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19.7: Further Reading, Tools and Techniques

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    There are several interesting papers that are looking at chromatin states and epigenetics in general. Several urls are listed below to begin your exploration:

    1. www.nature.com/nmeth/journal/...meth.1673.html
    2. www.nature.com/nature/journal...ture09906.html
    3. www.nature.com/nbt/journal/v2.../nbt.1662.html
    4. http://www.nytimes.com/2012/09/09/op...tter.html?_r=1 5. www.nature.com/doifinder/10.1038/nature14248

    These are a few selected publications that deal with epigenetics and disease.

    1. www.nature.com/nature/journal...ture02625.html 2. http://www.sciencedirect.com/science...11124712003725
    3. www.nature.com/nbt/journal/v2...f/nbt.1685.pdf

    Tools and Techniques

    ChromHMM is the HMM described in the text. It is available free for download with instructions and examples at: http://compbio.mit.edu/ChromHMM/.

    Segway is another method for analyzing multiple tracks of functional genomics data. It uses a dynamic Bayesian network (HMMs are a particular type of dynamic Bayesian network) which enables it to analyze the entire genome at 1-bp resolution. The downside is that it is much slower than ChromHMM. It is available free for download here: http://noble.gs.washington.edu/proj/segway/.

    This page titled 19.7: Further Reading, Tools and Techniques was last modified on Wed, 17 Mar 2021 20:41:26 GMT and is shared under a CC BY-NC-SA 4.0 license and was authored, remixed, and/or curated by Manolis Kellis et al. (MIT OpenCourseWare) via source content that was edited to the style and standards of the LibreTexts platform.