Examination of RNA fragments protected by ribosome
Raw sequence data were obtained from NCBI FTP directory(SRP063852). Data from the following samples were processed:
Adapter 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 hg38 genome assembly was performed using Bowtie, and reads below 25nt were discarded. These tracks contains the uniquely mapping reads.An offset of 15 nucleotides was then used to get the corresponding A-site of each read.
| ribosome_profiling ||Ribosome profiling data from Homo sapiens(Calviello, et al. 2016) |
Calviello L, Mukherjee N, Wyler E, Zauber H, Hirsekorn A, Selbach M, Landthaler M, Obermayer B, Ohler U (2016) Detecting actively translated open reading frames in ribosome profiling data. . Nat Methods. 2016 Feb;13(2):165-70. doi: 10.1038/nmeth.3688. Epub 2015 Dec 14. Research Support, N.I.H., Extramural