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Yingxuan Tan

As seen in: Nature, PLOS Biology
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Articles

Quantitative changes in 3D contact predict changes in enhancer-promoter regulation upon cohesin depletion

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By Philine Guckelberger, Benjamin Doughty, Suhas S. P. Rao, Glen Munson, Yingxuan Tan, Charles P. Fulco, Joseph Nasser, Drew T. Bergman, Judhajeet Ray, Evelyn Jagoda, Andreas R. Gschwind, Maya U. Sheth, Chad Munger, Anthony Tan, Kristy S. Mualim, Saul Godinez Pulido, Namita Mitra, David Weisz, Neva C. Durand, Ragini Mahajan, Ruqayya Naheed Khan, Lars M. Steinmetz, Masato T. Kanemaki, Eric S. Lander, Erez Lieberman Aiden, Jesse M. Engreitz, Xiangmeng Shawn Cai, Muhammad Saad Shamim
| Nature Verified
Abstract Enhancers are drivers of gene regulation thought to act via 3D interactions with promoters. However, genome-wide cohesin depletion causes only limited changes in gene expression, despite widespread loss of contact domains, raising questions about how 3D contacts and cohesin influence enhancer function. Here, we introduce CRISPRi of regulatory elements upon degron operation (CRUDO), to quantitatively assess how changes in contact frequency affect enhancer-driven gene regulation.
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Leveraging vibration of effects analysis for robust discovery in observational biomedical data science

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By Braden T. Tierney, Elizabeth Anderson, Yingxuan Tan, Kajal T Claypool
| PLOS Biology Verified
Loading metrics Open Access Peer-reviewed Meta-Research Article Meta-Research Articles feature data-driven examinations of the methods, reporting, verification, and evaluation of scientific research. See Journal Information » Citation: Tierney BT, Anderson E, Tan Y, Claypool K, Tangirala S, Kostic AD, et al. (2021) Leveraging vibration of effects analysis for robust discovery in observational biomedical data science. PLoS Biol 19(9): e3001398.
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