Description Description fromGSE112353: We performed active ribosome profiling with RiboLace and standard ribosome profiling in HEK-293 cells. Experiments were performed in biological duplicate.
Methods Raw sequence data were obtainedfrom NCBI FTP directory(SRP136497).
Data from the following samples were processed:
| HEK293_cells_standard_RIBOseq | Ribosome profiles from elongating ribosomes Homo sapiens(Clamer, et al. 2018) |
| HEK293_cells_RiboLace_RIBOseq | Ribosome profiles from elongating ribosomes Homo sapiens(Clamer, et al. 2018) |
Adapter sequence CTGTAGGCACCATCAAT 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.,ReferencesClamer M, Tebaldi T, Lauria F, Bernabxc3xb2 P, Gxc3xb3mez-Biagi RF, Marchioretto M, Kandala DT, Minati L, Perenthaler E, Gubert D, Pasquardini L, Guella G, Groen EJN, Gillingwater TH, Quattrone A, Viero G (2018) Active Ribosome Profiling with RiboLace. .Cell Rep. 2018 Oct 23;25(4):1097-1108.e5. doi: 10.1016/j.celrep.2018.09.084.
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