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SRX2536415: GSM2476009: 0.3 µM PF-067446846, 60 min, rep 1; Homo sapiens; OTHER
1 ILLUMINA (Illumina HiSeq 2000) run: 30M spots, 1.5G bases, 862.1Mb downloads

Submitted by: NCBI (GEO)
Study: Selective stalling of human translation through small molecule engagement of the ribosome nascent chain
show Abstracthide Abstract
We use ribosome profiling to demonstrate the selectivity of a small molecule, PF-06446846 that inhibits translation of its target by selectively inducing ribosome-stalling in a nascent chain sequence dependent manner. Overall design: Study 1: Huh7 cells were treated with 1.5 µM PF-06446846, 0.3 µM PF-06446846 or vehicle for 10 or 60 minutes, and subjected to ribosome profiling. This study included three biological replicates Study 2: Huh7 cells were treated with 1.5 µM PF-06446846 or vehicle for 60 minutes and subjected to both ribosome profiling and mRNA-seq. This study included two biological replicates.
Sample: 0.3 µM PF-067446846, 60 min, rep 1
SAMN06293475 • SRS1956365 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 2000
Strategy: OTHER
Source: TRANSCRIPTOMIC
Selection: other
Layout: SINGLE
Construction protocol: The cells were harvested by aspiration of media and immediate addition of ice-cold PBS containing 100 µg/mL cycloheximide. The PBS plus cycloheximide was aspirated with a vacuum aspirator and 400 µL lysis buffer (20 mM Tris-Cl pH 7.4, 150 mM NaCl, 5 mM MgCl2, 1 mM dithiothreitol, 100 µg/mL cycloheximide, 1% Triton X-100 and 25 U/mL DNase I (Promega)) was added. Cells were lysed and ribosome footprint or fragmented RNA libraries were generated as described in Ingolia et al. Curr Protoc Mol Biol Chapter 4, Unit 4 18 (2013).
Experiment attributes:
GEO Accession: GSM2476009
Links:
Runs: 1 run, 30M spots, 1.5G bases, 862.1Mb
Run# of Spots# of BasesSizePublished
SRR522730030,043,3621.5G862.1Mb2017-06-07

ID:
3669808

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