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Chan, Michelle

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Chan

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Michelle

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Chan, Michelle
Author's Publications: search.filters.isAuthorOfPublication.c307fe06-d50e-428c-8878-c905fbc92f57

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    Evolutionary principles of modular gene regulation in yeasts
    (eLife Sciences Publications, Ltd, 2013) Thompson, Dawn A; Roy, Sushmita; Chan, Michelle; Styczynsky, Mark P; Pfiffner, Jenna; French, Courtney; Socha, Amanda; Thielke, Anne; Napolitano, Sara; Muller, Paul; Kellis, Manolis; Konieczka, Jay H; Wapinski, Ilan; Regev, Aviv
    Divergence in gene regulation can play a major role in evolution. Here, we used a phylogenetic framework to measure mRNA profiles in 15 yeast species from the phylum Ascomycota and reconstruct the evolution of their modular regulatory programs along a time course of growth on glucose over 1 billion years. We found that modules have diverged proportionally to phylogenetic distance, with prominent changes in gene regulation accompanying changes in lifestyle and ploidy, especially in carbon metabolism. Paralogs have significantly contributed to regulatory divergence, typically within a very short window from their duplication. Paralogs from a whole genome duplication (WGD) event have a uniquely substantial contribution that extends over a longer span. Similar patterns occur when considering the evolution of the heat shock regulatory program measured in eight of the species, suggesting that these are general evolutionary principles. DOI: http://dx.doi.org/10.7554/eLife.00603.001
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    Mouse Ooplasm Confers Context-Specific Reprogramming Capacity
    (Nature Publishing Group, 2012) Chan, Michelle; Smith, Zachary; Egli, Dieter; Regev, Aviv; Meissner, Alexander
    Enucleated oocytes have the remarkable ability to reprogram somatic nuclei back to totipotency. Here we investigate genome-scale DNA methylation patterns after nuclear transfer and compare them to the dynamics at fertilization. We identify specific targets for DNA demethylation after nuclear transfer such as germ-line associated promoters, as well as unique limitations that include certain repetitive element classes.
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    Epigenomics and Chromatin Dynamics
    (BioMed Central, 2012) Akopian, Veronika; Chan, Michelle; Clement, Kendell; Galonska, Christina; Gifford, Casey; Lehtola, Elizabeth; Liao, Jing; Samavarchi-Tehrani, Payman; Sindhu, Camille; Smith, Zachary; Tsankov, Alexander M.; Webster, Jamie Orme; Zhang, Yingying; Ziller, Michael; Meissner, Alexander
    A report of the 'Joint Keystone Symposium on Epigenomics and Chromatin Dynamics', Keystone, Colorado, 17-22 January 2012. This year's Joint Keystone Symposium on Epigenomics and Chromatin Dynamics was one of the largest Keystone meetings to date, reflecting the excitement and many developments in this area. Richard Young opened the meeting by giving a historic overview before sharing more detailed insights from his recent work in describing the role of the lysine demethylase Lsd1 in mouse embryonic stem (ES) cell differentiation. He also set the broader stage and highlighted the excitement concerning recent advances in epigenetic drugs such as the new bromodomain inhibitors.