NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM948743 Query DataSets for GSM948743
Status Public on Jun 30, 2012
Title small RNAs (18-29nt) from MTD>armi shRNA
Sample type SRA
 
Source name Ovary
Organism Drosophila melanogaster
Characteristics genotype: MTD>armi shRNA
Stage: from 5-6 days old flies
tissue: ovary
Growth protocol flies were grown at 25 degrees on standard medium
Extracted molecule total RNA
Extraction protocol small-RNAs were cloned as described in Brennecke et al. 2007.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina HiSeq 2000
 
Data processing basecalled with the instruments RTA (Run time analysis version 1.12.48.0): SCS (PN:RTA DS:Controlling software on instrument VN:1.13.48.0)
fastq files were adapter 'AGATCGGAAGAGCACACGTCT' clipped using cutadapt, version 1.0, default settings
after adapter removal, the first and last 4 bases were trimmed (both linkers contain 4 random nucleotides at their respective termini) from sequence as well using HomerTools, version 3.9
Genome_build: dmel_release 5
Supplementary_files_format_and_content: combined table of sequences matching release 5 of the genome 100%; indicating sequence, genomic mapping number and read count for each library
 
Submission date Jun 14, 2012
Last update date May 15, 2019
Contact name Julius Brennecke
E-mail(s) julius.brennecke@imba.oeaw.ac.at
Organization name IMBA
Street address Dr. Bohrgasse 3
City Vienna
ZIP/Postal code 1030
Country Austria
 
Platform ID GPL13304
Series (1)
GSE38728 Major concepts of piRNA biogenesis revealed by the analysis of Shutdown, a co-chaperone with essential roles in the biogenesis of all Drosophila piRNA populations
Relations
SRA SRX154644
BioSample SAMN01048379

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap