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ERX2054829: Illumina HiSeq 2000 sequencing; Effects of cycloheximide (CHX) on ribosome profiling experiments in Schizosaccharomyces pombe
1 ILLUMINA (Illumina HiSeq 2000) run: 36.2M spots, 1.8G bases, 733.5Mb downloads

Design: Effects of cycloheximide (CHX) on ribosome profiling experiments in Schizosaccharomyces pombe
Submitted by: DEPARTMENT OF BIOCHEMISTRY UNIVERSITY OF CAMBRIDGE
Study: Effects of cycloheximide (CHX) on ribosome profiling experiments in Schizosaccharomyces pombe
PRJEB21099 • ERP023328 • All experiments • All runs
show Abstracthide Abstract
CHX is an inhibitor of translation elongation often used in ribosome profiling experiments. There is evidence that CHX treatment of cells may cause artefacts in the distribution of ribosomes on mRNAs. We investigate this possibility in S. pombe by performing ribosome profiling in the presence and absence of this drug.
Sample: wt.N.CHX.mrna.3
SAMEA104106711 • ERS1770604 • All experiments • All runs
Organism: Schizosaccharomyces pombe
Library:
Name: wt.N.CHX.mrna.3_s
Instrument: Illumina HiSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: RANDOM
Layout: SINGLE
Construction protocol: Cells were grown at a temperature of 32C in EMM2 (Moreno et al. Methods Enzymology 194: 795) containing NH4Cl as a nitrogen source Cells were grown in the presence of CHX at 100 ug/ml for 5 minutes before colletion Total RNA was extracted using a hot phenol extraction method as described in Lyne et al. (2003) BMC Genomics 4:27. Clean up and DNase treatment were performed on with Purelink RNA microcolumns (Life Technologies) following the manufacturer’s instructions. Samples were ribo-depleted using Ribo-Zero Gold rRNA Removal Kit Yeast (Illumina) with a 4 ug input. 30 ng of ribo-depleted RNA was used as starting material for the NEXTflex Rapid Directional qRNA-Seq Kit (Bioo Scientific).
Experiment attributes:
Experimental Factor: compound: Mock
Experimental Factor: growth condition: Nitrogen source
Experimental Factor: RNA source: Ribosome-depleted RNA
Runs: 1 run, 36.2M spots, 1.8G bases, 733.5Mb
Run# of Spots# of BasesSizePublished
ERR199496036,240,9501.8G733.5Mb2017-09-06

ID:
4463057

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