Zhou Lab

Mathew B., Jacobson J.R., Berdyshev E., Huang Y., Sun X., Zhao Y., Gerhold L.M., Siegler J., Evenoski C., Wang T., Zhou T., Zaidi R., Moreno-Vinasco L., Bittman R., Chen C.T., Lariviere P.J., Sammani S., Lussier Y.A., Dudek S.M., Natarajan V., Weichselbaum R.R., and Garcia J.G., Role of sphingolipids in murine radiation-induced lung injury: protection by sphingosine 1-phosphate analogs. FASEB J., 25, 3388-3400, 2011. doi:10.1096/fj.11-183970

 

Ma S.F., Xie L., Pino-Yanes M., Sammani S., Wade M.S., Letsiou E., Siegler J., Wang T., Infusino G., Kittles R.A., Flores C., Zhou T., Prabhakar B.S., Moreno-Vinasco L., Villar J., Jacobson J.R., Dudek S.M., and Garcia J.G., Type 2 deiodinase and host responses of sepsis and acute lung injury. Am. J. Respir. Cell Mol. Biol., 45, 1203-1211, 2011. doi:10.1165/rcmb.2011-0179OC

 
Sammani S., Park K.S., Zaidi S.R., Mathew B., Wang T., Huang Y., Zhou T., Lussier Y.A., Husain A.N., Moreno-Vinasco L., Vigneswaran W.T., and Garcia J.G., A sphingosine 1-phosphate 1 receptor agonist modulates brain death-induced neurogenic pulmonary injury. Am. J. Respir. Cell Mol. Biol., 45, 1022-1027, 2011. doi:10.1165/rcmb.2010-0267OC

 
Ramsey D.C., Scherrer M.P., Zhou T., and Wilke C.O., The relationship between relative solvent accessibility and evolutionary rate in protein evolution. Genetics, 188, 479-488, 2011. doi:10.1534/genetics.111.128025

 
Zhou T. and Wilke C.O., Reduced stability of mRNA secondary-structure near the translation-initiation site in dsDNA viruses. BMC Evol. Biol., 11, 59, 2011. doi:10.1186/1471-2148-11-59

 
Zhou T., Garcia J.G.N., and Zhang W., Integrating microRNAs into a system biology approach to acute lung injury. Transl. Res., 157, 180-190, 2011. doi:10.1016/j.trsl.2011.01.010

Rawal H.C., Yu J., Zhang X., Cai C., Chen Q.*, and Zhou T.*, qMAP decodes RNA fragmentation dynamics in development and disease.  Molecular Systems Biology, 2026. (*co-corresponding author)  doi:10.1038/s44320-026-00237-2

 

Shi J., Zhang X., Cai C., Liu S., Yu J., James E.R., Liu L., Emery B.R., McMurray M., Torres-Arce E., Rawal H.C., Ramsay J., Kunisaki J., Zhou C., Milstone D.S., Patti M.E., Yang X., Jenkins T.G., Quinlan A. Cairns B.R., Schimmel P., Hotaling J.M., Aston K.I.*, Zhou T.*, and Chen Q.*, Conserved shifts in sperm small non-coding RNA profiles during mouse and human aging. The EMBO Journal, 2026. (*co-corresponding author)  doi:10.1038/s44318-025-00687-8

 
Li X., Hernandez R., Zhang X., Tang S., Yuan X., Wu J., Pham K., Rawal H.C., Heinrich E.C., Zhang S., Chen Q., Zhou T., and Zhou C., A cholesterol-responsive hepatic tRNA-derived small RNA regulates cholesterol homeostasis and atherosclerosis development. Nature Communications, 16, 11043, 2025.  doi:10.1038/s41467-025-67387-z

 

Rawal H.C., Chen Q.*, and Zhou T.*, FUSION: a family-level integration approach for robust differential analysis of small non-coding RNAs. Bioinformatics, 41, btaf526, 2025. (*co-corresponding author)  doi:10.1093/bioinformatics/btaf526

 

Cai H., Yu J., Zhang X., Zhou T.*, and Chen Q.*, A model for propagation of RNA structural memory through biomolecular condensates. Nature Cell Biology, 27, 1381?1386, 2025. (*co-corresponding author)  doi:10.1038/s41556-025-01736-4

 

Yu J., Zhang X., Cai C., Zhou T.*, and Chen Q.*, Small RNA and Toll-like receptor interactions: origins and disease mechanisms. Trends in Biochemical Sciences, 50, 385-401, 2025. (*co-corresponding author)  doi:10.1016/j.tibs.2025.01.004

 

Hernandez R., Li X., Shi J., Dave T.R., Zhou T., Chen Q., and Zhou C., Paternal hypercholesterolemia elicits sex-specific exacerbation of atherosclerosis in offspring.  JCI Insight, 9, e179291, 2024.  doi.org/10.1172/jci.insight.179291

 

Wang Z., Wang Y., Zhou T., Chen S., Morris D., Magalhães R.D.M., Li M., Wang S., Wang H., Xie Y., McSwiggin H., Oliver D., Yuan S., Zheng H., Mohammed J., Lai E.C., McCarrey J.R., and Yan W., The rapidly evolving X-linked MIR-506 family fine-tunes spermatogenesis to enhance sperm competition. Elife, 13, RP90203, 2024. doi.org/10.7554/eLife.90203.2

 

Chen Q. and Zhou T., Emerging functional principles of tRNA-derived small RNAs and other regulatory small RNAs. Journal of Biological Chemistry, 299, 105225, 2023. doi.org/10.1016/j.jbc.2023.105225

 

Liu J., Shi J., Hernandez R., Li X., Konchadi P., Miyake Y., Chen Q., Zhou T., and Zhou C., Paternal phthalate exposure-elicited offspring metabolic disorders are associated with altered sperm small RNAs in mice.  Environment International, 172, 107769, 2023.  doi:10.1016/j.envint.2023.107769

 

Wang H., Wang Z., Zhou T., Morris D., Chen S., Li M., Wang Y., Zheng H., Fu W., and Yan W., Small RNA shuffling between murine sperm and their cytoplasmic droplets during epididymal maturation. Developmental Cell, 58, 779-790, 2023.  doi:10.1016/j.devcel.2023.03.010

 

Shi J., Zhou T.*, and Chen Q.*, Exploring the expanding universe of small RNAs. Nature Cell Biology, 24, 415-423, 2022. (*co-corresponding author) doi:10.1038/s41556-022-00880-5

 

Zhu L.*, Zhou T.*, Iyyappan R., Ming H., Dvoran M., Wang Y., Chen Q., Roberts R.M., Susor A., and Jiang Z., High-resolution ribosome profiling reveals translational selectivity for transcripts in bovine preimplantation embryo development. Development, 149, dev200819, 2022. (*co-first author)  doi:10.1242/dev.200819

 

Chen Q.*, Zhang X., Shi J., Yan M., and Zhou T.*, Origins and evolving functionalities of tRNA-derived small RNAs. Trends in Biochemical Sciences, 46, 790-804, 2021. (*co-corresponding author)  doi:10.1016/j.tibs.2021.05.001
 
Shi J., Zhang Y., Tan D., Zhang X., Yan M., Zhang Y., Franklin R., Shahbazi M., Mackinlay K., Liu S., Kuhle B., James E.R., Zhang L., Qu Y., Zhai Q., Zhao W., Zhao L., Zhou C., Gu W., Murn J., Guo J., Carrell D.T., Wang Y., Chen X., Cairns B.R., Yang X.L., Schimmel P., Zernicka-Goetz M., Cheloufi S.*, Zhang Y.*, Zhou T.*, and Chen Q.*, PANDORA-seq expands the repertoire of regulatory small RNAs by overcoming RNA modifications. Nature Cell Biology, 23, 424-436, 2021. (*co-corresponding author)  doi:10.1038/s41556-021-00652-7