Publications

Programmed Cell Death Modifies Neural Circuits and Tunes Intrinsic Behavior
Kochersberger A, Torkashvand MM, Lee D, Baskoylu S, Sengupta T, Koonce N, Emerson C, Patel NV, Colón-Ramos D, Flavell SW, Horvitz HR, Venkatachalam V, Hammarlund M.
bioRxiv, 2023 doi: 10.1101/2023.09.11.557249
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A single neuron in C. elegans orchestrates multiple motor outputs through parallel modes of transmission
Huang Y-C, Luo J, Huang W, Baker CM, Gomes MA, Byrne AB, Flavell SW.
Current Biology, 2023 doi: 10.1016/j.cub.2023.08.088
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Brain-wide representations of behavior spanning multiple timescales and states in C. elegans
Atanas AA, Kim J, Wang Z, Bueno E, Becker M, Kang D, Park J, Estrem C, Kramer TS, Baskoylu S, Mansingkha VK, Flavell SW.
doi: 10.1016/j.cell.2023.07.035
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To reverse engineer an entire nervous system
Haspel G, Boyden E, Brown JW, Church G, Cohen N, Fang-Yen C, Flavell SW, Goodman M, Hart A, Hobert O, Kagias K, Lockery S, Lu Y, Marblestone A, Matelsky JK, Pfister H, Rotstein H, Scholz M, Shlizerman E, Simeon Q, Venkatachalam V, Yang GR, Yemini E, Zimmer M, Kording K.
arXiv, 2023, 2308.06578 doi: 10.48550/arXiv.2308.06578
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Schrödinger dynamics of undulatory locomotion
Cohen AE, Hastewell AD, Pradhan S, Flavell SW, Dunkel J.
Physical Review Letters, 2023, 130:258402 doi: 10.1103/PhysRevLett.130.258402
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Dissecting the Functional Organization of the C. elegans Serotonergic System at Whole-Brain Scale
Dag U, Nwabudike I, Kang D, Gomes MA, Kim J, Atanas AA, Bueno E, Estrem C, Pugliese S, Wang Z, Towlson E, Flavell SW.
2023, 186:2574-2592 doi: 10.1016/j.cell.2023.04.023
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The Nematode Worm C. elegans Chooses between Bacterial Foods Exactly as if Maximizing Economic Utility
Katzen A, Chung H-K, Harbaugh WT, Iacono CD, Jackson N, Yu SK, Flavell SW, Glimcher PW, Lockery SR.
Elife, 2023, 12:e69779 doi: 10.7554/elife.69779
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Developmental history modulates adult olfactory olfactory behavioral preferences via regulation of chemoreceptor expression in Caenorhabditiselegans
Kyani-Rogers, T, Philbrook, A, McLachlan, IG, Flavell, SW, O’Donnell, MP, Sengupta, P.
Genetics, 2022, 222:iyac143 doi: 10.1101/2022.06.07.495158
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The emergence and influence of internal states
Flavell SW, Gogolla N, Lovett-Barron M, Zelikowsky M.
Neuron, 2022, 110:2545-2570 doi: 10.1016/j.neuron.2022.04.030
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Diverse states and stimuli tune olfactory receptor expression levels to modulate food-seeking behavior
McLachlan IG, Kramer TS, Dua M, DiLoreto EM, Dag U, Srinivasan J, Flavell SW.
eLife, 2022, 11:e79557 doi: 10.7554/eLife.79557
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Recording and Quantifying C. elegans Behavior
Pokala N, Flavell SW.
Methods Mol Biol, 2022, 2468:357-373 doi: 10.1007/978-1-0716-2181-3_20
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Dynamic functional connectivity in the static connectome of Caenorhabditis elegans
Flavell SW, Gordus A.
Current Opinion in Neurobiology, 2022, 73:102515 doi: 10.1016/j.conb.2021.12.002
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A neural circuit for flexible control of persistent behavioral states
Ji N, Madan GK, Fabre GI, Dayan A, Baker CM, Kramer TS, Nwabudike I, Flavell SW.
eLife, 2021, 10:e62889 doi: 10.7554/eLife.62889
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Behavioral States
Flavell SW, Raizen DM, and You Y-J.
doi:10.1534/genetics.120.303539
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Host-microbe interactions and the behavior of Caenorhabditis elegans
Kim DH, Flavell SW.
doi: 10.1080/01677063.2020.1802724
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Whole-organism behavioral profiling reveals a role for dopamine in state-dependent motor program coupling in C. elegans
Cermak N, Yu SK, Clark R, Huang Y-C, Flavell SW.
doi: 10.7554/eLife.57093
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Cell Type-specific mRNA Purification in Caenorhabditis elegans via Translating Ribosome Affinity Purification
McLachlan IG, Flavell SW.
Bio-protocol, 2019, 9:e3328 doi: 10.21769/BioProtoc.3328
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ASICs Mediate Food Responses in an Enteric Serotonergic Neuron that Controls Foraging Behaviors
Rhoades JL, Nelson JC, Nwabudike I, Yu SK, McLachlan IG , Madan GK , Abebe  E, Powers JR, Colon-Ramos DA, Flavell SW.
Cell 2019, 176:85-97 doi: 10.1016/j.cell.2018.11.023
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A Robotic Multidimensional Directed Evolution Approach Applied to Fluorescent Voltage Reporters
Piatkevich KD, Jung EE, Straub C, Linghu C, Park D, Suk HJ, Hochbaum DR, Goodwin D, Pnevmatikakis E, Pak N, Kawashima T, Yang CT, Rhoades JL, Shemesh O, Asano S, Yoon YG, Freifeld L, Saulnier JL, Riegler C, Engert F, Hughes T, Drobizhev M, Szabo B, Ahrens MB, Flavell SW, Sabatini BL, Boyden ES.
Nature Chemical Biology, 2018, 14:352-360 doi: 10.1038/s41589-018-0004-9
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Hydra: Imaging Nerve Nets in Action
Ji N, Flavell SW.
Curr Biol, 2017, 27:R294-R295 doi: 10.1016/j.cub.2017.03.040
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Dissection of neuronal gap junction circuits that regulate social behavior in Caenorhabditis elegans.
Jang H, Levy S, Flavell SW, Mende F, Latham R, Zimmer M, Bargmann CI.
Proc Natl Acad Sci U S A, 2017, 114:E1263-E1272 doi: 10.1073/pnas.1621274114
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Distinct mechanisms underlie quiescence during two Caenorhabditis elegans sleep-like states
Trojanowski NF, Nelson MD, Flavell SW, Fang-Yen C, Raizen DM.
J Neurosci, 2015, 35:14571-14584 doi: 10.1523/JNEUROSCI.1369-15.2015
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A Circuit for Gradient Climbing in C. elegans Chemotaxis
Larsch J, Flavell SW, Liu Q, Gordus A, Albrecht DR, Bargmann CI.
Cell Rep, 2015, 12:1748-1760 doi: 10.1016/j.celrep.2015.08.032
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MEF2D drives photoreceptor development through a genome-wide competition for tissue-specific enhancers
Andzelm MM, Cherry TJ, Harmin DA, Boeke AC, Lee C, Hemberg M, Pawlyk B, Malik AN, Flavell SW, Sandberg MA, Raviola E, Greenberg ME.
Neuron, 2015, 86:247-263 doi: 10.1016/j.neuron.2015.02.038
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Feedback from network states generates variability in a probabilistic olfactory circuit
Gordus A, Pokala N, Levy S, Flavell SW, Bargmann CI.
Cell, 2015, 161:215-227 doi: 10.1016/j.cell.2015.02.018
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Serotonin and the neuropeptide PDF initiate and extend opposing behavioral states in C. elegans
Flavell SW, Pokala N, Macosko EZ, Albrecht DR, Larsch J, Bargmann CI.
Cell, 2013, 154:1023-1035 doi: 10.1016/j.cell.2013.08.001
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The Angelman Syndrome protein Ube3A regulates synapse development by ubiquitinating arc
Greer PL, Hanayama R, Bloodgood BL, Mardinly AR, Lipton DM, Flavell SW, Kim TK, Griffith EC, Waldon Z, Maehr R, Ploegh HL, Chowdhury S, Worley PF, Steen J, Greenberg ME.
Cell, 2010, 140:704-716  doi: 10.1016/j.cell.2010.01.026
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Mef2-mediated transcription of the miR379-410 cluster regulates activity-dependent dendritogenesis by fine-tuning Pumilio2 protein levels
Fiore R, Khudayberdiev S, Christensen M, Siegel G, Flavell SW, Kim TK, Greenberg ME, Schratt G.
EMBO J, 2009, 28:697-710. doi: 10.1038/emboj.2009.10
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Genome-wide analysis of MEF2 transcriptional program reveals synaptic target genes and neuronal activity-dependent polyadenylation site selection
Flavell SW, Kim TK, Gray JM, Harmin DA, Hemberg M, Hong EJ, Markenscoff-Papadimitriou E, Bear DM, Greenberg ME.
Neuron, 2008, 60:1022-1038 doi: 10.1016/j.neuron.2008.11.029
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Identifying autism loci and genes by tracing recent shared ancestry
Morrow EM, Yoo SY, Flavell SW, Kim TK, Lin Y, Hill RS, Mukaddes NM, Balkhy S, Gascon G, Hashmi A, Al-Saad S, Ware J, Joseph RM, Greenblatt R, Gleason D, Ertelt JA, Apse KA, Bodell A, Partlow JN, Barry B, Yao H, Markianos K, Ferland RJ, Greenberg ME, Walsh CA.
Science, 2008, 321:218-223 doi: 10.1126/science.1157657
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Signaling mechanisms linking neuronal activity to gene expression and plasticity of the nervous system
Flavell SW, Greenberg ME.
Annu Rev Neurosci, 2008, 31:563-590 doi: 10.1146/annurev.neuro.31.060407.125631
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Activity-dependent regulation of MEF2 transcription factors suppresses excitatory synapse number
Flavell SW, Cowan CW, Kim TK, Greer PL, Lin Y, Paradis S, Griffith EC, Hu LS, Chen C, Greenberg ME.
Science, 2006, 311:1008-1012 doi: 10.1126/science.1122511
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