spe-9 Oxidation Treatment sncRNA

Stress treatment: Ce spe-9 Oxidation Treatment sncRNA RNA-Seq (Waterston project, Slack subgroup)

Details

small RNAs (less than 200nt) were isolated from stress tested Oxidation spe-9 animals, and sequenced using Illumina technology. Sequences were aligned to the WS190 genome using SOAP, converted to SAM, then lifted to WS220. Tracks show alignments/read density.
Total read count: 37197319
Mapped read count: 28101978
Alignment rate: 75%

General Description

We report a significant number of miRNAs and other non-coding small RNAs show dramatic changes in expression under various stress conditions in C. elegans. RNAs were prepared C. elegans hermaphrodites, under starvation, bacterial exposure, and heat shock stresses, and used for making cDNA libraries for small RNAs. Each library was sequenced using recent advances in high-throughput sequencing technology, Solexa.

Protocols

  1. Growth and isolation: worm growth, worm staging and isolation, small RNA isolation
  2. Sample preparation: cDNA library prep and Illumina sequencing
  3. Other Protocols: Oxidation Stress Treatment, SOAP alignment
  1. External Links: GSM8702223, SRR404126


Release Date: 2012-03-26