کد مقاله کد نشریه سال انتشار مقاله انگلیسی نسخه تمام متن
5907915 1160885 2013 7 صفحه PDF دانلود رایگان
عنوان انگلیسی مقاله ISI
A tiered hidden Markov model characterizes multi-scale chromatin states
ترجمه فارسی عنوان
یک مدل مارکف پنهان در حالت چند بعدی حالتهای کروماتین را چند برابر می کند
کلمات کلیدی
موضوعات مرتبط
علوم زیستی و بیوفناوری بیوشیمی، ژنتیک و زیست شناسی مولکولی ژنتیک
چکیده انگلیسی
Precise characterization of chromatin states is an important but difficult task for understanding the regulatory role of chromatin. A number of computational methods have been developed with varying levels of success. However, a remaining challenge is to model epigenomic patterns over multi-scales, as each histone mark is distributed with its own characteristic length scale. We developed a tiered hidden Markov model and applied it to analyze a ChIP-seq dataset in human embryonic stem cells. We identified a two-tier structure containing 15 distinct bin-level chromatin states grouped into three domain-level states. Whereas the bin-level states capture the local variation of histone marks, the domain-level states detect large-scale variations. Compared to bin-level states, the domain-level states are more robust and coherent. We also found active regions in intergenic regions that upon closer examination were expressed non-coding RNAs and pseudogenes. These results provide insights into an additional layer of complexity in chromatin organization.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Genomics - Volume 102, Issue 1, July 2013, Pages 1-7
نویسندگان
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