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

Jianmin Wang, Charles G. Mullighan, John Easton, Stefan Roberts, Sue L. Heatley, Jing Ma, Michael C. Rusch, Ken Chen, Christopher C. Harris, Li Ding, Linda Holmfeldt, Debbie Payne-Turner, Xian Fan, Lei Wei, David Zhao, John C. Obenauer, Clayton Naeve, Elaine R. Mardis, Richard K. Wilson, James R. DowningJinghui Zhang

Research output: Contribution to journalArticle

323 Scopus citations

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.

Original languageEnglish
Pages (from-to)652-654
Number of pages3
JournalNature Methods
Volume8
Issue number8
DOIs
StatePublished - Aug 1 2011

Fingerprint Dive into the research topics of 'CREST maps somatic structural variation in cancer genomes with base-pair resolution'. Together they form a unique fingerprint.

  • Cite this

    Wang, J., Mullighan, C. G., Easton, J., Roberts, S., Heatley, S. L., Ma, J., Rusch, M. C., Chen, K., Harris, C. C., Ding, L., Holmfeldt, L., Payne-Turner, D., Fan, X., Wei, L., Zhao, D., Obenauer, J. C., Naeve, C., Mardis, E. R., Wilson, R. K., ... Zhang, J. (2011). CREST maps somatic structural variation in cancer genomes with base-pair resolution. Nature Methods, 8(8), 652-654. https://doi.org/10.1038/nmeth.1628