Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 18842598.
- Also identified by DOI 10.1093/bioinformatics/btn512 and PMC identifier 2639273.
- Licence recorded as CC BY-NC.
- Because redistribution is not established, this page shows the abstract only. Follow the links below for the full text.
Abstract
Here, we report the development of SOCS (short oligonucleotide color space), a program designed for efficient and flexible mapping of Applied Biosystems SOLiD sequence data onto a reference genome. SOCS performs its mapping within the context of 'color space', and it maximizes usable data by allowing a user-specified number of mismatches. Sequence census functions facilitate a variety of functional genomics applications, including transcriptome mapping and profiling, as well as ChIP-Seq. Executables, source code, and sample data are available at http://socs.biology.gatech.edu/
Medical subject headings
- Genome
- Genomics
- Oligonucleotide Array Sequence Analysis