Jonathan Ouyang
i study ribosome quality control, ribosome stalling, and ribosome biophysics more generally, with a mix of binding kinetics, deep learning, and first-principles modeling.
that happens in the Green Lab and Buskirk Group at Johns Hopkins Medicine and the Trcek Lab at JHU, where i’m a biophysics undergrad. i’m also building Collide Therapeutics, and every so often i host dinners.
jouyan11 [at] jh [dot] edu
citables
- 2027
Ouyang, J., Green, R., Buskirk, A. Structure Prediction and Screening of Ribosomal Complexes With RiBoltz2. Biophysical Society Annual Meeting.
Ouyang, J., Buskirk, A. Evidence for convergent evolution of ribosome pausing mechanisms in cotranslational folding. Biophysical Society Annual Meeting.
- 2026
Ouyang, J., Green, R., Buskirk, A. Structure Prediction and Screening of Ribosomal Complexes With RiBoltz2. Under review.
Ouyang, J. Annealed atomistic diffusion with Boltz-2 and MD relaxation for rapid pseudo-timescale dynamics. CASP17.
Ouyang, J., Green, R., Buskirk, A. Structure Prediction and Screening of Ribosomal Complexes With RiBoltz2. Poster, 35th Annual Institute for Biophysical Research Retreat.
Ouyang, J. Hidden non-conservativity in structure prediction models. Paper presented at the NeurIPS 2026 Workshop on Interpretability for Discovery (Interp4Discovery).
Ouyang, J., Buskirk, A. SAM-RFM: Stalling-Aware Modified Ribosome Flow Model for de novo Translation Efficiency Prediction. Poster, Biophysical Society Annual Meeting.
- 2025
Ouyang, J., Jin, H. Biochemical Characterization of Rbg2–Gir2. Oral, UIUC Undergraduate Research Symposium.second year in a row; still the only high schooler to present there
Ouyang, J., Jin, H. Biochemical Characterization of Rbg2–Gir2. Poster, 20th Annual Frontiers in Bioengineering Symposium.first high school presenter in the symposium’s history
- 2024
Ouyang, J., Jin, H. Characterization of Rbg2. Oral, UIUC Undergraduate Research Symposium.first high schooler invited to give an oral in the symposium’s 16-year history
awards
- National Champion and Illinois all-star representative, National All-Star Academic Tournament (2025)
- 5th nationally in science/math, NAQT individual national championship (2025)
- National Merit Finalist, perfect PSAT
- USACO Silver
- USNCO national qualifier
- AIME qualifier with distinction
- Science Olympiad state champion (gold, Chemistry Lab)
food
more on Instagram, @thequantum0
links
- founderjhuasbs.com AI Safety & Biosecurity at Hopkins
- founderupet.club Undergraduate Protein Engineering Team at JHU
- foundercollidetherapeutics.com AI-native drug design
- hostjhupopup.com a dinner series in Baltimore
- pausedbiocomphack.com a biocomputing competition & summit
- instagram@thequantum0
- linkedinin/jouyang4
- x@jouyan11
posts
- 30 sep 2026
- 29 sep 2026
- 27 sep 2026
- 21 sep 2026
hide older posts
- 4 sep 2026
- 23 aug 2026
- 21 feb 2026
- 2 jan 2026
- 11 dec 2025
- 30 oct 2025
- 25 jun 2025
- 11 may 2025
- 23 apr 2025
- 17 mar 2025
experience
research 5,500+ hours
- 2025–now
researcher, Green Lab, Johns Hopkins Medicine
- Full-time, paid. Structure prediction models at megadalton scale for ribosomal complex structure determination (1st author).
- 2025–now
researcher, Buskirk Group, Johns Hopkins Medicine
- Full-time, paid. Theoretical and evolutionary biology (1st author); mechanistic interpretability on structure prediction models.
- 2025–now
researcher, Trcek Lab, Johns Hopkins University
- Single-molecule RNA microscopy, modeling the formation of condensates.
- Agentic frameworks and harnesses for complex multimodal data analysis (1st author).
research fellow, AfterQuery
- Developing AI4Science agent evaluations, paid.
- 2023–2025
researcher, Jin Lab, UIUC
- 2,700+ hours as a Group D university employee while still in high school. Sole (1st author) responsibility for conceptualization, hypotheses, experimental design, execution, analysis, and manuscript.
- $1,000 Frankel Fund research grant.
building
- 2026–now
founder, Collide Therapeutics
- AI-native drug design; ribosome-associated targets in neurodegeneration. Spinout from research done in the Green Lab. Provisional patent filing in progress.
- 2026–now
founding organizer, AI Safety & Biosecurity at Hopkins
- Seeded by organizers of AI Safety at UCSB through the Kairos-advised university-group founder project.
- 2025–now
founder, Undergraduate Protein Engineering Team, JHU
- Recruited and lead a ~20-person team spanning BME, Biophysics, ChemBE, CS, and Applied Math, sponsored by Dr. Jeffrey Gray.
- Accepted to Track 1 of the Anthropic × Adaptyv Protein Design Competition: $60,000 in credits and ~$20,000 in wet lab.
- 2026–now
host, JHU Popup, Forge, and biocomphack (paused)
- Notable guests like the CEO of Cortical Labs, with financial support from major student orgs.
teaching
- 2026–now
tutor, The Learning Den, Johns Hopkins University
- Organic Chemistry I and lab, Molecular Biology, Calculus I–II, Intro Chemistry I–II, Intro Computing, Linear Algebra.
- 2021–2025
teaching, recruiting, and community-building, before Hopkins
- Trained incoming researchers and wrote the standing protein-purification and kinetics protocols still in use in the Jin Lab, UIUC.
- Grew a student-run club to 110+ members out of a ~320-student body (34% of the school). Built joint programming with DREAAM House supporting underserved youth.
- Schoolhouse.world tutor: college-level biology and math, 100% positive reviews (n = 34). Math Circle instructor, K–12 curriculum development, four years.
- Captain, Scholastic Bowl: recruited and trained a team from a ~320-student school to 8th in the nation, the best result since 2019.
education
- 2025–2028
Johns Hopkins University, B.S. Biophysics
- 2023–2025
University of Illinois Urbana-Champaign, concurrent enrollment while in high school
- MCB 250 Molecular Genetics (A+), CS 124 (A), CS 128 (A), CHEM 232 Organic Chemistry I (A).
- Computational Genomics @ Mayo Clinic.
- 2020–2025
University Laboratory High School, Urbana, Illinois