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Sample GSM447741 Query DataSets for GSM447741
Status Public on Sep 10, 2009
Title smallRNA-S.castellii-Ago1IP
Sample type SRA
Source name log-phase liquid culture, Ago1IP
Organism Naumovozyma castellii
Characteristics strain: DPB220
Growth protocol Liquid cultures were grown at 25ºC (S. castellii and K. polysporus) or 30ºC (S. bayanus, S. cerevisiae and C. albicans) to log-phase.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using hot phenol from log-phase YPD cultures. Small-RNA cDNA libraries were prepared as described in Grimson et al. (2008).
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina Genome Analyzer
Description Small RNA sequencing, 18-30 nt size selection.
Data processing After removing the adaptor sequences, reads representing the small RNAs were collapsed to a non-redundant set, and 14–30-nt sequences were mapped to the appropriate genome, allowing no mismatches and recovering all hits. The processed files are collapsed to unique sequences (1 line per sequence); the second (numeric) value in each column is the number of times each unique sequence was sequenced.
Submission date Sep 01, 2009
Last update date May 15, 2019
Contact name David Eric Weinberg
Phone 415-514-9723
Organization name University of California, San Francisco
Lab Weinberg
Street address 600 16th Street, GH S572F
City San Francisco
State/province CA
ZIP/Postal code 94158
Country USA
Platform ID GPL15027
Series (2)
GSE17871 Small RNAs in budding yeast
GSE17872 RNAi in budding yeast
SRA SRX012933
BioSample SAMN00005076

Supplementary file Size Download File type/resource
GSM447741.txt.gz 7.5 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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