期刊
GENOME BIOLOGY
卷 15, 期 4, 页码 -出版社
BMC
DOI: 10.1186/gb-2014-15-4-r60
关键词
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资金
- Canadian Institutes of Health Research [CIHR MOP-86716]
- Terry Fox Foundation [19252]
- Canadian Cancer Society (CCS) [701356]
- National Sciences and Engineering Research Council (NSERC)
- NSERC
- CCS [701356]
- Cole Foundation
Background: Although genetic or epigenetic alterations have been shown to affect the three-dimensional organization of genomes, the utility of chromatin conformation in the classification of human disease has never been addressed. Results: Here, we explore whether chromatin conformation can be used to classify human leukemia. We map the conformation of the HOXA gene cluster in a panel of cell lines with 5C chromosome conformation capture technology, and use the data to train and test a support vector machine classifier named 3D-SP. We show that 3D-SP is able to accurately distinguish leukemias expressing MLL-fusion proteins from those expressing only wild-type MLL, and that it can also classify leukemia subtypes according to MLL fusion partner, based solely on 5C data. Conclusions: Our study provides the first proof-of-principle demonstration that chromatin conformation contains the information value necessary for classification of leukemia subtypes.
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