Description fromGSE138533: Knockdown induction: hTERT-RPE-1 cells were transfected either with PDCD4-siRNA or control-siRNA (100 nM) and incubated for 24 h. Induced effects were analyzed by ribosome profiling and RNA-seq in triplicate (IlluminaSequencing).
Raw sequence data were obtainedfrom NCBI FTP directory(SRP224660).
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 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.,
| RPF_PDCD4KD ||Ribosome profiles from elongating ribosomes Homo sapiens(Haas, et al. 2020) |
| RPF_control ||Ribosome profiles from elongating ribosomes Homo sapiens(Haas, et al. 2020) |
Haas A, Nilges BS, Leidel SA, Klempnauer KH (2020) PDCD4 controls the G1/S-phase transition in a telomerase-immortalized epithelial cell line and affects the expression level and translation of mult... .PubMed comprises more than 30 million citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites.