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CREST maps somatic structural variation in cancer genomes with base-pair resolution.

Nature methods | Aug 29, 2011

http://www.ncbi.nlm.nih.gov/pubmed/21666668

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.

Pubmed ID: 21666668 RIS Download

Mesh terms: Algorithms | Animals | Base Pair Mismatch | DNA, Neoplasm | Genome | Humans | Neoplasms | Polymorphism, Single Nucleotide | Sequence Alignment | Sequence Analysis, DNA | Software