strain/background: C57BL6/J gender: male tissue: lung homogenate treatment: bleomycin time point: day 2
Treatment protocol
Mice were intratracheally treated with bleomycin or saline once. Lung tissue was harvested from sacrificed mice at 7 timepoints following treatment.
Extracted molecule
total RNA
Extraction protocol
Total RNA was isolated from the mouse lung tissue of bleomycin- and saline-treated mice across 7 time points (1, 2, 7, 14, 21, 28, and 35 days, n=8 per group) and homogenized in QIAzol reagent.
Label
biotin
Label protocol
Purified total RNA was amplified and labeled using NuGen Ovation kits (NuGEN Technologies, Inc., San Carlos, CA).
Hybridization protocol
RNA from samples was hybridized to Affymetrix Mouse 430 2.0 arrays. Array washing and staining were performed according to standard Affymetrix protocols.
Scan protocol
Array scanning was performed according to standard Affymetrix protocols.
Description
bleomycin_d2_D8
Data processing
Probe level data was curated by first mapping individual probe sequences to their most current genome sequences. Probes which were non-uniquely mapped to specific genes or contained outdated mappings were discarded, and the remaining probes were summarized into probesets and normalized using Robust Multi-array Average (RMA). Probes expressed at low levels across all samples were subsequently discarded. The probe curation and normalization were performed in an internal pipeline using R and SAS.
