Untreated control, Unique mapper

Track ID=S2_DRSC_Untreated.SAM.bam.sorted [Download entire dataset as BAM or BigWig]

RNAi Control (untreated) in S2-DRSC RNA-Seq (Celniker project, Graveley subgroup)

General Description

The goal of these experiments are to identify splicing events that are regulated by specific RNA binding proteins in Drosophila S2 cells. From this collection of regulated exons, we will identify motifs that are enriched in and/or around the regulated exons and are therefore the best candidates for being recognized by the RNA binding protein. To do this, we are using RNAi to deplete individual RNA binding protein mRNAs from Drosophila S2-DRSC cells and then using RNA-Seq to characterize the resulting transcriptome. Comparison of the transcriptome from depleted cells to that of un-depleted cells will allow us to identify regulated splicing events.

Protocols

  1. Growth and isolation: S2-DRSC cell line growth, mRNA purification from total RNA
  2. Sample preparation: Paired-end sample prep, Paired-end Sequencing
  3. Data Analysis: Bowtie alignment for single-end reads
  4. Other Protocols: RNAi in cell culture

Sample Details

  1. Animals/Lines: S2-DRSC
  2. Samples: S2-DRSC Untreated


Release Date: 2009-09-23