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Author Title [ Type(Asc)] Year
Journal Article
Leonardo A.  2005.  Degenerate coding in neural systems.. Journal of Comparative Physiology. A, Neuroethology, Sensory, Neural, and Behavioral Physiology. 191(11):995-1010.
Li J, Zhang W, Guo Z, Wu S, Jan LYeh, Jan Y-N.  2016.  A Defensive Kicking Behavior in Response to Mechanical Stimuli Mediated by Drosophila Wing Margin Bristles.. J Neurosci. 36(44):11275-11282.
Allison R, Edgar JR, Pearson G, Rizo T, Newton T, Günther S, Berner F, Hague J, Connell JW, Winkler J et al..  2017.  Defects in ER-endosome contacts impact lysosome function in hereditary spastic paraplegia.. The Journal of Cell Biology. 216(5):1337-55.
Kunduri G, Turner-Evans D, Konya Y, Izumi Y, Nagashima K, Lockett S, Holthuis J, Bamba T, Acharya U, Acharya JK.  2018.  Defective cortex glia plasma membrane structure underlies light-induced epilepsy in mutants.. Proceedings of the National Academy of Sciences of the United States of America. 115(38):E8919-28.
Gandin V, Kim J, Yang L-Z, Lian Y, Kawase T, Hu A, Rokicki K, Fleishman G, Tillberg P, Castrejon AAguilera et al..  2025.  Deep-tissue transcriptomics and subcellular imaging at high spatial resolution. Science.
Schneider MC, Johnson C, Allier C, Heinrich L, Adjavon D, Husic J, La Riviere P, Saalfeld S, Shroff H.  2025.  DeepPD: Joint Phase and Object Estimation from Phase Diversity with Neural Calibration of a Deformable Mirror. arXiv.
Guo M, Wu Y, Hobson CM, Su Y, Qian S, Krueger E, Christensen R, Kroeschell G, Bui J, Chaw M et al..  2025.  Deep learning-based aberration compensation improves contrast and resolution in fluorescence microscopyAbstract. Nature Communications. 16(1)
Heinrich L, Bogovic JA, Saalfeld S.  2017.  Deep learning for isotropic super-resolution from non-isotropic 3D electron microscopy.. International Conference on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2017. MICCAI 2017. Lecture Notes in Computer Science. 10434:arXiv:1706.03142.
Speiser A, Müller L-R, Matti U, Obara CJ, Legant WR, Kreshuk A, Macke JH, Ries J, Turaga SC.  2021.  Deep learning enables fast and dense single-molecule localization with high accuracy. Nature Methods. 18(9)
Branson K.  2018.  A deep (learning) dive into a cell.. Nature Methods. 15(4):253-4.
Humberg T-H, Bruegger P, Afonso B, Zlatic M, Truman JW, Gershow M, Samuel A, Sprecher SG.  2018.  Dedicated photoreceptor pathways in Drosophila larvae mediate navigation by processing either spatial or temporal cues.. Nature Communications. 9(1):1260.
Leonardo A, Konishi M.  1999.  Decrystallization of adult birdsong by perturbation of auditory feedback.. Nature. 399(6735):466-70.
Ellis EE, Adkins CT, Galovska NM, Lavis LD, R Johnson J.  2013.  Decoupled roles for the atypical, bifurcated binding pocket of the ybfF hydrolase.. Chembiochem : A European Journal of Chemical Biology. 14(9):1134-44.
Atasoy D, J Betley N, Su HH, Sternson SM.  2012.  Deconstruction of a neural circuit for hunger.. Nature. 488(7410):172-7.
Shields BC, Kahuno E, Kim C, Apostolides PF, Brown J, Lindo S, Mensh BD, Dudman JT, Lavis LD, Tadross MR.  2017.  Deconstructing behavioral neuropharmacology with cellular specificity.. Science (New York, N.Y.). 356(6333)
Allier C, Schneider MC, Innerberger M, Heinrich L, Bogovic JA, Saalfeld S.  2024.  Decomposing heterogeneous dynamical systems with graph neural networks. arXiv.
Henriques R, Leterrier C, Weigel A.  2023.  Decoding life's inner workings: advances in quantitative bioimaging.. Open Biology. 13(11):230329.
Avidor-Reiss T, Maer AM, Koundakjian E, Polyanovsky A, Keil T, Subramaniam S, Zuker CS.  2004.  Decoding cilia function: defining specialized genes required for compartmentalized cilia biogenesis.. Cell. 117(4):527-39.
Huang R, Xu Y, Wan W, Shou X, Qian J, You Z, Liu B, Chang C, Zhou T, Lippincott-Schwartz J et al..  2015.  Deacetylation of nuclear LC3 drives autophagy initiation under starvation.. Molecular cell. 57(3):456-66.
Chen Z, Shiozaki M, Haas KM, Zhao S, Guo C, Polacco BJ, Yu Z, Krogan NJ, Kaake RM, Vale RD et al..  2023.  De novo protein identification in mammalian sperm using high-resolution in situ cryo-electron tomography. Cell. 186(23):5041-5053.e19.
Willy NM, Ferguson JP, Akatay A, Huber S, Djakbarova U, Silahli S, Cakez C, Hasan F, Chang HC, Travesset A et al..  2021.  De novo endocytic clathrin coats develop curvature at early stages of their formation.. Development Cell. 56(22):3146-3159.e5.
Chen Y, Yserentant K, Hong K, Kuang Y, Bhowmick A, Charles-Orszag A, Lord SJ, Lu L, Hou K, Mann SI et al..  2025.  De novo designed bright, hyperstable rhodamine binders for fluorescence microscopy. bioRxiv.
Boyken SE, Benhaim MA, Busch F, Jia M, Back MJ, Choi H, Klima JC, Chen Z, Walkey C, Mileant A et al..  2019.  De novo design of tunable, pH-driven conformational changes.. Science. 364(6441):658-64.
Zocchi D, Nguyen M, Marquez-Legorreta E, Siwanowicz I, Singh C, Prober DA, Hillman EMC, Ahrens MB.  2025.  Days-old zebrafish rapidly learn to recognize threatening agents through noradrenergic and forebrain circuits.. Curr Biol. 35(1):163-176.e4.
Zocchi D, Nguyen M, Marquez-Legorreta E, Siwanowicz I, Singh C, Prober DA, Hillman EMC, Ahrens MB.  2024.  Days-old zebrafish rapidly learn to recognize threatening agents through noradrenergic and forebrain circuits.. Curr Biol.