Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard School of Public Health, Boston, MA 02115, USA.
Bioinformatics. 2011 Jul 1;27(13):1867-8. doi: 10.1093/bioinformatics/btr279. Epub 2011 May 5.
Transcription factor binding events are frequently associated with a pattern of nucleosome occupancy changes in which nucleosomes flanking the binding site increase in occupancy, while those in the vicinity of the binding site itself are displaced. Genome-wide information on enhancer proximal nucleosome occupancy can be readily acquired using ChIP-seq targeting enhancer-related histone modifications such as H3K4me2. Here, we present a software package, BINOCh that allows biologists to use such data to infer the identity of key transcription factors that regulate the response of a cell to a stimulus or determine a program of differentiation.
The BINOCh open source Python package is freely available at http://liulab.dfci.harvard.edu/BINOCh under the FreeBSD license.
转录因子结合事件通常与核小体占据变化模式相关联，在这种模式中，结合位点侧翼的核小体占据增加，而结合位点本身附近的核小体则被取代。使用 ChIP-seq 靶向与增强子相关的组蛋白修饰（如 H3K4me2），可以很容易地获得关于增强子近端核小体占据的全基因组信息。在这里，我们提出了一个软件包 BINOCh，它允许生物学家使用这些数据来推断调节细胞对刺激反应或决定分化程序的关键转录因子的身份。
BINOCh 开源 Python 包可在 http://liulab.dfci.harvard.edu/BINOCh 上免费获得，许可证为 FreeBSD。
