Description Description fromGSE94460: Ribosome protected fragments were extracted from HEK293 cells treated with cycloheximide or harringtonine plus cycloheximide.
Methods Raw sequence data were obtainedfrom NCBI FTP directory(SRP098797).
Data from the following samples were processed:
| HEK293_RPF | Ribosome profiles from elongating ribosomes Homo sapiens(Zhang, et al. 2017) |
Adapter sequence AGATCGGAAGAGCACAC and CAGATCGGAAGAGCACA 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.,ReferencesZhang P, He D, Xu Y, Hou J, Pan BF, Wang Y, Liu T, Davis CM, Ehli EA, Tan L, Zhou F, Hu J, Yu Y, Chen X, Nguyen TM, Rosen JM, Hawke DH, Ji Z, Chen Y (2017) Genome-wide identification and differential analysis of translational initiation. .Nat Commun. 2017 Nov 23;8(1):1749. doi: 10.1038/s41467-017-01981-8.
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