Transcriptome sequencing and bioinformatics.

Whole transcriptome sequencing (mRNA-Seq) was completed as described previously (47). Briefly, TA muscles injected with AAV:MCS or AAV:FST were used to generate cDNA libraries from poly A+ purified mRNA samples according to the manufacturer’s instructions (TruSeq RNA sample preparation kit, Illumina). Transcriptome libraries were sequenced on an Illumina GAIIx instrument, with the resulting 36 bp single-end reads mapped to the mouse genome (mm10 assembly) using TopHat (48). Gene transcript levels were determined via Cuffdiff in the form of FPKM (RPKM) values by correcting for multireads and using geometric normalization (49). GO analyses of molecular function were analyzed using the bioinformatics resource DAVID (National Institute of Allergy and Infectious Diseases, NIH) (50, 51). The sequencing data are deposited with Gene Expression Omnibus (GEO) under the accession number {"type":"entrez-geo","attrs":{"text":"GSE78965","term_id":"78965"}}GSE78965.