title: RNA-seq of Mus musculus: Adult conventionalized eye
design: C57BL/6 mice were maintained in a controlled environment in plastic flexible-film gnotobiotic isolators [germ-free (GF) mice] or filter-top cages [conventionally raised (CONVR) mice] under a strict 12-h light cycle. 8-week-old female mice, 3 GF and 3 CONVR, had both left and right eyes collected 5 h after facility lights were turned on. Animals were euthanized by cervical dislocation and were non-fasted at the time of sacrifice. Total RNA from eye tissue was purified with RNeasy Fibrous Tissue Mini Kit (QIAGEN), immediately followed by treatment with TURBO DNase. The Illumina TruSeq protocol v4.0, TruSeq Stranded RNA kit with Ribo-Zero Gold with polyA selection. Sequencing was performed with HiSeq 125 Cycle Paired-End sequencing V4.