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2025
Kawashima T, Wei Z, Haruvi R, Shainer I, Narayan S, Baier H, Ahrens MB.  2025.  Voltage imaging reveals circuit computations in the raphe underlying serotonin-mediated motor vigor learning. Neuron.
Chandler T, Guo M, Su Y, Chen J, Wu Y, Liu J, Agashe A, Fischer RS, Mehta SB, Kumar A et al..  2025.  Volumetric imaging of the 3D orientation of cellular structures with a polarized fluorescence light-sheet microscope.. Proc Natl Acad Sci . 122(8):e2406679122.
Vaxenburg R, Siwanowicz I, Merel J, Robie AA, Morrow C, Novati G, Stefanidi Z, Card GM, Reiser MB, Botvinick MM et al..  2025.  Whole-body simulation of realistic fruit fly locomotion with deep reinforcement learning. Nature. 643(8074)
Chen W, James B, Ruetten VMS, Banala S, Wei Z, Fleishman G, Rubinov M, Fishman MC, Engert F, Lavis LD et al..  2025.  Whole-brain, all-optical interrogation of neuronal dynamics underlying gut interoception in zebrafish. bioRxiv.
Lilao-Garzón J, Corujo-Simon E, Vinyoles M, Fischer SC, Guillén J, Balayo T, Muñoz-Descalzo S.  2025.  Wnt/β-catenin signalling assists cell fate decision making in the early mouse embryo. bioRxiv.
2026
Finkelstein A, Daie K, Rozsa M, Darshan R, Svoboda K.  2026.  Connectivity underlying motor cortex activity during goal-directed behaviour.. Nature. 649(8096):416-422.
Lee BHun, Park P, Wu X, J. Wong-Campos D, Xu J, Xiong M, Qi Y, Huang Y-C, Itkis DG, Plutkis SE et al..  2026.  Fast dendritic excitations primarily mediate back-propagation in CA1 pyramidal neurons during behavior. bioRxiv.
O’Connell S, Michaels JA, Wang R, Mamidipaka S, Venkatesh M, Aresh N, Pachitariu M, J. Pruszynski A, Sober SJ, Pandarinath C.  2026.  High performance sorting of motor unit action potentials with EMUsort. bioRxiv.
Fleishman GM, P. Fletcher T.  2026.  LDDMEm: Large Deformation Diffeomorphic Metric Embedding. Medical Image Computing and Computer Assisted Intervention – MICCAI 2025.
Chakraborty S, Krasley AT, Smith CH, Beyene AG, Vuković L.  2026.  Machine Learning Prediction of Analyte-Induced Fluorescence Perturbations in DNA-Functionalized Carbon Nanotubes. Nano Letters.
Aronson MS, Zhou BY, Fitzgerald JE, Sgro AE.  2026.  Memory from variability: Heritable short-term cellular memory emerges from stochastic biochemical reaction networks. bioRxiv.
Choi H, Halanych C, Kasberg W, Testa MD, Rubin-Elgressy S, Nguyen P, Walpita D, Tsang A, Cortes D, Song EYue et al..  2026.  mRNAbow: A versatile gene expression system for multiplexed fluorescent imaging using optimized in vitro transcribed mRNA. bioRxiv.
Choi H, Liao Y-C, Yoon YJ, Grimm J, Wang N, Lavis LD, Singer RH, Lippincott-Schwartz J.  2026.  Secretome translation shaped by lysosomes and lunapark-marked ER junctions.. Nature. (649):227–236.
Muralidharan S, Leng C, Orts L, Trepka E, Zhu S, Panichello M, Jonikaitis D, Pennington J, Pachitariu M, Moore T.  2026.  A System for Live Sorting of Neuronal Spiking Activity from Large-scale Recordings. bioRxiv.
In Press
Gonen T, Waksman G..  In Press.  Recent progress in membrane protein structures and investigation methods.. Current Opinion in Structural Biology. 22(4):467-8.
Submitted
Baker BS.  Submitted.  Functional organization of the neural circuitry for male courtship behavior in Drosophila..