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Selected Works

Rapid in silico directed evolution by a protein language model with EVOLVEpro

Rapid in silico directed evolution by a protein language model with EVOLVEpro

(Science, 2024)

Engineering synthetic phosphorylation signaling networks in human cells

Engineering synthetic phosphorylation signaling networks in human cells

(Science, 2025)

Programmable eukaryotic protein synthesis with RNA sensors by harnessing ADAR

Programmable eukaryotic protein synthesis with RNA sensors by harnessing ADAR

(Nature Biotechnology, 2023)

RNA-triggered protein cleavage and cell growth arrest by the type III-E CRISPR nuclease-protease

RNA-triggered protein cleavage and cell growth arrest by the type III-E CRISPR nuclease-protease

(Science, 2022)

List of all publications

  1. Koob, J.*, Jiang, K*., Sgrizzi, S.*, Che, F., Abudayyeh, O., Gootenberg, J. (2026). Sensing and perturbing mammalian cell states with reprogrammable ADAR sensors. Nature Protocol (In Press). 

  2. Zhou, C., Chen, Z., Li, Z., Wang, J., Jiang, K., Li, P., Yu, R., Zhang, M., Bates, S., Jaakkola, T. (2026). Rethinking Diffusion Models with Symmetries through Canonicalization with Applications to Molecular Graph Generation. arXiv.

  3. Chinn, I., Fischer, P. L. B., Sun, M. A., Holtgrefe, T., Mitnikov, I., Zhou, M., Magrefty, D., Zantou, S., Carscadden, J. K., Jiang, K., Kim, Y. J., Ben Arye, J., Gootenberg, J. S., Abudayyeh, O., Barzilay, R. (2026). MutaGen: Implicitly Guided Protein Evolution from Ranked Feedback via Pair-Based Discrete Flow Matching. GEM.

  4. Jiang, K.*, Yan, Z.*, Bernardo, MD., Sgrizzi, S.R., Villiger, L., Kayabolen, A., Kim, B., Carscadden, J.K., Hiraizumi, M., Nishimasu, H., Gootebnerg, J.S., Abudayyeh, O.O. (2025). Rapid in silico directed evolution by a protein language model with EVOLVEpro. Science.

  5. Wang D., Huot, M., Zhang, Z., Jiang, K., Shakhnovich, E., Esvelt, K. (2025). Without Safeguards, AI-Biology Integration Risks Accelerating Future Pandemics. NeurIPS (Workshop on Biosecurity Safeguards for Generative AI).

  6. Yang, X., Rocks, JW., Jiang, K., Walters, AJ., Rai, K., Liu, J., Nguyen, J., Olson, SD., Mehta, P., Collins, JJ., Daringer, NM., Bashor, CJ. (2025). Engineering synthetic phosphorylation signaling networks in human cells. Science.

  7. Fell, CW., Villiger, L., Lim, J., Hiraizumi, M., Tagliaferri, D., Yarnall, M., Lee, A., Jiang, K., Kayabolen, A., Krajeski, RN., Schmitt-Ulms, C., Ramani, H., Yousef, SM., Roberts, N., Vakulskas, CA., Nishimasu, H., Abudayeh, OO., Gootenberg, JS.  (2025). Reprogramming site-specific retrotransposon activity to new DNA sites. Nature.

  8. Jiang, K., Gootenberg, JS., Abudayyeh, OO. (2025). Fanzors, a family of eukaryotic RNA‐guided DNA endonucleases. FEBS Letters.

  9. Jiang, K.*, Koob, J.*, Chen, X.D.*, Krajeski, R.N.*, Zhang, Y., Volf, V., Zhou, W., Sgrizzi, S.R., Villiger, L., Gootenberg, J.S., Chen, F., Abudayyeh, O.O. (2023). Programmable eukaryotic protein synthesis with RNA sensors by harnessing ADAR. Nature Biotechnology.

  10. Jiang, K.*, Lim, J.*, Sgrizzi, S.R., Trinh, M., Kayabolen, A., Yutin, N., Bao, W., Kato, K., Koonin, E., Gootenberg, J.S., Abudayyeh, O.O. (2023). Programmable RNA-guided DNA endonucleases are widespread in eukaryotes. Science Advances.

  11. Zhang, L., Hajebrahimi, S., Tong, S., Gao, X., Cheng, H., Zhang, Q., Hinojasa, D., Jiang, K., Hong, L., Huard, J., Bao, G. (2023). Force-Mediated Endocytosis of Iron Oxide Nanoparticles for Magnetic Targeting of Stem Cells. ACS Applied Materials & Interfaces.

  12. Kato, K.*, Okazaki, S.*, Schmitt-Ulms, C.*, Jiang, K.*, Zhou, W., Ishikawa, J., Isayama, Y., Adachi, S., Nishizawa, T., Makarova, K.S., et al. (2022). RNA-triggered protein cleavage and cell death by the RNA-guided type III-E CRISPR-Cas nuclease-protease complex. Science.

  13. Yarnall, M.T.N.*, Ioannidi, E.I.*, Schmitt-Ulms, C.*, Krajeski, R.N.*, Lim, J., Villiger, L., Zhou, W., Jiang, K., Roberts, N., Zhang, L., et al. (2022). Drag-and-drop genome insertion without DNA cleavage with CRISPR-directed integrases. Nature Biotechnology.

  14. Sebesta, C., Torres Hinojosa, D., Wang, B., Asfouri, J., Li, Z., Duret, G., Jiang, K., Xiao, Z., Zhang, L., Zhang, Q., et al. (2022). Subsecond multichannel magnetic control of select neural circuits in freely moving flies. Nature Materials.

  15. Zhang, L., Zhang, Q., Hinojosa, D.T., Jiang, K., Pham, Q.K., Xiao, Z., Colvin, V.L., Bao, G. (2022) Multifunctional Magnetic Nanoclusters Can Induce Immunogenic Cell Death and Suppress Tumor Recurrence and Metastasis. ACS Nano.

  16. Jiang, K., Zhang, Q., Hinojosa, D.T., Zhang, L., Xiao, Z., Yin, Y., Tong, S., Colvin, V.L., Bao, G. (2021) Controlled oxidation and surface modification increase heating capacity of magnetic iron oxide nanoparticles. Applied Physics Reviews.

  17. Jiang, K., Zhang, L., Bao, G. (2021) Magnetic iron oxide nanoparticles for biomedical applications. Current Opinion in Biomedical Engineering.

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