WashU Comparative Epigenome Browser
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  1. Deep conservation of CpG methylation of HOX gene cluster between zebrafish and mouse
    From Zhang, Chi, Yujin Hoshida, and Kirsten C. Sadler. “Comparative Epigenomic Profiling of the DNA Methylome in Mouse and Zebrafish Uncovers High Interspecies Divergence.” Frontiers in Genetics 7 (June 17, 2016). https://doi.org/10.3389/fgene.2016.00110.
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  2. Conserved epigenomic landscape of SPP2 gene in liver and brain between human and mouse
    From ENCODE Project Consortium. “An Integrated Encyclopedia of DNA Elements in the Human Genome.” Nature 489, no. 7414 (September 2012): 57–74. https://doi.org/10.1038/nature11247 and Yue, Feng, Yong Cheng, Alessandra Breschi, Jeff Vierstra, Weisheng Wu, Tyrone Ryba, Richard Sandstrom, et al. “A Comparative Encyclopedia of DNA Elements in the Mouse Genome.” Nature 515, no. 7527 (November 2014): 355–64. https://doi.org/10.1038/nature13992.
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  3. Human-specific candidate enhancer in cranial neural crest cells
    From Prescott, Sara L, Rajini Srinivasan, Maria Carolina Marchetto, Irina Grishina, Iñigo Narvaiza, Licia Selleri, Fred H Gage, Tomek Swigut, and Joanna Wysocka. “Enhancer Divergence and Cis-Regulatory Evolution in the Human and Chimp Neural Crest.” CELL 163, no. 1 (September 2015): 68–83. https://doi.org/10.1016/j.cell.2015.08.036.
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  4. 3D genome structure difference between human and gorilla
    From Yang, Yang, Yang Zhang, Bing Ren, Jesse R. Dixon, and Jian Ma. “Comparing 3D Genome Organization in Multiple Species Using Phylo-HMRF.” Cell Systems 8, no. 6 (June 26, 2019): 494-505.e14. https://doi.org/10.1016/j.cels.2019.05.011.
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  5. Human SVA_F insertion associated with potential human specific enhancer
    From: Zhuo, Xiaoyu, Alan Y Du, Erica C Pehrsson, Daofeng Li, and Ting Wang. "Epigenomic Differences in the Human and Chimpanzee Genomes Are Associated with Structural Variation." Genome Research, December 10, 2020, gr.263491.120. https://doi.org/10.1101/gr.263491.120.
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  6. Human-marmoset comparison: HERVH insertion in human associated with new TAD boundary
    From: Zhang, Yanxiao, Ting Li, Sebastian Preissl, Maria Luisa Amaral, Jonathan D Grinstein, Elie N Farah, Eugin Destici, et al. "Transcriptionally Active HERV-H Retrotransposons Demarcate Topologically Associating Domains in Human Pluripotent Stem Cells." CELL, 164 (August 2019): 1110. https://doi.org/10.1038/s41588-019-0479-7.
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  7. CTCF binding site evolution across mammals
    From: Schmidt, Dominic, Petra C Schwalie, Michael D Wilson, Benoit Ballester, Ângela Gonçalves, Claudia Kutter, Gordon D Brown, Aileen Marshall, Paul Flicek, and Duncan T Odom. "Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages." CELL 148, no. 1–2 (January 2012): 335–48. https://doi.org/10.1016/j.cell.2011.11.058.
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  8. Comparing DNA methylation in heart, lung and liver between cow and mouse
    From: Zhou, Yang, Shuli Liu, Yan Hu, Lingzhao Fang, Yahui Gao, Han Xia, Steven G. Schroeder, et al. “Comparative Whole Genome DNA Methylation Profiling across Cattle Tissues Reveals Global and Tissue-Specific Methylation Patterns.” BMC Biology 18, no. 1 (July 6, 2020): 85. https://doi.org/10/gpgpb2.
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  9. DNA methylation calling difference between hg38 and CHM13
    From: Gershman, Ariel, Michael E. G. Sauria, Xavi Guitart, Mitchell R. Vollger, Paul W. Hook, Savannah J. Hoyt, Miten Jain, et al. “Epigenetic Patterns in a Complete Human Genome.” Science 376, no. 6588 (April 2022): eabj5089. https://doi.org/10.1126/science.abj5089.
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