Author

Ziqing Ye

Johns Hopkins University

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Molecular Biology· 3 Developmental Biology· 1 Immunology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:experimental assay· 5 Research Focus:cell type annotation· 2 Organism:Drosophila· 2 Organism:human· 2 Assay:bulk RNA-seq· 1 Research Focus:cell-cell communication· 1 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1

Frequent Co-Authors

Siran TianiD· 3 shared Tatjana TrcekiD· 3 shared Aritra Basu· 1 shared Ayse EceriD· 1 shared Celia Torres-AranciviaiD· 1 shared Christopher F. Thomas· 1 shared Cloud Peter PaweletziD· 1 shared Cynthia A. BradhamiD· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 11 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

3 shared papersMolecular Biology

Siran TianORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

A dynamic molecular glue targets a plastic MDA5 filament interface to stimulate innate immunity

闫丽娟, 闫丽娟, Ziqing Ye, Swechha Mainali Pokharel, Tiffany Y. T. Hsu, Celia Torres-Arancivia, Koji Haratani, Elena V. Ivanova, Cloud Peter Paweletz, Sara Cherry, David Allen Barbie, Sun Hur

This paper identifies MA2, a small-molecule agonist of MDA5 that enhances antiviral and antitumor immunity by dynamically stabilizing MDA5 filaments.

bioRxiv · Oct 20, 2026 · PreprintImmunology

Synergy of RNA Concentration, RNA Binding Proteins, and RNA Palindrome Drives clustering of oskar mRNA in vivo

Ziqing Ye, Siran Tian, Ayse Ecer, Tatjana Trcek

The paper investigates factors driving oskar mRNA clustering in Drosophila embryos, finding that RNA concentration, Staufen, and RNA palindromes collectively promote dimerization and oligomerization.

bioRxiv · May 4, 2026 · PreprintMolecular Biology

Characterization of intermolecular base pairing using AMT crosslinking in mammalian cells during oxidative stress

Jeffrey Liao, Isabel Betances, Siran Tian, Emily Shen, Ziqing Ye, Aritra Basu, Tatjana Trcek

The paper uses AMT crosslinking to study intermolecular base pairing in mammalian cells under oxidative stress, finding it is influenced by RNA sequence, stress, and G3BP1/2.

bioRxiv · May 21, 2025 · PreprintMolecular Biology

The Folding of Germ Granule mRNAs Controls Intermolecular Base Pairing in Germ Granules and Maintains Normal Fly Development

Siran Tian, Hung Van Nguyen, Ziqing Ye, Silvi Rouskin, Dave Thirumalai, Tatjana Trcek

The paper shows that RNA folding in germ granules limits intermolecular base pairing, which is essential for normal fly development.

bioRxiv · May 31, 2024 · PreprintMolecular Biology

Voltage-gated sodium channel activity mediates sea urchin larval skeletal patterning through spatial regulation of Wnt5 expression

Christopher F. Thomas, Dakota Y. Hawkins, Viktoriya Skidanova, Simone R Marrujo, Janay Gibson, Ziqing Ye, Cynthia A. Bradham

The paper shows that voltage-gated sodium channel activity regulates Wnt5 expression in sea urchin larvae, affecting skeletal patterning through spatial control of Wnt5.

Development · May 4, 2023Peer-reviewedDevelopmental Biology