Description Ribosome profiling and RNA sequencing in two cancer cell models. MethodsRaw sequence data were obtained from NCBI FTP directory(SRP054971). Data from the following samples were processed:
| EH_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| ELR_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| ERSrcTAM01hr_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| EL_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| ERSrcTAM04hr_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| ERSrcTAM00hr_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
| ERSrcTAM24hr_harr | Ribosome profiling data from Homo sapiens(Ji et al. 2015) |
Adapter sequence CTGTAGGCACCATCAAT and AGATCGGAAGAGC 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 these tracks contains the uniquely mapping reads.An offset of 12 nucleotides was then used to get the corresponding P-site of each read.
References
Ji Z.,Song R.,Regev A.,Struhl K. (2015) Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins
. http://dx.doi.org/10.7554/eLife.08890.002
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