUQVpmPN4g5qe1Sc2CIbQALaTc3jdF","annotationValue":"","comments":[],"termAccession":"","termSource":""}}],"protocolType":{"@id":"ttGGbUzRpDKf2jeeYBo9xSBuroHDg2SSlta9DDz9","annotationValue":"hybridization","comments":[],"termAccession":"","termSource":""},"uri":"","version":""},{"@id":"#140018370976304","comments":[],"components":[],"description":"Gene arrays were scaned using a GeneArray Scanner (Affymetrix).","name":"P-GSE38836-7","parameters":[{"@id":"#140018370974144","parameterName":{"@id":"3Hq6ViAPdhnUQVpmPN4g5qe1Sc2CIbQALaTc3jdF","annotationValue":"","comments":[],"termAccession":"","termSource":""}}],"protocolType":{"@id":"KBW3YudjFMX5ENpFaeVssmW5UHj3TVYXiE7KjXr9","annotationValue":"image_aquisition","comments":[],"termAccession":"","termSource":""},"uri":"","version":""},{"@id":"#140018370975536","comments":[],"components":[],"description":"Data were processed as described in GL-DPPD-7114 (<a href=\"https://github.com/nasa/GeneLab_Data_Processing/blob/master/Microarray/Affymetrix/Pipeline_GL-DPPD-7114_Versions/GL-DPPD-7114.md\" target=\"_\" >https://github.com/nasa/GeneLab_Data_Processing/blob/master/Microarray/Affymetrix/Pipeline_GL-DPPD-7114_Versions/GL-DPPD-7114.md</a>) using NF_MAAffymetrix version 1.0.5 (https://github.com/nasa/GeneLab_Data_Processing/tree/NF_MAAffymetrix_1.0.5/Microarray/Affymetrix/Workflow_Documentation/NF_MAAffymetrix). In short, a RunSheet containing raw data file location and processing metadata from the study's *ISA.zip file was generated using dp_tools (version 1.3.4). The raw array data files were loaded into R (version 4.1.3) using oligo (version 1.58.0). Raw data quality assurance density plot, pseudo images, MA plots, and boxplots were generated using oligo (version 1.58.0). The raw probe level intensity data was background corrected and normalized across arrays via the oligo (version 1.58.0) quantile method. Normalized probe level data quality assurance density plot, pseudo images, MA plots, and boxplots were generated using oligo (version 1.58.0). Normalized probe level data was summarized to the probeset level using the oligo (version 1.58.0) RMA method. Ensembl gene ID mappings were retrieved for each probeset using biomaRt (version 2.50.0), Ensembl database (ensembl.org, release 107). 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