README Supplemetary File 2 nSolver_differential_expression_analysis_results Author(s) AND their Email addresses James Pestka,, pestka@msu.edu Abby Benninghoff, abby.benninghoff@usu.edu Title of Your Dataset or Journal article: Mapping of Dynamic Transcriptome Changes Associated with Silica-Triggered Autoimmune Pathogenesis in the Lupus-Prone NZBWF1 Mouse. Supplementary File 2 Ð nSolver differential expression analysis results. Description (short description of your dataset; indicate it is supporting an article): Microsoft Excel document with output from nSolver for differential expression analyses for pairwise comparisons noted by each named sheet. This data set is supporting material for a journal article. Comments Supplementary file 2 column definitions. Gene symbol Official gene symbol for Mus musculus Log2 fold change Average log2 fold change calculated for comparison indicated by name of spreadsheet tab std error (log2) Log2 standard error of the calculated average log2 fold change lower confidence limit Upper 95% confidence limit of the average log2 fold change upper confidence limit Lower 95% confidence limit of the average log2 fold change Linear fold change Average linear fold change calculated for comparison indicated by name of spreadsheet tab lower confidence limit (linear) Upper 95% confidence limit of the average linear fold change upper confidence limit (linear) Lower 95% confidence limit of the average linear fold change P-value Unadjusted P-value BH.p.value False discovery rate adjusted P-value using the Benjamini-Hochberg method method Differential expression test method, where ÒwaldÓ indicates the mixture negative binomial model, Òlm.nbÓ indicates the simplified negative binomial model, and ÒloglinearÓ indicates the log-linear model. Gene.sets Gene sets or pathways to which the indicated gene belongs within the annotated Nanostring probe set Discipline: Toxicology Keywords: autoimmunity, NanoString, lung, systemic lupus erythematosus, silica, transcriptome Journal: Frontiers in Immunology Volume, Issue, Date (year is fine that is all you have): 2019 (expected) Embargo: 3 months embargo*