Small RNA reads from the Solexa sequencing dataset were first mapped to the genome (mouse, version mm8) using Eland.
S. Typhimurium SL1344 was used for all subsequent experimental validation as no comparable RNA deep sequencing dataset was available for S. Typhimurium LT2.
We identified 22 sRNAscanner hits with TargetRNA-identified potential mRNA targets (Figure S5); five had also been detected in the deep sequencing dataset (Table 2).
First, we simply aligned the 59 contigs from our direct sequencing dataset using Clustal X [19], and performed a Neighbor Joining analysis with 1000 bootstrap replicates and the Kimura 2-parameters distance using Mega 4.0 [20].
This finding demonstrates a high-quality sequencing dataset.
An overview of the sequencing dataset is presented in Additional file 3: Table S2.
*For M. polymorpha, it is number of TF encoding transcripts generated from our transcriptome sequencing dataset.
Our new pyrophosphate sequencing dataset enabled us to examine this observation on a larger scale.
A k-mer is a sequence of length k found in the sequencing dataset.
The sequencing dataset presented here primarily consists of key influential sires of ten cattle populations.
The sequencing dataset contains one processed file displaying the raw read counts for each miRNA.
