Ribo-seq coverage plots of elongating ribosomes from MEF and mouse liver cells which were deprived of nutrients and their corresponding controls (Gao et al. 2014).
Raw sequence data were obtained from NCBI GEO database (SRA160745). Data from the following samples were processed:
|SRR1630812||Ribo-Seq of Liver Cell for Control Mouse|
|SRR1630813||Ribo-Seq of Liver Cell for Fasting Mouse|
|SRR1630816||Ribo-Seq of MEF Cell (Control)|
|SRR1630817||Ribo-Seq of MEF Cell (Amino Acid Starvation) |
Adaptor sequences had already been removed from reads. An alignment to ribosomal RNA was then 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