Publications

[14] Chen, Z., Elowitz, M.B. (2021). Programmable protein circuit design. Cell Online ahead of print: https://www.cell.com/cell/fulltext/S0092-8674(21)00292-0

[13] Yu, M., Zhao, Z., Chen, Z., Le, S., Yan, J., 2020. Modulating mechanical stability of heterodimerization between engineered orthogonal helical domains. Nat. Commun. 11, 4476.

[12] Chen, Z., Kibler, R.D., Hunt, A., Busch, F., Pearl, J., Jia, M., VanAernum, Z.L., Wicky, B.I.M., Dods, G., Liao, H., Wilken, M.S., Ciarlo, C., Green, S., El-Samad, H., Stamatoyannopoulos, J., Wysocki, V.H., Jewett, M.C., Boyken, S.E., Baker, D., (2020). De novo design of protein logic gates. Science 368, 7884.

Cover art by Demin Liu, MolGraphics

[11] VanAernum, Z.L., Busch, F., Jones, B.J., Jia, M., Chen, Z., Boyken, S.E., Sahasrabuddhe, A., Baker, D., Wysocki, V.H. (2020). Rapid online buffer exchange for screening of proteins, protein complexes and cell lysates by native mass spectrometry. Nature Protocols

[10] Chen, Z. (2019). Creating the protein version of DNA base pairing. Science 366, 965-965.

[9] Langan, R.A., Boyken, S.E., Ng, A.H., Samson, J.A., Dods, G., Westbrook, A.M., Nguyen, T.H., Lajoie, M.J., Chen, Z., Berger, S., Mulligan, V.K., Dueber, J.E., Novak, W.R.P., El-Samad, H., Baker, D., (2019). De novo design of bioactive protein switches. Nature 572, 205–210.

[8] Cao, L., Yu, B., Kong, D., Cong, Q., Yu, T., Chen, Z., Hu, Z., Chang, H., Zhong, J., Baker, D., He, Y., (2019). Functional expression and characterization of the envelope glycoprotein E1E2 heterodimer of hepatitis C virus. PLoS Pathog. 15, e1007759.

[7] Boyken, S.E., Benhaim, M.A., Busch, F., Jia, M., Bick, M.J., Choi, H., Klima, J.C., Chen, Z., Walkey, C., Mileant, A., Sahasrabuddhe, A., Wei, K.Y., Hodge, E.A., Byron, S., Quijano-Rubio, A., Sankaran, B., King, N.P., Lippincott-Schwartz, J., Wysocki, V.H., Lee, K.K., Baker, D., (2019). De novo design of tunable, pH-driven conformational changes. Science 364, 658-664.

[6] Chen, Z., Johnson, M.C., Chen, J., Bick, M.J., Boyken, S.E., Lin, B., De Yoreo, J.J., Kollman, J.M., Baker, D., DiMaio, F., (2019). Self-assembling 2D arrays with de novo protein building blocks. J. Am. Chem. Soc. 141, 8891-8895.

Cover art by Demin Liu, MolGraphics

[5] Chen, Z., Boyken, S.E., Jia, M., Busch, F., Flores-Solis, D., Bick, M.J., Lu, P., Van Aernum, Z.L., Sahasrabuddhe, A., Langan, R.A., Bermeo, S., Brunette, T., Mulligan, V.K., Carter, L.P., DiMaio, F., Sgourakis, N.G., Wysocki, V.H., Baker, D. (2019). Programmable design of orthogonal protein heterodimers. Nature 565, 106-111.

Cover art by Demin Liu, MolGraphics

[4] Lu, P., Min, D., DiMaio, F., Wei, K.Y., Vahey, M.D., Boyken, S.E., Chen, Z., Fallas, J.A., Ueda, G., Sheffler, W., Mulligan, V.K., Xu, W., Bowie, J.U., Baker, D. (2018). Accurate computational design of multipass transmembrane proteins. Science 359, 1042-1046.

[3] Thubagere, A.J., Li, W., Johnson, R.F., Chen, Z., Doroudi, S., Lee, Y.L., Izatt, G., Wittman, S., Srinivas, N., Woods, D., Winfree, E., Qian, L. (2017). A cargo-sorting DNA robot. Science 357, eaan6558.

[2] Boyken, S.E., Chen, Z., Groves, B., Langan, R.A., Oberdorfer, G., Ford, A., Gilmore, J.M., Xu, C., DiMaio, F., Pereira, J.H., Sankaran, B., Seelig, G., Zwart, P.H., Baker, D. (2016). De novo design of protein homo-oligomers with modular hydrogen-bond network-mediated specificity. Science 352, 680-687.

[1] Chen, Z., Tan, J.Y., Wen, Y., Niu, S., Wong, S.-M. (2012). A game-theoretic model of interactions between Hibiscus latent Singapore virus and tobacco mosaic virus. PLoS One 7, e37007.