Waitt Advanced Biophotonics Center

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) Natur. 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) Natur. 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) Schaltfläche Rechts. 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) Wissenschaft. 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

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) Natur. 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) Verhandlungen der Nationalen Akademie der Wissenschaften der Vereinigten Staaten von Amerika. 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

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) Molekulare Psychiatrie. 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) Zelle. 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

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

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

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) Molekulare Psychiatrie. 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 Vergleichende Neurologie. 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