CREST maps somatic structural variation in cancer genomes with base-pair resolution.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 21666668.
- Also identified by DOI 10.1038/nmeth.1628 and PMC identifier 3527068.
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Abstract
We developed 'clipping reveals structure' (CREST), an algorithm that uses next-generation sequencing reads with partial alignments to a reference genome to directly map structural variations at the nucleotide level of resolution. Application of CREST to whole-genome sequencing data from five pediatric T-lineage acute lymphoblastic leukemias (T-ALLs) and a human melanoma cell line, COLO-829, identified 160 somatic structural variations. Experimental validation exceeded 80%, demonstrating that CREST had a high predictive accuracy.
Medical subject headings
- Algorithms
- DNA, Neoplasm
- Genome
- Neoplasms
- Polymorphism, Single Nucleotide
- Sequence Alignment
- Software