
Research Topics
The goal of our research is to gain a detailed structural and mechanistic understanding of cellular and viral noncoding RNAs and their associated ribonucleoprotein complexes involved in gene regulation and human diseases. We are working to uncover general motifs and principles that govern RNA tertiary structure formation, RNA recognition by another RNA or protein, and how dynamic RNA structures contribute to the regulation of gene expression and human pathophysiology.
Current Research
- Structures and mechanisms of diverse bacterial T-box riboswitches
- Specific tRNA recognition by host and viral proteins and RNAs
- Differential regulation of antiviral protein PKR by host and viral RNAs
Applying our Research
Structural and mechanistic elucidation of functionally important host noncoding RNAs and viral RNAs will inform and guide design of novel diagnostic and therapeutic strategies against bacterial and viral infections, metabolic and autoimmune disorders, and several cancers.
Need for Further Study
Our research aims to help illuminate the molecular structure, function, and mechanisms of the “dark matter” of the transcriptome, the non-coding RNAs that execute various cellular functions, as well as viral RNA structures that enable viral replication and infectivity. Detailed understanding of these non-coding structured RNAs and their interactions will lead to novel therapeutics that improve human health.
Biography
- Stadtman Tenure-Track Investigator, NIDDK, NIH, 2015-2022
- Research Fellow, National Heart, Lung, and Blood Institute, NIH, 2011-2015
- Research Associate, Howard Hughes Medical Institute and Fred Hutchinson Cancer Research Center, 2009-2011
- Ph.D., University of Wisconsin-Madison, 2009
- B.S., Peking University, 2002
Selected Publications
- Bou-Nader C, Juma KM, Bothra A, Brasington AJ, Ghirlando R, Suzuki M, Garboczi DN, Leppla SH, Zhang J. Structural basis of double-stranded RNA recognition by the J2 monoclonal antibody. Nat Commun. 2025;17(1):635.
- Bou-Nader C, Link KA, Suddala KC, Knutson JR, Zhang J. Structures of complete HIV-1 TAR RNA portray a dynamic platform poised for protein binding and structural remodeling. Nat Commun. 2025;16(1):2252.
- Skeparnias I, Bou-Nader C, Anastasakis DG, Fan L, Wang YX, Hafner M, Zhang J. Structural basis of MALAT1 RNA maturation and mascRNA biogenesis. Nat Struct Mol Biol. 2024;31(11):1655-1668.
- Skeparnias I, Zhang J. Structural basis of NEAT1 lncRNA maturation and menRNA instability. Nat Struct Mol Biol. 2024;31(11):1650-1654.
- Lee YT, Degenhardt MFS, Skeparnias I, Chen SY, Bhoge BA, Tarasov SG, Dyba MA, Zhang J, Stagno JR, Wang YX. Structural basis for protein-free catalysis by ribonuclease P ribozyme. Nat Commun. 2026;17(1).
Related Scientific Focus Areas



Molecular Biology and Biochemistry
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Microbiology and Infectious Diseases
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Biomedical Engineering and Biophysics
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This page was last updated on Wednesday, September 2, 2026