Unsupervised pattern discovery in human chromatin structure through genomic segmentation

作者：Hoffman, Michael M.; Buske, Orion J.; Wang, Jie; Weng, Zhiping; Bilmes, Jeff A.; Noble, William Stafford^*

来源：Nature Methods, 2012, 9(5): 473-U88.

DOI：10.1038/NMETH.1937

• GENE-EXPRESSION
• ALGORITHM
• DATABASE
• UPDATE
• MOTIF

We trained Segway, a dynamic Bayesian network method, simultaneously on chromatin data from multiple experiments, including positions of histone modifications, transcription-factor binding and open chromatin, all derived from a human chronic myeloid leukemia cell line. In an unsupervised fashion, we identified patterns associated with transcription start sites, gene ends, enhancers, transcriptional regulator CTCF-binding regions and repressed regions. Software and genome browser tracks are at http://noble.gs.washington.edu/proj/segway/.

• 出版日期2012-5