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SRX000329: Illumina sequencing of Drosophila melanogaster transcript fragment library
1 ILLUMINA (Illumina Genome Analyzer) run: 2.2M spots, 78.6M bases, 492.7Mb downloads

Accession: SRX000329
Experiment design: n/a
Submitted by: NCBI
Study summary: SRP000181 • Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells • PRJNA107113 • All experiments  • Run Selector (more...)(less...)
Abstract: Small interfering RNAs (siRNAs) direct RNA interference (RNAi) in eukaryotes. In flies, somatic cells produce siRNAs from exogenous double-stranded RNA as a defense against viral infection. Here, we identify 21-nt long, endogenous siRNAs (endo-siRNAs) corresponding to transposons and heterochromatic sequences in the somatic cells of Drosophila melanogaster. We also detected endo-siRNAs complementary to mRNAs: these siRNAs disproportionately mapped to the complementary regions of overlapping mRNAs predicted to form dsRNA in vivo. Normal accumulation of somatic endo-siRNAs requires the siRNA-generating ribonuclease, Dicer-2, and the RNAi effector protein, Ago2. We propose that endo-siRNAs generated by the fly RNAi pathway silence selfish genetic elements in the soma much as piRNAs do in the germ line. Keywords: Small RNA detection and quantification. Overall design: Small RNAs (18-30 nt) from fly heads (WT, ago2 mutants, dcr-2 homozygous and heterozygous mutants, and WT expressing an inverted repeat directed against exon 3 of the gene "white") and S2 cells (transgenic for a construct expressing siRNAs against white and GFP) were sequenced using a Solexa Genome Analyzer instrument. Raw sequence data files for this study are available for download from the SRA FTP site at ftp://ftp.ncbi.nlm.nih.gov/sra/Studies/SRP000/SRP000181
Center Project: Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells
Sample: SAMN00000209 • Generic sample from Drosophila melanogaster (more...)(less...)
Library: ago2_non-beta-eliminated  (more...)(less...)
Strategy: EST
Selection: RANDOM
Layout: SINGLE
Platform: Illumina  (more...)(less...)
Instrument model: Illumina Genome Analyzer
Spot descriptor:

Total: 1 run, 2.2M spots, 78.6M bases, 492.7Mb 
#Run# of Spots# of BasesSizePublished
1. SRR0013452,184,58178.6M492.7Mb2008-06-27


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