|
Status |
Public on Aug 11, 2015 |
Title |
xrn1_DCR1_AGO1 |
Sample type |
SRA |
|
|
Source name |
Yeast cells_xrn1_DCR1_AGO1
|
Organism |
Saccharomyces cerevisiae |
Characteristics |
strain: YAM1982 genotype: xrn1-delta DCR1 AGO1
|
Extracted molecule |
total RNA |
Extraction protocol |
Small-RNA libraries were constructed according to the Small RNA Sample Preparation Guide (Illumina) using 10-40 nt small RNAs purified from total RNA on 15% TBE-urea PAGE or with a flashPAGE Fractionator (Ambion). Size selection was validated by qualitative analysis of a sample of the purified small RNA fraction on a Small RNA chip in a 2100 bioanalyzer (Agilent).
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|
|
Library strategy |
ncRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina Genome Analyzer IIx |
|
|
Data processing |
Adapter sequences were removed using cutadapt. 14-40 nt reads were mapped to the S. cerevisiae reference genome (retrieved from SGD) using the version 0.12.7 of Bowtie, with a tolerance of 3 mismatches. Tag densities were obtained using uniquely mapped 19-23 nt reads, after normalization on the total number of 19-23 nt reads that uniquely mapped on ORFs. Genome_build: S. cerevisiae S288C Supplementary_files_format_and_content: text file with normalized tag densities
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|
|
Submission date |
Dec 11, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Maxime Wery |
E-mail(s) |
maxime.wery@curie.fr
|
Organization name |
Institut Curie
|
Department |
UMR3244
|
Lab |
Non-coding RNA, epigenetics and genome fluidity
|
Street address |
26 rue d'Ulm
|
City |
Paris |
ZIP/Postal code |
75005 |
Country |
France |
|
|
Platform ID |
GPL13272 |
Series (1) |
GSE64090 |
Mapping of dsRNA in yeast using reconstituted RNAi pathway |
|
Relations |
BioSample |
SAMN03262817 |
SRA |
SRX806613 |