Publications

1.    Lin, Y., Fletcher, C.M., Zhou, J., Allis, C.D. and Wagner, G. Solution structure of the catalytic domain of GCN5 histone acetyltransferase bound to coenzyme A. Nature 400, 86-89 (1999).
2.    Lin, Y. and Wagner, G. Efficient sidechain and backbone assignment in large proteins: Application to tGCN5. J. Biomol. NMR 15, 227-239 (1999).
3.    Luo, X., Fang, G., Goldiron, M., Lin, Y., Yu, H., Kirschner, M.W. and Wagner, G. Structure and interaction with CDC20 of the spindle assembly checkpoint protein Mad2. Nature Struct. Biol. 7, 224-229 (2000).
4.    Lin, Y., Dötsch, V., Wintner, T., Peariso, K., Myers, L.C., Penner-Hahn, J.E., Verdine, G.L. and Wagner, G. Structural basis for the functional switch of the E. coli Ada protein. Biochemistry 40, 4261-4271 (2001).
5.    Chen, W.G., Chang, Q., Lin, Y., Meissner, A., West, A.E., Griffith, E.C., Jaenisch, R. and Greenberg, M.E. Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2. Science 302, 885-889 (2003).
6.    Brunet, A., Sweeney, L.B., Sturgill, J.F., Chua, K.F., Greer, P.L., Lin, Y., Tran, H., Ross, S.E., Mostoslavsky, R., Cohen, H.Y., Hu, L.S., Cheng, H.L., Jedrychowski, M.P., Gygi, S.P., Sinclair, D.A., Alt, F.W. and Greenberg, M.E. Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase. Science 303, 2011-2015 (2004).
7.    Flavell, S.W., Cowan, C.W., Kim, T.K., Greer, P.L., Lin, Y., Paradis, S., Griffith, E.C., Hu, L.S., Chen, C. and Greenberg, M.E. Activity-dependent regulation of MEF2 transcription factors suppresses excitatory synapse number. Science 311, 1008-1012 (2006).
8.    Zhou, Z., Hong, E.J., Cohen, S., Zhao, W.N., Ho, H.Y., Schmidt, L., Chen, W.G., Lin, Y., Saver, E., Griffith, E.C., Hu, L., Steen, J.A., Weitz, C.J. and Greenberg, M.E. Brain-specific phosphorylation of MeCP2 regulates activity-dependent BDNF transcription, dendritic growth and spine maturation. Neuron 52, 255-269 (2006).
9.    Paradis, S., Harrar, D.B., Lin, Y., Koon, A.K., Hauser, J.L., Griffith, E.C., Zhu, L., Brass, L.F., Chen, C. and Greenberg, M.E. An RNAi-based approach identifies molecules required for glutamatergic and GABAergic synapse development. Neuron 53, 217-232 (2007).
10.    Morrow E.M., Yoo S.Y., Flavell S.W., Kim T.K., Lin Y., Hill R.S., Mukaddes N.M., Balkhy S., Gascon G., Hashmi A., Al-Saad S., Ware J., Joseph R.M., Greenblatt R., Gleason D., Ertelt J.A., Apse K.A., Bodell A., Partlow J.N., Barry B., Yao H., Markianos K., Ferland R.J., Greenberg M.E., Walsh C.A. Identifying autism loci and genes by tracing recent shared ancestry. Science 321, 218-223 (2008).
11.    Lin, Y., Bloodgood, B.L., Hauser, J.L., Lapan, A.D., Koon, A.K., Kim, T.K., Hu, L.S., Malik, A.N. and Greenberg, M.E. Activity-dependent regulation of inhibitory synapse development by Npas4. Nature 455, 1198-1204 (2008).
12.    Chow B.Y., Han X., Dobry A.S., Qian X., Chuong A.S., Li M., Henninger M.A., Belfort G.M., Lin Y., Monahan P.E. & Boyden, E.S. High-performance genetically targetable optical neural silencing by light-driven proton pumps. Nature 463, 98-102 (2010).
13.    Ramamoorthi, K. & Lin, Y. The contribution of GABAergic dysfunction to neurodevelopmental disorders. Trends in Molecular Medicine 17, 452-62 (2011).
14.    Ramamoorthi, K., French R.A., Belfort G.M., Fitzmaurice H.L., McKinney R.M., Neve, R.L., Otto, T. & Lin, Y. Npas4 Regulates a Transcriptional Program in CA3 Required for Contextual Memory Formation. Science 334, 1669-75 (2011).
15.    Ross, S.E., McCord, A.E., Jung, C., Atan, D., Mok, S.I., Hemberg, M., Kim, T.K., Salogiannis, J., Hu, L., Cohen, S., Lin, Y., Harrar, D., McInnes, R.R., Greenberg, M.E. Bhlhb5 and Prdm8 Form a Repressor Complex Involved in Neuronal Circuit Assembly. Neuron 73, 292-303 (2012).
16.    Leong, W.K., Klaric, T.S., Lin, Y., Lewis, M.D., Koblar, S.A. Upregulation of the neuronal Per-Arnt-Sim domain protein 4 (Npas4) in the rat corticolimbic system following focal cerebral ischemia. Eur. J. Neurosci. 37, 1875-84. (2013) 
17.    Sim, S., Antolin, S., Lin, C.W., Lin, Y., and Lois C. Increased cell-intrinsic excitability induces synaptic changes in new neurons in the adult dentate gyrus that require Npas4. J. Neurosci. 33, 7928-40 (2013).
18.    Chuong, A.S., Miri, M.L., Busskamp, V., Matthews, G.A.C, Acker, L.C., Sørensen, A.T., Young, A.N., Klapoetke, N.C., Henninger, M.A., Kodandaramaiah, S.B., Ogawa, M., Ramanlal, S.B., Forest, C.R., Chow, B.Y., Han, X., Lin, Y., Tye, K.M., Roska, B., Cardin, J.A., Boyden, E.S. Non-invasive optogenetic neural silencing. Nat. Neurosci. 17, 1123-9 (2014).
19.    Van Dort C.J., Zachs D.P.,.Kenny J.D., Zheng S., Goldblum R.R., Gelwan N.A., Ramos D.M., Nolan M.A., Wang K., Weng F.J., Lin, Y., Wilson M.A., Brown E.N. Optogenetic activation of cholinergic neurons in the PPT or LDT induces REM sleep. Proc. Natl. Acad. Sci. U. S. A. 112, 584-9 (2014).
20.    Sun, X.C. & Lin, Y. Npas4: Linking neuronal activity to neural circuit plasticity. Trends in Neurosciences 39, 64-75 (2016).
21.    Sørensen, A.T., Cooper, Y.A., Weng, F.J., Young, A., Ramamoorthi, K., LaVerriere, E., Baratta, M., Hemberg, M., Maier, S.F., and Lin, Y. A robust activity marking system for exploring active neuronal ensembles. eLife 5, e13918 (2016).
22.    Crittenden, J.R., Lacey, C.J., Weng, F.J., Garrison, C.E., Gibson, D.J., Lin, Y., and Graybiel, A.M. Striatal Cholinergic Interneurons Modulate Spike-Timing in Striosomes and Matrix by an Amphetamine-Sensitive Mechanism. Front. Neuroanat. 11, 20 (2017).
23.    Taniguchi, M., Carreira, M.B., Cooper, Y.A., Bobadilla, A., Heinsbroek, J.A., Koike, N., Larson, E.B., Balmuth, E.A., Hughes, B., Penrod, R.D., Kumar, J., Smith, L.N., Guzman, D., Takahashi, J.S., Kim, T.K., Self, D.W., Kalivas, P.W., Lin, Y., Cowan, C.W. HDAC5 and NPAS4 regulate cocaine addiction-relevant behaviors. Neuron 96, 130-144 (2017).
24.    Chen G., Zhang Y., Li X., Zhao X., Ye Q., Lin Y., Tao H.W., Rasch M.J. & Zhang X. Distinct Inhibitory Circuits Orchestrate Cortical beta and gamma Band Oscillations. Neuron 96, 1403-1418 (2017).
25.    Weng, F.J., Garcia, R.I., Lutzu, S., Alviña, K., Zhang, Y., Dushko, M., Ku, T., Zemoura, K., David, D., Garcia-Dominquez, D., Hung, M., Yelhekar, T.D., Sørensen, A.T., Xu, W., Chung, K., Castillo, P. & Lin, Y. Npas4 is a Critical Regulator of Learning-induced Plasticity at Mossy Fiber-CA3 Synapses During Contextual Memory Formation. Neuron 97, 1137-1152 (2018).
26.    Dolzani S., Baratta M.V., Moss J., Leslie N., Tilden S., Sørensen, A.T., Watkins L., Lin Y. & Maier S.F. Inhibition of a descending prefrontal circuit prevents ketamine-induced stress resilience in females. eNeuro, 0025-18 (2018).
27.    Sun, X., Bernstein, M.J., Meng, M., Rao, S., Sørensen, A.T., Yao, L., Zhang, X., Anikeeva, P.O. & Lin, Y. Functionally Distinct Neuronal Ensembles Within the Memory Engram. Cell 181, 410-423 (2020).
28.    Ren, L.Y., Cicvaric, A., Zhang, H., Meyer, M.A.A., Guedea, A.L., Gao, P., Petrovic, Z., Sun, X., Lin, Y. & Radulovic, J. Stress-induced changes of the cholinergic circuitry promote retrieval-based generalization of aversive memories. Mol Psychiatry (2022) https://doi.org/10.1038/s41380-022-01610-x.
29.    Yang, J., Serrano, P., Yin, X., Sun, X., Lin, Y. & Chen, S.X. Functionally Distinct NPAS4-Expressing Somatostatin Interneuron Ensembles Critical for Motor Skill Learning. Neuron 110, 3339-3355 (2022).
30.    Xue, J., Brawner, A.T., Thompson, J.R., Yelhekar, T.D., Newmaster, K.T., Qiu, Q., Cooper, Y.A., Yu, C.R., Ahmed-Braima, Y.H., Kim, Y. & Lin, Y. Spatiotemporal Mapping and Molecular Basis of Whole-brain Circuit Maturation. bioRxiv. doi: 10.1101/2024.01.03.572456 (2024).
31.    Thompson, J.R. & Lin, Y. Nature and nurture converge in the nucleus to regulate activity-dependent neuronal development. Book chapter for Transcriptional Regulation by Neuronal Activity; To the nucleus and back; 2nd edition. Springer-Nature.
32.    Yelhekar, T.D., Meng, M., Doupe, J., & Lin, Y. All IEGs are not created equal – Molecular sorting within the memory engram. Book chapter for Engram: A Window Into the Memory Trace. Springer-Nature.