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.
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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, SWFlavell.
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Developmental history modulates adult olfactory olfactory behavioral preferences via regulation of chemoreceptor expression in C. elegans
Kyani-Rogers, T, Philbrook, A, McLachlan, IG, Flavell, SW, O’Donnell, MP, Sengupta, P.
Genetics, Volume 222, Issue 3, November 2022 doi:
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The emergence and influence of internal states
Flavell SW, Gogolla N, Lovett-Barron M, Zelikowsky M.
Neuron, 2022 May 24:S0896-6273(22)00407-X doi: 10.1016/j.neuron.2022.04.030
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Schrödinger dynamics of undulatory locomotion
Cohen AE, Hastewell AD, Pradhan S, Flavell SW, Dunkel J.
arXiv, 2205.10725 doi: 10.48550/arXiv.2205.10725
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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, 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 Feb 17;73:102515. doi: 0.1016/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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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 doi: 10.1101/2021.04.25.441352.
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Behavioral States
Flavell SW, Raizen DM, and You Y-J
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Host-microbe interactions and the behavior of Caenorhabditis elegans
Kim DH, Flavell SW.
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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.
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Cell Type-specific mRNA Purification in Caenorhabditis elegans via Translating Ribosome Affinity Purification
McLachlan IG, Flavell SW.
Bio-protocol 9(15): e3328. doi:
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ASICs Mediate Food Responses in an Enteric Serotonergic Neuron that Controls Foraging Behaviors
Rhoades JL, Nelson JC, …, Colon-Ramos DA, Flavell SW
Cell 2018. doi:
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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. doi: 10.1038/s41589-018-0004-9.
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Hydra: Imaging Nerve Nets in Action
Ji N, Flavell SW
Curr Biol. 2017 Apr 24;27(8):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 Feb 14;114(7):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 Oct 28;35(43):14571-84. 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 Sep 22;12(11):1748-60. doi: 10.1016/j.celrep.2015.08.032. Epub 2015 Sep 10
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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 Apr 8;86(1):247-63. doi: 10.1016/j.neuron.2015.02.038. Epub 2015 Mar 19
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→ Preview: Gene regulation: it matters who you hang out with. Masuda T, Berlinicke CA, Zack DJ. Neuron. 2015 Apr 8;86(1):7-9. doi: 10.1016/j.neuron.2015.03.057

Feedback from network states generates variability in a probabilistic olfactory circuit
Gordus A, Pokala N, Levy S, Flavell SW, Bargmann CI
Cell. 2015 Apr 9;161(2):215-27. doi: 10.1016/j.cell.2015.02.018. Epub 2015 Mar 12
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→ Preview: Pinning down randomness. Kristan WB. Cell. 2015 Apr 9;161(2):189-90. doi: 10.1016/j.cell.2015.03.036

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 Aug 29;154(5):1023-35. doi: 10.1016/j.cell.2013.08.001. Epub 2013 Aug 22
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→ Preview: Should I stay or should I go: neuromodulators of behavioral states .Shier AF. Cell. 2013 Aug 29;154(5):955-6. doi: 10.1016/j.cell.2013.08.017
→ Research Highlight: Neural circuits: To stay, or to go?. Yates D. Nat Rev Neurosci. 2013 Oct;14(10):668-9. doi: 10.1038/nrn3601. Epub 2013 Sep 12

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 Mar 5;140(5):704-16. doi: 10.1016/j.cell.2010.01.026
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→ Preview: Angelman syndrome: finding the lost arc. Tai HC , Schuman EM. Cell. 2010 Mar 5;140(5):608-10. doi: 10.1016/j.cell.2010.02.019
→ Research Highlight: Neurodevelopmental disorders: mechanistic insights into Angelman’s syndrome. Bodo C. Nat Rev Neurosci. 2010 May;11(5):298

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 Mar 18;28(6):697-710. doi: 10.1038/emboj.2009.10. Epub 2009 Feb 5
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→ Highlight: A boost in microRNAs shapes up the neuron. Muddashetty R, Bassell GJ. EMBO J. 2009 Mar 18;28(6):617-8. doi: 10.1038/emboj.2009.51

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 Dec 26;60(6):1022-38. 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 Jul 11;321(5886):218-23. doi: 10.1126/science.1157657
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→ Perspective: Insights into the pathogenesis of autism. Sutcliffe JS. Science. 2008 Jul 11;321(5886):208-9. doi: 10.1126/science.1160555

Signaling mechanisms linking neuronal activity to gene expression and plasticity of the nervous system
Flavell SW, Greenberg ME
Annu Rev Neurosci. 2008;31:563-90. 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 Feb 17;311(5763):1008-12
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→ Perspective: SUMO wrestles the synapse. Beg AA, Scheiffele P. Science. 2006 Feb 17;311(5763):962-3