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Current Protocols|July 1, 2026
TRIAGE Toolkit: Streamlined Discovery of Regulatory Genes and ElementsQiongyi Zhao, Sophie Shen, Yuliangzi Sun, et al.
Briefings in Bioinformatics|January 12, 2025
TRIAGE: an R package for regulatory gene analysisQiongyi Zhao, Woo Jun Shim, Yuliangzi Sun, et al.
Cardiovascular Research|December 20, 2022
A transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specificationIsabelle Plaisance, Panagiotis Chouvardas, Yuliangzi Sun, et al.
Nucleic Acids Research|May 1, 2023
Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identityYuliangzi Sun, Woo Jun Shim, Sophie Shen, et al.
Trends in Molecular Medicine|October 18, 2021
Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiationSophie Shen, Yuliangzi Sun, Maika Matsumoto, et al.
JHEP Reports : Innovation in Hepatology|January 16, 2026
Progressive fibrosis in human MASLD is associated with spatially linked transcriptomic signatures of metabolic reprogramming and senescenceHani Vu, Yuliangzi Sun, Zherui Xiong, et al.
Cell Systems|December 5, 2020
Conserved Epigenetic Regulatory Logic Infers Genes Governing Cell IdentityWoo Jun Shim, Enakshi Sinniah, Jun Xu, et al.
Developmental Cell|February 14, 2024
Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesodermZhixuan Wu, Sophie Shen, Dalia Mizikovsky, et al.
Nature Communications|February 5, 2025
Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressureSophie Shen, Tessa Werner, Samuel W Lukowski, et al.
Developmental Cell|December 13, 2023
HOPX-associated molecular programs control cardiomyocyte cell states underpinning cardiac structure and functionClayton E Friedman, Seth W Cheetham, Sumedha Negi, et al.
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