mRNA coverage plots from MEF and liver tissue which underwent starvation and the corresponding controls (Gao et al. 2014)
Raw sequence data were obtained from NCBI SRA database (SRA160745). Data from the following samples was used for processing:
|SRR1630836||RNA-Seq of MEF Cell (Control)|
|SRR1630837||RNA-Seq of MEF Cell (Amino Acid Starvation)|
|SRR1630834||RNA-Seq of Liver Cell for Control Mouse|
|SRR1630835||RNA-Seq of Liver Cell for Fasting Mouse |
Adaptor sequences had already been removed from reads. An alignment to ribosomal RNA was performed using Bowtie, and aligning reads were discarded. An alignment to the mm10 genome assembly was then performed using Bowtie and these tracks contain the coverage data for uniquely mapping reads from the alignments.
Gao, X., Wan, J., Liu, B., Ming, M., Shen, B., Qian, S.B. (2014). Quantitative profiling of initiating ribosomes in vivo. Nat Methods. doi: 10.1038/nmeth.3208