topic 14. ​​​Computational epigenetics

Chromatin biology

Nuclear organization

• Supporting Materials

  • Epigenetics

    1. Collected papers for Epigenome Roadmap

    2. Epigenetics by Nature Reviews Genetics

    3. 2020 STAT115 Lect12.1 Epigenetics by Xiaole Shirley Liu

  • Genome Organization

    1. 染色體結構捕捉技術 by 陳政儀

    2. HiC contact bias: Yaffe, E. & Tanay, A. Probabilistic modeling of Hi-C contact maps eliminates systematic biases to characterize global chromosomal architecture. Nat. Genet. 43,1059–65 (2011).

    3. HiC peak calling method: Rao, S. S. et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell 159, 1665–80 (2014).

    4. Genome segmentation: Ernst, J. & Kellis, M. ChromHMM: automating chromatin-state discovery and characterization. Nature Methods 9, 215–216 (2012).

    5. Review: Sexton, T. & Cavalli, G. The role of chromosome domains in shaping the functional genome. Cell 160, 1049–59 (2015).

    6. a nice introduction by Jian Ma, Comparing 3D Genome Organization | CGSI 2019