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Status |
Public on Aug 24, 2014 |
Title |
Heat Shock IVT +CMC |
Sample type |
SRA |
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Source name |
BY4741
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Organism |
Saccharomyces cerevisiae |
Characteristics |
growth condition: Log phase, then 30 min heat shock at 45C strain: BY4741 treatment: +CMC
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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.
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Library strategy |
OTHER |
Library source |
transcriptomic |
Library selection |
other |
Instrument model |
Illumina Genome Analyzer II |
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Description |
PSI-seq
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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
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Submission date |
Aug 15, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Alexander F Lovejoy |
Organization name |
Stanford University
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Department |
Biochemistry
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Lab |
Brown
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Street address |
279 Campus Drive
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City |
Stanford |
State/province |
CA |
ZIP/Postal code |
94306 |
Country |
USA |
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Platform ID |
GPL9377 |
Series (1) |
GSE60445 |
PSI-seq to Identify Sites of Pseudouridylation in S. cerevisiae |
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Relations |
BioSample |
SAMN02991357 |
SRA |
SRX681900 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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