Transcriptional profile of tibialis anterior muscles of LX2931-treated and control mdx pups.

Published: 7 July 2022| Version 1 | DOI: 10.17632/mw4syvnmgw.1
Julie Saba


Excel file containing differentially expressed genes (p < 0.05) in the tibialis anterior muscles of four-week-old dystrophic mdx mice treated with SPL inhibitor LX2931 (L) or vehicle (water) treated controls (C), n = 3 per group, as described in de la Garza-Rodea et al. Sphingosine Phosphate Lyase Is Upregulated in Duchenne Muscular Dystrophy, and Its Inhibition Early in Life Attenuates Inflammation and Dystrophy in Mdx Mice. International Journal of Molecular Sciences (2022). GO pathway analysis results in full are included in this dataset.


Steps to reproduce

The total RNA was isolated from the tibialis anterior muscles of perinatally LX2931-treated mice (n = 3) and control mice (n = 3) at 4 weeks of age using a Qiagen RNeasy mini kit according to the manufacturer’s protocol. The RNA samples were treated with DNA digestion to remove genomic DNA contamination. The total RNA concentration and purity were assessed by measuring the optical density (230, 260, and 280 nm) with the Nanodrop 1000 Spectrophotometer (ThermoFisher Scientific, Waltham, MA, USA). The RNA samples were sent to Phalanx Biotech (San Diego, CA, USA). The Fluorescent aRNA targets were prepared from 1 μg of the total RNA samples using a OneArray® Amino Allyl aRNA Amplification Kit (Phalanx Biotech Group, Hsinchu, Taiwan) and Cy5 dye (GE Healthcare, Chicago, IL, USA). Fluorescent targets were hybridized to the Mouse Whole Genome OneArray® with a Phalanx hybridization buffer using the Phalanx Hybridization System. After 16 hr hybridization, non-specific binding targets were washed away. The slides were scanned using a DNA Microarray Scanner (Model G2505C, Agilent Technologies, Santa Clara, CA, USA). The Cy5 fluorescent in-tensities of each spot were analyzed using the GenePix 4.1 software (Molecular Devices). Each single sample was performed in duplicate, and replicates provided reproducibility >0.975. The signal intensity was loaded into the Rosetta Resolver System® (Rosetta Bio-software, Seattle, WA, USA) for data preprocessing.


University of California San Francisco


Gene Expression Profiling