Illumina HiSeq 2500 sequencing; Ribosome profiling of NEW1 knock-out ... - SRA

ERX3245953: Illumina HiSeq 2500 sequencing; Ribosome profiling of NEW1 knock-out as well as the isogenic wild type strain of Saccharomyces cerevisiae. The cultures were grown either at 20°C or 30°C.
1 ILLUMINA (Illumina HiSeq 2500) run: 39.1M spots, 2G bases, 1Gb downloads

Design: Ribosome profiling of NEW1 knock-out as well as the isogenic wild type strain of Saccharomyces cerevisiae. The cultures were grown either at 20°C or 30°C.

Submitted by: Postdoc

Study: Ribosome profiling of NEW1 knock-out as well as the isogenic wild type strain of Saccharomyces cerevisiae. The cultures were grown either at 20°C or 30°C.

PRJEB31666 • ERP114248 • All experiments • All runs

show Abstracthide Abstract

Loss of New1 leads to a cold-sensitive phenotype of yeast Saccharomyces cerevisiae. In this study we investigated the effect of NEW1 knockout on translation using Ribo-Seq and RNA-Seq analyses.

Sample: WT_20C_riboseq_S7

SAMEA5417320 • ERS3222618 • All experiments • All runs

Organism: Saccharomyces cerevisiae

Library:

Name: WT_20C_riboseq_S7_s

Instrument: Illumina HiSeq 2500

Strategy: OTHER

Source: TRANSCRIPTOMIC

Selection: other

Layout: SINGLE

Construction protocol: Cells were collected by rapid vacuum filtration, promptly flash-frozen in liquid nitrogen and lysed by cryogenic milling. Cultured at 20 or 30 degrees Celsius in 750 ml of synthetic complete medium until OD600=0.6 TRI Reagent (AM9738, ThermoFisher) was used to extract the RNA, followed by clean-up using RNA Clean & Concentrator -25 Kit (Zymo Research). RNA-Seq libraries were constructed using ScriptSeq Complete Gold Yeast Kit (Epicentre). Ribo-Seq libraries were prepared essentially as per Ingolia and colleagues, NatMeth 2012 (PMID: 22836135) with modifications on rRNA removal (Ribo-Zero Gold rRNA Removal Kit -Yeast) and sample purification procedures between enzymatic steps (RNA Clean & Concentrator -5 Kit).

Experiment attributes:

Experimental Factor: strain: BY derivative MJY1171

Runs: 1 run, 39.1M spots, 2G bases, 1Gb

Run	# of Spots	# of Bases	Size	Published
ERR3218435	39,097,639	2G	1Gb	2019-06-01

ID:: 7984370

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