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Sample GSM1480230 Query DataSets for GSM1480230
Status Public on Aug 24, 2014
Title Log Phase 2 Nat -CMC
Sample type SRA
 
Source name BY4741
Organism Saccharomyces cerevisiae
Characteristics growth condition: Log phase: OD260 = 0.8
strain: BY4741
treatment: -CMC
Extracted molecule polyA RNA
Extraction protocol Hot phenol chloroform extraction, 2x poly(A) purification with Ambion polyA Purist Kit
PSI-seq. Libraries were constructed as described in Lovejoy et al.
 
Library strategy OTHER
Library source transcriptomic
Library selection other
Instrument model Illumina Genome Analyzer II
 
Description PSI-seq
Data processing Aligned to the S. cerevisiae genome using bowtie-0.12.5. Conditions -p 6 -v 3 -q -a --best --strata
Counted reads stopping at each nucleotide in each sequencing run. Merged these data into one table, then sorted the table to get sorted_genomic_reads.txt
Genome_build: saccer3
 
Submission date Aug 15, 2014
Last update date May 15, 2019
Contact name Alexander F Lovejoy
Organization name Stanford University
Department Biochemistry
Lab Brown
Street address 279 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94306
Country USA
 
Platform ID GPL9377
Series (1)
GSE60445 PSI-seq to Identify Sites of Pseudouridylation in S. cerevisiae
Relations
BioSample SAMN02991360
SRA SRX681903

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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