Experimental design-based functional mining and characterization of high-throughput sequencing data in the sequence read archive.

ABSTRACT: High-throughput sequencing technology, also called next-generation sequencing (NGS), has the potential to revolutionize the whole process of genome sequencing, transcriptomics, and epigenetics. Sequencing data is captured in a public primary data archive, the Sequence Read Archive (SRA). As of January 2013, data from more than 14,000 projects have been submitted to SRA, which is double that of the previous year. Researchers can download raw sequence data from SRA website to perform further analyses and to compare with their own data. However, it is extremely difficult to search entries and download raw sequences of interests with SRA because the data structure is complicated, and experimental conditions along with raw sequences are partly described in natural language. Additionally, some s

SUBMITTER: Nakazato T 

PROVIDER: S-EPMC3805581 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature