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2025
Koshenov Z, Kokotos AC, Benedetti L, Schwartz JLippincott, Ryan TA.  2025.  A genetic driver of epileptic encephalopathy impairs gating of synaptic glycolysis. bioRxiv.
Aggarwal A, Negrean A, Chen Y, Iyer R, Reep D, Liu A, Palutla A, Xie ME, MacLennan BJ, Hagihara KM et al..  2025.  Glutamate indicators with increased sensitivity and tailored deactivation rates. bioRxiv.
Podgorski K, Aggarwal A, Negrean A, Chen Y, Iyer R, Reep D, Liu A, Palutla A, Xie M, Maclennan B et al..  2025.  Glutamate indicators with increased sensitivity and tailored deactivation rates. Research Square.
2024
Glendening AM, Stephens C, Vuruputoor VS, Stern DL, Hogenhout SA, Mathers TC, Chaganti T, Pauloski N, Cernak TA, Wegrzyn JL et al..  2024.  Genomes of two invasive Adelges species (hemlock woolly adelgid and pineapple gall adelgid) enable characterization of nicotinic acetylcholine receptors. bioRxiv.
Zhu RE, Diao X, Liu X, Ru Q, Wu Z, Zhang Z, Looger LL, Zhu J.  2024.  GESIAP3.0: Sensor-based Image Analysis Program for Transmission Visualization In Vivo. bioRxiv.
Grima LL, Guo Y, Narayan L, Hermundstad AM, Dudman JT.  2024.  A global dopaminergic learning rate enables adaptive foraging across many options. bioRxiv.
Troidl J, Knittel J, Li W, Zhan F, Pfister H, Turaga S.  2024.  Global Neuron Shape Reasoning with Point Affinity Transformers. bioRxiv.
2023
Aggarwal A, Liu R, Chen Y, Ralowicz AJ, Bergerson SJ, Tomaska F, Mohar B, Hanson TL, Hasseman JP, Reep D et al..  2023.  Glutamate indicators with improved activation kinetics and localization for imaging synaptic transmission.. Nature Methods. 20(6)
2022
Stern DL, Han C.  2022.  Gene structure-based homology search identifies highly divergent putative effector gene family.. Genome Biology and Evolution.
Biswas T, Fitzgerald JE.  2022.  A geometric framework to predict structure from function in neural networks. Physical Review Research. 4(2):023255.
2021
Grimm JB, Xie L, Casler JC, Patel R, Tkachuk AN, Falco N, Choi H, Lippincott-Schwartz J, Brown TA, Glick BS et al..  2021.  A general method to improve fluorophores using deuterated auxochromes.. JACS Au. 1(5):690-6.
Eddison M.  2021.  A genetic screen for Drosophila social isolation mutants and analysis of sex pistol.. Scientific Reports. 11(1):17395.
Deng H, Xiao X, Yang T, Ritola K, Hantman A, Li Y, Z Huang J, Li B.  2021.  A genetically defined insula-brainstem circuit selectively controls motivational vigor.. Cell.
Nasu Y, Murphy-Royal C, Wen Y, Haidey JN, Molina RS, Aggarwal A, Zhang S, Kamijo Y, Paquet M-E, Podgorski K et al..  2021.  A genetically encoded fluorescent biosensor for extracellular L-lactate.. Nature Communications. 12(1):7058.
Zhang X, Guan W, Yang T, Furlan A, Xiao X, Yu K, An X, Galbavy W, Ramakrishnan C, Deisseroth K et al..  2021.  Genetically identified amygdala-striatal circuits for valence-specific behaviors.. Nature Neuroscience. 24(11):1586-1600.
Aaron J, Chew T-L.  2021.  A guide to accurate reporting in digital image processing - can anyone reproduce your quantitative analysis? Journal of Cell Science. 134(6)
2020
Girard F, von Siebenthal M, Davis FP, Celio MR.  2020.  Gene expression analysis in the mouse brainstem identifies Cart and Nesfatin as neuropeptides co-expressed in the Calbindin-positive neurons of the Nucleus papilio.. Sleep.
Abdelfattah AS, Valenti R, Zheng J, Wong A, Podgorski K, Koyama M, Kim DS, Schreiter ER, GENIE PTeam.  2020.  A general approach to engineer positive-going eFRET voltage indicators. Nature Communications. 11(1)
Grimm JB, Tkachuk AN, Xie L, Choi H, Mohar B, Falco N, Schaefer K, Patel R, Zheng Q, Liu Z et al..  2020.  A general method to optimize and functionalize red-shifted rhodamine dyes.. Nature Methods.
Davis FP, Nern A, Picard S, Reiser MB, Rubin GM, Eddy SR, Henry GL.  2020.  A genetic, genomic, and computational resource for exploring neural circuit function.. eLife. 9
Xiao X, Deng H, Furlan A, Yang T, Zhang X, Hwang G-R, Tucciarone J, Wu P, He M, Palaniswamy R et al..  2020.  A genetically defined compartmentalized striatal direct pathway for negative reinforcement.. Cell. 181(1):211.
Ochiai H, Hayashi T, Umeda M, Yoshimura M, Harada A, Shimizu Y, Nakano K, Saitoh N, Liu Z, Yamamoto T et al..  2020.  Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells.. Science Advances. 6(25):eaaz6699.
Liang X, Kokes M, Fetter RD, Sallee MDanielle, Moore AW, Feldman JL, Shen K.  2020.  Growth cone-localized microtubule organizing center establishes microtubule orientation in dendrites.. eLife. 9
2019
Hayworth KJ, Peale D, Januszewski M, Knott GW, Lu Z, C Xu S, Hess HF.  2019.  Gas cluster ion beam SEM for imaging of large tissue samples with 10 nm isotropic resolution.. Nature Methods. 17(1):68-71.
Hayworth KJ, Peale DR, Januszewski M, Knott G, Lu Z, C. Xu S, Hess HF.  2019.  GCIB-SEM: A path to 10 nm isotropic imaging of cubic millimeter volumes.. bioRxiv.