†: contributed equally, joint first authors
*: corresponding author(s)

Shaimae I. Elhajjajy* and Zhiping Weng*. A novel NLP-based method and algorithm to discover RNA-binding protein (RBP) motifs, contexts, binding preferences, and interactions. RNA. (2026)

Nicholas P. Rice†, Samantha Ho†*, Tianxiong Yu, Zhiping Weng, William E. Theurkauf. Aub, Vasa, and Armi concentration in phase-separated nuage is dispensable for piRNA biogenesis and transposon silencing. RNA. (2026)

Nicholas P. Rice^†, Samantha Ho^†*, Zhiping Weng, William E. Theurkauf. Rapid disassembly and Piwi-independent reassembly of Drosophila piRNA cluster heterochromatin following acute heat shock. RNA. (2026)

Youngseo Cheon^†, ...,Tianxiong Yu, ..., Zhiping Weng, Marcus Seldin*, Ivan Marazzi*.Transposable element–gene chimera cartography, origination and role in enhancing transcriptome plasticity. Nature Structural & Molecular Biology. (2026)

Jill E Moore^†*, Henry E Pratt, Kaili Fan, Nishigandha Phalke, Jonathan Fisher, Shaimae I Elhajjajy, ..., Zhiping Weng*. An expanded registry of candidate cis-regulatory elements. Nature. (2026)

Hufeng Zhou^†, ..., Nicole Shedd, ..., Zhiping Weng, Shamil R Sunyaev , Xihong Lin*. FAVOR 2.0: A reengineered functional annotation of variants online resource for interpreting genomic variation. Nucleic Acids Research. (2026)