2023 PUBLICATIONS
Kaneshiro, J.M., Capitanio, J.S., Hetzer, M.W. Lamin B1 overexpression alters chromatin organization and gene expression. (2023) Nucleus. 14(1):2202548. DOI: 10.1080/19491034.2023.2202548
Zhou, J., Zhang, Z., Wu, M., Liu, H., Pang, Y., Bartlett, A., Peng, Z., Ding, W., Rivkin, A., Lagos, W.N., Williams, E., Lee, C.T., Miyazaki, P.A., Aldridge, A., Zeng, Q., Salinda, J.L.A., Claffey, N., Liem, M., Fitzpatrick, C., Boggeman, L., Yao, Z., Smith, K.A., Tasic, B., Altshul, J., Kenworthy, M.A., Valadon, C., Nery, J.R., Castanon, R.G., Patne, N.S., Vu, M., Rashid, M., Jacobs, M., Ito, T., Osteen, J., Emerson, N., Lee, J., Cho, S., Rink, J., Huang, H.H., Pinto-Duartec, A., Dominguez, B., Smith, J.B., O'Connor, C., Zeng, H., Chen, S., Lee, K.F., Mukamel, E.A., Jin, X., Margarita Behrens, M., Ecker, J.R., Callaway, E.M. Brain-wide correspondence of neuronal epigenomics and distant projections. (2023) Nature. 624(7991):355-365. DOI: 10.1038/s41586-023-06823-w
Zemke, N.R., Armand, E.J., Wang, W., Lee, S., Zhou, J., Li, Y.E., Liu, H., Tian, W., Nery, J.R., Castanon, R.G., Bartlett, A., Osteen, J.K., Li, D., Zhuo, X., Xu, V., Chang, L., Dong, K., Indralingam, H.S., Rink, J.A., Xie, Y., Miller, M., Krienen, F.M., Zhang, Q., Taskin, N., Ting, J., Feng, G., McCarroll, S.A., Callaway, E.M., Wang, T., Lein, E.S., Behrens, M.M., Ecker, J.R., Ren, B. Conserved and divergent gene regulatory programs of the mammalian neocortex. (2023) Nature. 624(7991):390-402. DOI: 10.1038/s41586-023-06819-6
Patiño, M., Lagos, W.N., Patne, N.S., Miyazaki, P.A., Bhamidipati, S.K., Collman, F., Callaway, E.M. Postsynaptic cell type and synaptic distance do not determine efficiency of monosynaptic rabies virus spread measured at synaptic resolution. (2023) Elife. 12. DOI: 10.7554/eLife.89297
Chung, B., Zia, M., Thomas, K.A., Michaels, J.A., Jacob, A., Pack, A., Williams, M.J., Nagapudi, K., Teng, L.H., Arrambide, E., Ouellette, L., Oey, N., Gibbs, R., Anschutz, P., Lu, J., Wu, Y., Kashefi, M., Oya, T., Kersten, R., Mosberger, A.C., O'Connell, S., Wang, R., Marques, H., Mendes, A.R., Lenschow, C., Kondakath, G., Kim, J.J., Olson, W., Quinn, K.N., Perkins, P., Gatto, G., Thanawalla, A., Coltman, S., Kim, T., Smith, T., Binder-Markey, B., Zaback, M., Thompson, C.K., Giszter, S., Person, A., Goulding, M., Azim, E., Thakor, N., O'Connor, D., Trimmer, B., Lima, S.Q., Carey, M.R., Pandarinath, C., Costa, R.M., Pruszynski, J.A., Bakir, M., Sober, S.J. Myomatrix arrays for high-definition muscle recording. (2023) Elife. 12. DOI: 10.7554/eLife.88551
Lainscsek, C., Salami, P., Carvalho, V.R., Mendes, E.M.A.M., Fan, M., Cash, S.S., Sejnowski, T.J. Network-motif delay differential analysis of brain activity during seizures. (2023) Chaos. 33(12). DOI: 10.1063/5.0165904
Garrison, M.A., Jang, Y., Bae, T., Cherskov, A., Emery, S.B., Fasching, L., Jones, A., Moldovan, J.B., Molitor, C., Pochareddy, S., Peters, M.A., Shin, J.H., Wang, Y., Yang, X., Akbarian, S., Chess, A., Gage, F.H., Gleeson, J.G., Kidd, J.M., McConnell, M., Mills, R.E., Moran, J.V., Park, P.J., Sestan, N., Urban, A.E., Vaccarino, F.M., Walsh, C.A., Weinberger, D.R., Wheelan, S.J., Abyzov, A. Genomic data resources of the Brain Somatic Mosaicism Network for neuropsychiatric diseases. (2023) Sci Data. 10(1):813. DOI: 10.1038/s41597-023-02645-7
Tsuda, B., Richmond, B.J., Sejnowski, T.J. Exploring strategy differences between humans and monkeys with recurrent neural networks. (2023) PLOS Computational Biology. 19(11):e1011618. DOI: 10.1371/journal.pcbi.1011618
Manole, A., Wong, T., Rhee, A., Novak, S., Chin, S.M., Tsimring, K., Paucar, A., Williams, A., Newmeyer, T.F., Schafer, S.T., Rosh, I., Kaushik, S., Hoffman, R., Chen, S., Wang, G., Snyder, M., Cuervo, A.M., Andrade, L., Manor, U., Lee, K., Jones, J.R., Stern, S., Marchetto, M.C., Gage, F.H. NGLY1 mutations cause protein aggregation in human neurons. (2023) Cell Reports. 42(12):113466. DOI: 10.1016/j.celrep.2023.113466
Alvarez-Kuglen, M., Rodriguez, D., Qin, H., Ninomiya, K., Fiengo, L., Farhy, C., Hsu, W.M., Havas, A., Feng, G.S., Roberts, A.J., Anderson, R.M., Serrano, M., Adams, P.D., Sharpee, T.O., Terskikh, A.V. Imaging-based chromatin and epigenetic age, ImAge, quantitates aging and rejuvenation. (2023) Res Sq. DOI: 10.21203/rs.3.rs-3479973/v1
Jorstad, N.L., Close, J., Johansen, N., Yanny, A.M., Barkan, E.R., Travaglini, K.J., Bertagnolli, D., Campos, J., Casper, T., Crichton, K., Dee, N., Ding, S.L., Gelfand, E., Goldy, J., Hirschstein, D., Kiick, K., Kroll, M., Kunst, M., Lathia, K., Long, B., Martin, N., McMillen, D., Pham, T., Rimorin, C., Ruiz, A., Shapovalova, N., Shehata, S., Siletti, K., Somasundaram, S., Sulc, J., Tieu, M., Torkelson, A., Tung, H., Callaway, E.M., Hof, P.R., Keene, C.D., Levi, B.P., Linnarsson, S., Mitra, P.P., Smith, K., Hodge, R.D., Bakken, T.E., Lein, E.S. Transcriptomic cytoarchitecture reveals principles of human neocortex organization. (2023) Science. 382(6667):eadf6812. DOI: 10.1126/science.adf6812
Lainscsek, C., Mendes, E.M.A.M., Salgado, G.H.O., Sejnowski, T.J. Transformations that preserve the uniqueness of the differential form for Lorenz-like systems. (2023) Chaos. 33(10). DOI: 10.1063/5.0156237
Klug, J.R., Yan, X., Hoffman, H.A., Engelhardt, M.D., Osakada, F., Callaway, E.M., Jin, X. Asymmetric cortical projections to striatal direct and indirect pathways distinctly control actions. (2023) bioRxiv. DOI: 10.1101/2023.10.02.560589
Daboussi, L., Costaguta, G., Gullo, M., Jasinski, N., Pessino, V., O'Leary, B., Lettieri, K., Driscoll, S., Pfaff, S.L. Mitf is a Schwann cell sensor of axonal integrity that drives nerve repair. (2023) Cell Reports. 42(11):113282. DOI: 10.1016/j.celrep.2023.113282
Garcia, G.C., Gupta, K., Bartol, T.M., Sejnowski, T.J., Rangamani, P. Mitochondrial morphology governs ATP production rate. (2023) J Gen Physiol. 155(9). DOI: 10.1085/jgp.202213263
Cho, U.H., Hetzer, M.W. Caspase-mediated nuclear pore complex trimming in cell differentiation and endoplasmic reticulum stress. (2023) Elife. 12. DOI: 10.7554/eLife.89066
Globig, A.M., Zhao, S., Roginsky, J., Maltez, V.I., Guiza, J., Avina-Ochoa, N., Heeg, M., Araujo Hoffmann, F., Chaudhary, O., Wang, J., Senturk, G., Chen, D., O'Connor, C., Pfaff, S., Germain, R.N., Schalper, K.A., Emu, B., Kaech, S.M. The β-adrenergic receptor links sympathetic nerves to T cell exhaustion. (2023) Nature. DOI: 10.1038/s41586-023-06568-6
Li, J.S., Sarma, A.A., Sejnowski, T.J., Doyle, J.C. Internal feedback in the cortical perception-action loop enables fast and accurate behavior. (2023) Proceedings of the National Academy of Sciences of the United States of America. 120(39):e2300445120. DOI: 10.1073/pnas.2300445120
Wang, H., Dey, O., Lagos, W.N., Behnam, N., Callaway, E.M., Stafford, B.K. Parallel pathways carrying direction and orientation selective retinal signals to layer 4 of mouse visual cortex. (2023) bioRxiv. DOI: 10.1101/2023.09.18.558281
Chung, B., Zia, M., Thomas, K.A., Michaels, J.A., Jacob, A., Pack, A., Williams, M.J., Nagapudi, K., Teng, L.H., Arrambide, E., Ouellette, L., Oey, N., Gibbs, R., Anschutz, P., Lu, J., Wu, Y., Kashefi, M., Oya, T., Kersten, R., Mosberger, A.C., O'Connell, S., Wang, R., Marques, H., Mendes, A.R., Lenschow, C., Kondakath, G., Kim, J.J., Olson, W., Quinn, K.N., Perkins, P., Gatto, G., Thanawalla, A., Coltman, S., Kim, T., Smith, T., Binder-Markey, B., Zaback, M., Thompson, C.K., Giszter, S., Person, A., Goulding, M., Azim, E., Thakor, N., O'Connor, D., Trimmer, B., Lima, S.Q., Carey, M.R., Pandarinath, C., Costa, R.M., Pruszynski, J.A., Bakir, M., Sober, S.J. Myomatrix arrays for high-definition muscle recording. (2023) bioRxiv. DOI: 10.1101/2023.02.21.529200
Sharma, R., Hetzer, M.W. Disulfide bond in SUN2 regulates dynamic remodeling of LINC complexes at the nuclear envelope. (2023) Life Sci Alliance. 6(8). DOI: 10.26508/lsa.202302031
Okur, M.N., Sahbaz, B.D., Kimura, R., Manor, U., Patel, J., Park, J.H., Andrade, L., Puligilla, C., Croteau, D.L., Bohr, V.A. Long-term NAD+ supplementation prevents the progression of age-related hearing loss in mice. (2023) Aging Cell. DOI: 10.1111/acel.13909
Mizrahi, L., Choudhary, A., Ofer, P., Goldberg, G., Milanesi, E., Kelsoe, J.R., Gurwitz, D., Alda, M., Gage, F.H., Stern, S. Immunoglobulin genes expressed in lymphoblastoid cell lines discern and predict lithium response in bipolar disorder patients. (2023) Molecular Psychiatry. DOI: 10.1038/s41380-023-02183-z
Traxler, L., Lucciola, R., Herdy, J.R., Jones, J.R., Mertens, J., Gage, F.H. Neural cell state shifts and fate loss in ageing and age-related diseases. (2023) Nat Rev Neurol. DOI: 10.1038/s41582-023-00815-0
Schafer, S.T., Mansour, A.A., Schlachetzki, J.C.M., Pena, M., Ghassemzadeh, S., Mitchell, L., Mar, A., Quang, D., Stumpf, S., Ortiz, I.S., Lana, A.J., Baek, C., Zaghal, R., Glass, C.K., Nimmerjahn, A., Gage, F.H. An in vivo neuroimmune organoid model to study human microglia phenotypes. (2023) Cell. 186(10):2111-2126.e20. DOI: 10.1016/j.cell.2023.04.022
Arlotta, P., Gage, F.H. Neural Organoids and the Quest to Understand and Treat Psychiatric Disease. (2023) Biological Psychiatry. 93(7):588-589. DOI: 10.1016/j.biopsych.2023.01.021
Glavis-Bloom, C., Vanderlip, C., Weiser Novak, S., Kuwajima, M., Kirk, L., Harris, K.M., Manor, U., Reynolds, J.H. Violation of the ultrastructural size principle in the dorsolateral prefrontal cortex underlies working memory impairment in the aged common marmoset (Callithrix jacchus) (2023) Frontiers in Aging Neuroscience. 15. DOI: doi.org/10.3389/fnagi.2023.1146245
Zemke, N.R., Armand, E.J., Wang, W., Lee, S., Zhou, J., Li, Y.E., Liu, H., Tian, W., Nery, J.R., Castanon, R.G., Bartlett, A., Osteen, J.K., Li, D., Zhuo, X., Xu, V., Miller, M., Krienen, F.M., Zhang, Q., Taskin, N., Ting, J., Feng, G., McCarroll, S.A., Callaway, E.M., Wang, T., Behrens, M.M., Lein, E.S., Ecker, J.R., Ren, B. Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex. (2023) bioRxiv. DOI: 10.1101/2023.04.08.536119
Malik, N., Ferreira, B.I., Hollstein, P.E., Curtis, S.D., Trefts, E., Weiser Novak, S., Yu, J., Gilson, R., Hellberg, K., Fang, L., Sheridan, A., Hah, N., Shadel, G.S., Manor, U., Shaw, R.J. Induction of lysosomal and mitochondrial biogenesis by AMPK phosphorylation of FNIP1. (2023) Science. 380(6642):eabj5559. DOI: 10.1126/science.abj5559
Kobayashi, Y., Shigyo, M., Platoshyn, O., Marsala, S., Kato, T., Takamura, N., Yoshida, K., Kishino, A., Bravo-Hernandez, M., Juhas, S., Juhasova, J., Studenovska, H., Proks, V., Driscoll, S.P., Glenn, T.D., Pfaff, S.L., Ciacci, J.D., Marsala, M. Expandable Sendai-Virus-Reprogrammed Human iPSC-Neuronal Precursors: Post-Grafting Safety Characterization in Rats and Adult Pig. (2023) Cell Transplantation. 32:9636897221107009. DOI: 10.1177/09636897221107009
Pham, T.B., Boussaty, E.C., Currais, A., Maher, P., Schubert, D.R., Manor, U., Friedman, R.A. Attenuation of Age-Related Hearing Impairment in Senescence-Accelerated Mouse Prone 8 (SAMP8) Mice Treated with Fatty Acid Synthase Inhibitor CMS121. (2023) Journal of Molecular Neuroscience. DOI: 10.1007/s12031-023-02119-w
Mishra, H.K., Wei, H., Rohr, K.E., Ko, I., Nievergelt, C.M., Maihofer, A.X., Shilling, P.D., Alda, M., Berrettini, W.H., Brennand, K.J., Calabrese, J.R., Coryell, W.H., Frye, M., Gage, F., Gershon, E., McInnis, M.G., Nurnberger, J., Oedegaard, K.J., Zandi, P.P., Kelsoe, J.R., McCarthy, M.J. Contributions of circadian clock genes to cell survival in fibroblast models of lithium-responsive bipolar disorder. (2023) Eur Neuropsychopharmacol. 74:1-14. DOI: 10.1016/j.euroneuro.2023.04.009
Shekhtmeyster, P., Duarte, D., Carey, E.M., Ngo, A., Gao, G., Olmstead, J.A., Nelson, N.A., Nimmerjahn, A. Trans-segmental imaging in the spinal cord of behaving mice. (2023) Nature Biotechnology. DOI: 10.1038/s41587-023-01700-3
Kempermann, G., Song, H., Gage, F.H. Adult neurogenesis in the hippocampus. (2023) Hippocampus. DOI: 10.1002/hipo.23525
Shekhtmeyster, P., Carey, E.M., Duarte, D., Ngo, A., Gao, G., Nelson, N.A., Clark, C.L., Nimmerjahn, A. Multiplex translaminar imaging in the spinal cord of behaving mice. (2023) Nature Communications. 14(1):1427. DOI: 10.1038/s41467-023-36959-2
Zador, A., Escola, S., Richards, B., Ölveczky, B., Bengio, Y., Boahen, K., Botvinick, M., Chklovskii, D., Churchland, A., Clopath, C., DiCarlo, J., Ganguli, S., Hawkins, J., Körding, K., Koulakov, A., LeCun, Y., Lillicrap, T., Marblestone, A., Olshausen, B., Pouget, A., Savin, C., Sejnowski, T., Simoncelli, E., Solla, S., Sussillo, D., Tolias, A.S., Tsao, D. Catalyzing next-generation Artificial Intelligence through NeuroAI. (2023) Nature Communications. 14(1):1597. DOI: 10.1038/s41467-023-37180-x
Niemsiri, V., Rosenthal, S.B., Nievergelt, C.M., Maihofer, A.X., Marchetto, M.C., Santos, R., Shekhtman, T., Alliey-Rodriguez, N., Anand, A., Balaraman, Y., Berrettini, W.H., Bertram, H., Burdick, K.E., Calabrese, J.R., Calkin, C.V., Conroy, C., Coryell, W.H., DeModena, A., Eyler, L.T., Feeder, S., Fisher, C., Frazier, N., Frye, M.A., Gao, K., Garnham, J., Gershon, E.S., Goes, F.S., Goto, T., Harrington, G.J., Jakobsen, P., Kamali, M., Kelly, M., Leckband, S.G., Lohoff, F.W., McCarthy, M.J., McInnis, M.G., Craig, D., Millett, C.E., Mondimore, F., Morken, G., Nurnberger, J.I., Donovan, C.O., Øedegaard, K.J., Ryan, K., Schinagle, M., Shilling, P.D., Slaney, C., Stapp, E.K., Stautland, A., Tarwater, B., Zandi, P.P., Alda, M., Fisch, K.M., Gage, F.H., Kelsoe, J.R. Focal adhesion is associated with lithium response in bipolar disorder: evidence from a network-based multi-omics analysis. (2023) Molecular Psychiatry. DOI: 10.1038/s41380-022-01909-9
Little, J.C., Kaaronen, R.O., Hukkinen, J.I., Xiao, S., Sharpee, T., Farid, A.M., Nilchiani, R., Barton, C.M. Earth Systems to Anthropocene Systems: An Evolutionary, System-of-Systems, Convergence Paradigm for Interdependent Societal Challenges. (2023) Environ Sci Technol. DOI: 10.1021/acs.est.2c06203
Ren, X., Liu, S., Virlogeux, A., Kang, S.J., Brusch, J., Liu, Y., Dymecki, S.M., Han, S., Goulding, M., Acton, D. Identification of an essential spinoparabrachial pathway for mechanical itch. (2023) Neuron. DOI: 10.1016/j.neuron.2023.03.013
Hayashi, M., Gullo, M., Senturk, G., Di Costanzo, S., Nagasaki, S.C., Kageyama, R., Imayoshi, I., Goulding, M., Pfaff, S.L., Gatto, G. A spinal synergy of excitatory and inhibitory neurons coordinates ipsilateral body movements. (2023) bioRxiv. DOI: 10.1101/2023.03.21.533603
Sejnowski, T.J. Large Language Models and the Reverse Turing Test. (2023) Neural Computation.:1-34 DOI: 10.1162/neco_a_01563
Parylak, S.L., Qiu, F., Linker, S.B., Gallina, I.S., Lim, C.K., Preciado, D., McDonald, A.H., Zhou, X., Gage, F.H. Neuronal activity-related transcription is blunted in immature compared to mature dentate granule cells. (2023) Hippocampus. DOI: 10.1002/hipo.23515
Yang, J.Y., O'Connell, T.F., Hsu, W.M., Bauer, M.S., Dylla, K.V., Sharpee, T.O., Hong, E.J. Restructuring of olfactory representations in the fly brain around odor relationships in natural sources. (2023) bioRxiv. DOI: 10.1101/2023.02.15.528627
Bermperidis, T., Schafer, S., Gage, F.H., Sejnowski, T., Torres, E.B. Dynamic Interrogation of Stochastic Transcriptome Trajectories Using Disease Associated Genes Reveals Distinct Origins of Neurological and Psychiatric Disorders. (2023) Frontiers in Neuroscience. 16:884707. DOI: 10.3389/fnins.2022.884707
Fischer, K.B., Collins, H.K., Pang, Y., Roy, D.S., Zhang, Y., Feng, G., Li, S.J., Kepecs, A., Callaway, E.M. Monosynaptic restriction of the anterograde herpes simplex virus strain H129 for neural circuit tracing. (2023) Journal of Comparative Neurology. DOI: 10.1002/cne.25451
Perez-Garcia, G., Bicak, M., Haure-Mirande, J.V., Perez, G.M., Otero-Pagan, A., Gama Sosa, M.A., De Gasperi, R., Sano, M., Barlow, C., Gage, F.H., Readhead, B., Ehrlich, M.E., Gandy, S., Elder, G.A. BCI-838, an orally active mGluR2/3 receptor antagonist pro-drug, rescues learning behavior deficits in the PS19 MAPT mouse model of tauopathy. (2023) Neurosci Lett.:137080 DOI: 10.1016/j.neulet.2023.137080
Wang, M., Gage, F.H., Schafer, S.T. Transplantation Strategies to Enhance Maturity and Cellular Complexity in Brain Organoids. (2023) Biological Psychiatry. DOI: 10.1016/j.biopsych.2023.01.004
