Finding sRNA generative locales from high-throughput sequencing data with NiBLS.

ABSTRACT:

Background

Next-generation sequencing technologies allow researchers to obtain millions of sequence reads in a single experiment. One important use of the technology is the sequencing of small non-coding regulatory RNAs and the identification of the genomic locales from which they originate. Currently, there is a paucity of methods for finding small RNA generative locales.

Results

We describe and implement an algorithm that can determine small RNA generative locales from high-throughput sequencing data. The algorithm creates a network, or graph, of the small RNAs by creating links between them depending on their proximity on the target genome. For each of the sub-networks in the resulting graph the clustering coefficient, a measure of the interconnectedness of the subnetwork

SUBMITTER: MacLean D 

PROVIDER: S-EPMC2837031 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature