title: RNA-Seq of mus musculus C57BL/6 mice
design: Total RNA was prepared from Zfand6+/+ and Zfand6/ BMDMs, either untreated, treated with LPS or infected with IAV (PR8) for 24 h. RNA-Seq and bioinformatics was performed by the Johns Hopkins Sidney Kimmel Comprehensive Cancer Center next-generation sequencing core as previously described (Lavorgna et al. PloS. Pathog. 2014). Illumina next-gen sequencing reads were mapped with RSEM, aligned to a mouse genome reference library and analyzed with RSEM, EBSeq, Tophat and Cufflinks. The differential expression analysis was performed with the DEseq R package and GO enrichment with the topGO R package. Gene set enrichment analysis (GSEA) was performed using GSEA (Broad Institute, broadinstitute.org/GSEA).