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

Nat Methods 2011 Jun 12;8(8):652-4. Epub 2011 Jun 12.

Department of Information Sciences, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.

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.

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http://dx.doi.org/10.1038/nmeth.1628DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3527068PMC
June 2011
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