Description Description fromGSE74511: 1 sucrose gradient sample, 2 immunoprecipitation samples in two concentrations of beads
Methods Raw sequence data were obtainedfrom NCBI FTP directory(SRP065530).
Data from the following samples were processed:
| MCF7_SG_RP | Ribosome profiles from elongating ribosomes Homo sapiens(LoayzaPuch, et al. 2016) |
| MCF7_IP50_RP | Ribosome profiles from elongating ribosomes Homo sapiens(LoayzaPuch, et al. 2016) |
| MCF7_IP150_RP | Ribosome profiles from elongating ribosomes Homo sapiens(LoayzaPuch, et al. 2016) |
Adapter sequence TGGAATTCTCGGGTGCC was removed from reads using Cutadapt An alignment to ribosomal RNA was performed using Bowtie, and aligning reads were discarded. An alignment to the hg38 genome assembly was performed using Bowtie, and reads below 25 nt were discarded.
An offset of 15 nucleotides was then used to get the corresponding A-site of each read.These tracks contain the uniquely mapping reads.,ReferencesLoayza-Puch F, Rooijers K, Buil LC, Zijlstra J, Oude Vrielink JF, Lopes R, Ugalde AP, van Breugel P, Hofland I, Wesseling J, van Tellingen O, Bex A, Agami R (2016) Tumour-specific proline vulnerability uncovered by differential ribosome codon reading. .Nature. 2016 Feb 25;530(7591):490-4. doi: 10.1038/nature16982. Epub 2016 Feb 15. Research Support, Non-U.S. Govt
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