Representative publications

Li, Y., et al. (2024). TEENA: an integrated web server for transposable element enrichment analysis in various model and non-model organisms. Nucleic Acids Res 52(W1):W126-W131.
Brown, L., et al. (2024). Polycomb protein binding and looping in the ON transcriptional state. Sci Adv 10(17): eadn1837.
Du, C., et al. (2023). Regulation of endogenous retrovirus-derived regulatory elements by GATA2/3 and MSX2 in human trophoblast stem cells. Genome Res 33(2): 197-207.
Erokhin, M., et al. (2023). Crol contributes to PRE-mediated repression and Polycomb group proteins recruitment in Drosophila. Nucleic Acids Res 51(12): 6087-6100.
Yu, M., et al. (2023). Endogenous retrovirus-derived enhancers confer the transcriptional regulation of human trophoblast syncytialization. Nucleic Acids Res 51(10): 4745-4759.
Sun, M. A., et al. (2021). Endogenous retroviruses drive lineage-specific regulatory evolution across primate and rodent placentae. Mol Biol Evol 38(11): 4992-5004.
Brown, J. L., et al. (2018). Global changes of H3K27me3 domains and Polycomb group protein distribution in the absence of recruiters Spps or Pho. Proc Natl Acad Sci U S A 115(8): E1839-E1848.
Zhao, L., et al. (2014). The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation. Genome Res 24(8): 1296-1307.
Sun, M. A., et al. (2012). RedoxDB--a curated database for experimentally verified protein oxidative modification. Bioinformatics 28(19): 2551-2552.

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Other publications

Li, Y., et al. (2023). Regulation of the three-dimensional chromatin organization by transposable elements in pig spleen. Comput Struct Biotechnol J 21: 4580-4588.
Wolf, G., et al. (2020). KRAB-zinc finger protein gene expansion in response to active retrotransposons in the murine lineage. Elife 9.
Chen, C., et al. (2020). HIRA, a DiGeorge Syndrome Candidate Gene, Confers Proper Chromatin Accessibility on HSCs and Supports All Stages of Hematopoiesis. Cell Rep 30(7): 2136-2149 e2134.
Sun, Z., et al. (2019). EGR1 recruits TET1 to shape the brain methylome during development and upon neuronal activity. Nat Commun 10(1): 3892.
De, S., et al. (2019). Structure and function of an ectopic Polycomb chromatin domain. Sci Adv 5(1): eaau9739.
Dunn-Fletcher, C. E., et al. (2018). Anthropoid primate-specific retroviral element THE1B controls expression of CRH in placenta and alters gestation length. PLoS Biol 16(9): e2006337.
Huang, Y., et al. (2018). S1P-dependent interorgan trafficking of group 2 innate lymphoid cells supports host defense. Science 359(6371): 114-119.
Patel, A., et al. (2018). DNA Conformation Induces Adaptable Binding by Tandem Zinc Finger Proteins. Cell 173(1): 221-233 e212.
Sun, M. A., et al. (2017). Prediction of reversible disulfide based on features from local structural signatures. BMC Genomics 18(1): 279.
Yang, P., et al. (2017). A placental growth factor is silenced in mouse embryos by the zinc finger protein ZFP568. Science 356(6339): 757-759.
Taylor, S., et al. (2017). PD-1 regulates KLRG1(+) group 2 innate lymphoid cells. J Exp Med 214(6): 1663-1678.
Sun, M. A., et al. (2016). Prediction of redox-sensitive cysteines using sequential distance and other sequence-based features. BMC Bioinformatics 17(1): 316.
Sharif, J., et al. (2016). Activation of Endogenous Retroviruses in Dnmt1(-/-) ESCs Involves Disruption of SETDB1-Mediated Repression by NP95 Binding to Hemimethylated DNA. Cell Stem Cell 19(1): 81-94.