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Conference Paper
Im DJiwoong, Taylor GW.  2016.  Learning a metric for class-conditional KNN.. International Joint Conference on Neural Networks, IJCNN 2016.
Mi L, Wang H, Meirovitch Y, Schalek R, Turaga SC, Lichtman JW, Samuel ADT, Shavit N.  2020.  Learning Guided Electron Microscopy with Active Acquisition. Medical Image Computing and Computer Assisted Intervention – MICCAI 2020.
Verma N, Mahajan D, Sellamanickam S, Nair V.  2012.  Learning hierarchical similarity metrics.. IEEE Conference on Computer Vision and Pattern Recognition.
Pachitariu M, Sahani M.  2012.  Learning visual motion in recurrent neural networks.. Neural Information Processing Systems (NIPS 2012).
Conference Proceedings
Ahrens MB, Huys QJM, Paninski L.  2006.  Large-scale biophysical parameter estimation in single neurons via constrained linear regression.. Neural Information Processing Systems. 18
Eyjolfsdottir E, Burgos-Artizzu XP, Branson S, Branson K, Anderson D, Perona P.  2012.  Learning animal social behavior from trajectory features.. Workshop on Visual Observation and Analysis of Animal and Insect Behavior.
Jain V, Turaga SC, Briggman K, Helmstaedter MN, Denk W, Seung H.S.  2011.  Learning to Agglomerate Superpixel Hierarchies. Advances in Neural Information Processing Systems 24 (NIPS 2011). 24
Journal Article
Samolis PD, Langley D, O'Reilly BM, Oo Z, Hilzenrat G, Erramilli S, Sgro AE, McArthur S, Sander MY.  2021.  Label-free imaging of fibroblast membrane interfaces and protein signatures with vibrational infrared photothermal and phase signals.. Biomed Opt Express. 12(1):303-319.
Liu B, Lee HJeong, Zhang D, Liao C-S, Ji N, Xia Y, Cheng J-X.  2015.  Label-free spectroscopic detection of membrane potential using stimulated Raman scattering.. Applied Physics Letters. 106:173704.
Mohr MAlexander, Argast P, Pantazis P.  2016.  Labeling cellular structures in vivo using confined primed conversion of photoconvertible fluorescent proteins.. Nature Protocols. 11(12):2419-2431.
Fosque BF, Sun Y, Dana H, Yang C-T, Ohyama T, Tadross MR, Patel R, Zlatic M, Kim DS, Ahrens MB et al..  2015.  Labeling of active neural circuits in vivo with designed calcium integrators.. Science. 347(6223):755-60.
Nasu Y, Aggarwal A, Le GNT, Vo CTrang, Kambe Y, Wang X, Beinlich FRM, Lee ABomin, Ram TR, Wang F et al..  2023.  Lactate biosensors for spectrally and spatially multiplexed fluorescence imaging.. Nature Communications. 14(1):6598.
Swinburne IA, Mosaliganti KR, Upadhyayula S, Liu T-L, Hildebrand DGC, Tsai TY-C, Chen A, Al-Obeidi E, Fass AK, Malhotra S et al..  2018.  Lamellar junctions in the endolymphatic sac act as a relief valve to regulate inner ear pressure.. eLife.
Swinburne IA, Mosaliganti KR, Upadhyayula S, Liu T-L, Hildebrand DGC, Tsai TY-C, Chen A, Al-Obeidi E, Fass AK, Malhotra S et al..  2018.  Lamellar projections in the endolymphatic sac act as a relief valve to regulate inner ear pressure.. eLife. 7
Hooks BM, S Hires A, Zhang Y-X, Huber D, Petreanu L, Svoboda K, Shepherd GMG.  2011.  Laminar analysis of excitatory local circuits in vibrissal motor and sensory cortical areas.. PLoS Biology. 9(1):e1000572.
P Rich D, Liaw H-P, Lee AK.  2014.  Large environments reveal the statistical structure governing hippocampal representations.. Science. 345(6198):814-7.
Sofroniew NJames, Flickinger D, King J, Svoboda K.  2016.  A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging.. eLife. 5:e14472.
Micheva KD, Wolman D, Mensh BD, Pax E, Buchanan JA, Smith SJ, Bock DD.  2016.  A large fraction of neocortical myelin ensheathes axons of local inhibitory neurons.. eLife.
Li B, Bickel RD, Parker BJ, Ziabari OSaleh, Liu F, Vellichirammal NNanoth, Simon J-C, Stern DL, Brisson JA.  2020.  A large genomic insertion containing a duplicated follistatin gene is linked to the pea aphid male wing dimorphism.. eLife. 9
Funke J, Tschopp FD, Grisaitis W, Sheridan A, Singh C, Saalfeld S, Turaga SC.  2019.  Large scale image segmentation with structured loss based deep learning for connectome reconstruction.. IEEE Transactions on Pattern Analysis and Machine Intelligence. 41(7):1669-80.
Filippova EV, Weston LA, Kuhn ML, Geissler B, Gehring AM, Armoush N, Adkins CT, Minasov G, Dubrovska I, Shuvalova L et al..  2013.  Large scale structural rearrangement of a serine hydrolase from Francisella tularensis facilitates catalysis.. J Biol Chem. 288(15):10522-35.
Kleinfeld D, Bharioke A, Blinder P, Bock DD, Briggman KL, Chklovskii DB, Denk W, Helmstaedter M, Kaufhold JP, Lee W-CAllen et al..  2011.  Large-scale automated histology in the pursuit of connectomes.. The Journal of Neuroscience: The Official Journal of the Society for Neuroscience. 31(45):16125-38.
Trautmann EM, Hesse JK, Stine GM, Xia R, Zhu S, O’Shea DJ, Karsh B, Colonell J, Lanfranchi FF, Vyas S et al..  2023.  Large-scale brain-wide neural recording in nonhuman primates. bioRxiv.
Plaza SM, Berg SE.  2016.  Large-scale electron microscopy image segmentation in spark.. arXiv. :arXiv:1604.00385.
Sabater-Muñoz B, Legeai F, Rispe C, Bonhomme J, Dearden P, Dossat C, Duclert A, Gauthier J-P, Ducray DGiblot, Hunter W et al..  2006.  Large-scale gene discovery in the pea aphid Acyrthosiphon pisum (Hemiptera).. Genome Biol. 7(3):R21.