Founded in 2001, the Department of Neurobiology at the University of Massachusetts Medical School has evolved into a unique and integrated hub of investigators addressing fundamental problems in neurobiology, from single molecules to behavior, primarily using invertebrate model organisms. Combining cell biological, physiological and behavioral analyses with a critical interventionist angle afforded by cutting-edge genetic approaches, the Department aims to understand the complexity of brain development and function. This collection showcases journal articles and other publications and presentations written by faculty and researchers of the Department of Neurobiology.

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Publications from 2017

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Brainstem regulation of slow-wave-sleep, Christelle Anaclet and Patrick M. Fuller

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Activation of the GABAergic Parafacial Zone Maintains Sleep and Counteracts the Wake-Promoting Action of the Psychostimulants Armodafinil and Caffeine, Christelle Anaclet, Kobi Griffith, and Patrick M. Fuller

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A Tale of Two Inputs, James A. Ashley and Vivian Budnik

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Local neuropeptide signaling modulates serotonergic transmission to shape the temporal organization of C. elegans egg-laying behavior, Navonil Banerjee, Raja Bhattacharya, Michael Gorczyca, Kevin M. Collins, and Michael M. Francis

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Excitatory neurons sculpt GABAergic neuronal connectivity in the C. elegans motor circuit, Belinda Barbagallo, Alison Philbrook, Denis Touroutine, Navonil Banerjee, Devyn Oliver, Christopher M. Lambert, and Michael M. Francis

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Functional Requirements for Heparan Sulfate Biosynthesis in Morphogenesis and Nervous System Development in C. elegans, Cassandra R. Blanchette, Andrea Thackeray, Paola N. Perrat, Siegfried Hekimi, and Claire Y. Benard

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Axon Death Pathways Converge on Axed to Promote Axon Disassembly, Thomas C. Burdett

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SIK3-HDAC4 signaling regulates Drosophila circadian male sex drive rhythm via modulating the DN1 clock neurons, Shinsuke Fujii, Patrick Emery, and Hubert Amrein

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Dimorphic cocoons of the cecropia moth (Hyalophora cecropia): Morphological, behavioral, and biophysical differences, Patrick A. Guerra and Steven M. Reppert

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H2O2-Sensitive Isoforms of Drosophila melanogaster TRPA1 Act in Bitter-Sensing Gustatory Neurons to Promote Avoidance of UV During Egg-Laying, Ananya R. Guntur, Bin Gou, Pengyu Gu, Ruo He, Ulrich Stern, Yang Xiang, and Chung-Hui Yang

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A Synthetic Genetic System to Investigate Brain Connectivity and Genetically Manipulate Interacting Cells, Ting-Hao Huang

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Behavioral and Functional Analysis of a Calcium Channelopathy in Caenorhaditis elegans, Yung-Chi Huang

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Methods to investigate the structure and connectivity of the nervous system, Donghyung Lee, Ting-Hao Huang, Aubrie De La Cruz, Antuca Callejas, and Carlos Lois

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Axon degeneration induces glial responses through Draper-TRAF4-JNK signalling, Tsai-Yi Lu, Jennifer M. MacDonald, Lukas J. Neukomm, Amy E. Sheehan, Rachel Bradshaw, Mary A. Logan, and Marc R. Freeman

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Axon Death Pathways Converge on Axundead to Promote Functional and Structural Axon Disassembly, Lukas J. Neukomm, Thomas C. Burdett, Andrew M. Seeds, Stefanie Hampel, Jaeda Coutinho-Budd, Jonathan E. Farley, Jack Wong, Yonca B. Karadeniz, Jeannette M. Osterloh, Amy E. Sheehan, and Marc R. Freeman

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Selenoprotein T is required for pathogenic bacteria avoidance in Caenorhabditis elegans, Laura Romanelli-Cedrez, Ines Carrera, Lucia Otero, Antonio Miranda-Vizuete, Marco Mariotti, Mark J. Alkema, and Gustavo Salinas

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The Circadian Clock Gene BMAL1 Coordinates Intestinal Regeneration, Kyle Stokes, Abrial Cooke, Hanna Chang, David R. Weaver, David T. Breault, and Phillip Karpowicz

Publications from 2016

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Temporal Organization of Behavioral States through Local Neuromodulation in C. elegans, Navonil Banerjee

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Memory-Relevant Mushroom Body Output Synapses Are Cholinergic, Oliver Barnstedt, David Owald, Johannes Felsenberg, Ruth Brain, John-Paul Moszynski, Clifford B. Talbot, Paola N. Perrat, and Scott Waddell

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Molecular Mechanisms of Assembly and Long-term Maintenance of Neuronal Architecture: A Dissertation, Cassandra R. Blanchette

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Corrigendum: FIB/SEM technology and high-throughput 3D reconstruction of dendritic spines and synapses in GFP-labeled adult-generated neurons, Carles Bosch, Albert Martinez, Nuria Masachs, Catia M. Teixeira, Isabel Fernaud, Fausto Ulloa, Esther Perez-Martinez, Carlos Lois, Joan X. Comella, Javier DeFelipe, Angel Merchan-Perez, and Eduardo Soriano

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Extracellular vesicles round off communication in the nervous system, Vivian Budnik, Catalina Ruiz-Canada, and Franz Wendler

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Drosophila Vision Depends on Carcinine Uptake by an Organic Cation Transporter, Ratna Chaturvedi, Zhuo Luan, Peiyi Guo, and Hong-Sheng Li

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The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length, Daniel E. Cook, Stefan Zdraljevic, Robyn E. Tanny, Beomseok Seo, David D. Riccardi, Luke M. Noble, Matthew V. Rockman, Mark J. Alkema, Christian Braendle, Jan E. Kammenga, John Wang, Leonid Kruglyak, Marie-Anne Felix, Junho Lee, and Erik C. Andersen

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This bud's for you: mechanisms of cellular nucleocytoplasmic trafficking via nuclear envelope budding, Lee G. Fradkin and Vivian Budnik

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Dendrites actively restrain axon outgrowth and regeneration, Michael M. Francis and Marc R. Freeman

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Microglia: Architects of the Developing Nervous System, Jeffrey L. Frost and Dorothy P. Schafer

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Circadian rhythms identified in Caenorhabditis elegans by in vivo long-term monitoring of a bioluminescent reporter, Maria Eugenia Goya, Andres Romanowski, Carlos S. Caldart, Claire Y. Benard, and Diego A. Golombek

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Prevalent presence of periodic actin-spectrin-based membrane skeleton in a broad range of neuronal cell types and animal species, Jiang He, Ruobo Zhou, Zhuhao Wu, Monica A. Carrasco, Peri T. Kurshan, Jonathan E. Farley, David J. Simon, Guiping Wang, Boran Han, Junjie Hao, Evan Heller, Marc R. Freeman, Kang Shen, Tom Maniatis, Marc Tessier-Lavigne, and Xiaowei Zhuang

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Attenuated traumatic axonal injury and improved functional outcome after traumatic brain injury in mice lacking Sarm1, Nils Henninger, James P. Bouley, Elif M. Sikoglu, Jiyan An, Constance M. Moore, Jean A. King, Robert Bowser, Marc R. Freeman, and Robert H. Brown Jr.

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Monitoring cell-cell contacts in vivo in transgenic animals, Ting-Hao Huang, Tarciso Velho, and Carlos Lois

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Synapse Development: Ribonucleoprotein Transport from the Nucleus to the Synapse: A Dissertation, Vahbiz Jokhi

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Consensus Paper: Cerebellar Development, Ketty Leto, Baojin Ding, and Daniel Lee Kilpatrick

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Using Drosophila models of Huntington's disease as a translatable tool, Elizabeth A. Lewis and Gaynor A. Smith

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Mechanisms of Synaptic Development and Premature Aging in Drosophila: A Dissertation, Yihang Li

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Lamin Mutations Accelerate Aging via Defective Export of Mitochondrial mRNAs through Nuclear Envelope Budding, Yihang Li, Linda Hassinger, Travis Thomson, Baojin Ding, James A. Ashley, William Hassinger, and Vivian Budnik

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Genomic Access to Monarch Migration Using TALEN and CRISPR/Cas9-Mediated Targeted Mutagenesis, Matthew J. Markert, Ying Zhang, Metewo Selase Enuameh, Steven M. Reppert, Scot A. Wolfe, and Christine Merlin

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Neuromodulators signal through astrocytes to alter neural circuit activity and behaviour, Zhiguo Ma, Tobias Stork, Dwight E. Bergles, and Marc R. Freeman

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Single-Cell Transcriptional Analysis Reveals Novel Neuronal Phenotypes and Interaction Networks Involved in the Central Circadian Clock, James Park, Haisun Zhu, Sean O'Sullivan, Babatunde A. Ogunnaike, David R. Weaver, James S. Schwaber, and Rajanikanth Vadigepalli

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Emerging Technologies in the Analysis of C. elegans Nicotinic Acetylcholine Receptors, Alison Philbrook and Michael M. Francis

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The Drosophila Homolog of the Intellectual Disability Gene ACSL4 Acts in Glia to Regulate Morphology and Neuronal Activity: A Dissertation, Caitlin M. Quigley

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Neurobiology of Monarch Butterfly Migration, Steven M. Reppert, Patrick A. Guerra, and Christine Merlin

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Microglia contribute to circuit defects in Mecp2 null mice independent of microglia-specific loss of Mecp2 expression, Dorothy P. Schafer, Christopher T. Heller, Georgia Gunner, Molly Heller, Christopher Gordon, Timothy Hammond, Yochai Wolf, Steffen Jung, and Beth Stevens

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Neural Integration Underlying a Time-Compensated Sun Compass in the Migratory Monarch Butterfly, Eli Shlizerman, James Phillips-Portillo, Daniel B. Forger, and Steven M. Reppert

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Pan-neuronal imaging in roaming Caenorhabditis elegans, Vivek Venkatachalam, Ni Ji, Xian Wang, Christopher M. Clark, James Kameron Mitchell, Mason Klein, Christopher J. Tabone, Jeremy Florman, Hongfei Ji, Joel Greenwood, Andrew D. Chisholm, Jagan Srinivasan, Mark J. Alkema, Mei Zhen, and Aravinthan D.T. Samuel

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Introduction to Circadian Rhythms and Mechanisms of Circadian Oscillations, David R. Weaver

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Dye-Sensitized Core/Active Shell Upconversion Nanoparticles for Optogenetics and Bioimaging Applications, Xiang Wu, Yuanwei Zhang, Kendra Takle, Osman Bilsel, Zhan Jun Li, Hyungseok Lee, Carlos Lois, Yang Xiang, and Gang Han

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miR-124 Regulates the Phase of Drosophila Circadian Locomotor Behavior, Yong Zhang, Pallavi Lamba, Peiyi Guo, and Patrick Emery

Publications from 2015

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In the proper context: Neuropeptide regulation of behavioral transitions during food searching, Raja Bhattacharya and Michael M. Francis

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Glypican Is a Modulator of Netrin-Mediated Axon Guidance, Cassandra Blanchette, Paola N. Perrat, Andrea Thackeray, and Claire Y. Benard

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FIB/SEM technology and high-throughput 3D reconstruction of dendritic spines and synapses in GFP-labeled adult-generated neurons, Carles Bosch, Albert Martinez, Nuria Masachs, Catia M. Teixeira, Isabel Fernaud, Fausto Ulloa, Esther Perez-Martinez, Carlos Lois, Joan X. Comella, Javier DeFelipe, Angel Merchan-Perez, and Eduardo Soriano

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A More Accessible Drosophila Genome to Study Fly CNS Development: A Dissertation, Hui-Min Chen

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An enhanced gene targeting toolkit for Drosophila: Golic+, Hui-Min Chen, Ya-ling Huang, Barret D. Pfeiffer, Xiaohao Yao, and Tzumin Lee

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Connecting Circadian Genes to Neurodegenerative Pathways in Fruit Flies, Patrick Emery

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Letting Go of JuNK by Disassembly of Adhesive Complexes, Jonathan E. Farley and Marc R. Freeman

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Drosophila Central Nervous System Glia, Marc R. Freeman

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The NCA sodium leak channel is required for persistent motor circuit activity that sustains locomotion, Shangbang Gao, Lin Xie, Taizo Kawano, Michelle D. Po, Sihui Guan, Mei Zhen, Jennifer K. Pirri, and Mark J. Alkema

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Sensory basis of lepidopteran migration: focus on the monarch butterfly, Patrick A. Guerra and Steven M. Reppert

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Drosophila TRPA1 isoforms detect UV light via photochemical production of H2O2, Ananya R. Guntur, Pengyu Gu, Kendra Takle, Jingyi Chen, Yang Xiang, and Chung-Hui Yang

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Transcriptional Control of Synaptic Remodeling through Regulated Expression of an Immunoglobulin Superfamily Protein, Siwei He, Alison Philbrook, Rebecca McWhirter, Christopher V. Gabel, Daniel G. Taub, Maximilian H. Carter, Isabella M. Hanna, Michael M. Francis, and David M. Miller 3rd

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Sweet taste and nutrient value subdivide rewarding dopaminergic neurons in Drosophila, Wolf Huetteroth, Emmanuel Perisse, Suewei Lin, Martin Klappenbach, Christopher J. Burke, and Scott Waddell

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Tachykinin acts upstream of autocrine Hedgehog signaling during nociceptive sensitization in Drosophila, Seol Hee Im, Kendra Takle, Juyeon Jo, Daniel T. Babcock, Zhiguo Ma, Yang Xiang, and Michael J. Galko

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Age-related Changes in the Neuronal Architecture of Caenorhabditis Elegans: A Dissertation, Anagha Khandekar

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Using Drosophila models of Huntington's disease as a translatable tool, Elizabeth A. Lewis and Gaynor A. Smith

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The putative Na(+)/Cl(-)-dependent neurotransmitter/osmolyte transporter inebriated in the Drosophila hindgut is essential for the maintenance of systemic water homeostasis, Zhuo Luan, Caitlin Quigley, and Hong-Sheng Li

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Mesoscopic patterns of neural activity support songbird cortical sequences, Jeffrey E. Markowitz, William A. Liberti III, Grigori Guitchounts, Tarciso Velho, Carlos Lois, and Timothy J. Gardner

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Astrocyte-Neuron Interactions Regulate Nervous System Assembly and Function: A Dissertation, Allie Muthukumar

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Caenorhabditis elegans exhibit a coupling between the defecation motor program and directed locomotion, Stanislav Nagy, Yung-Chi Huang, Mark J. Alkema, and David Biron

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Presynaptic BK channel localization is dependent on the hierarchical organization of alpha-catulin and dystrobrevin and fine-tuned by CaV2 calcium channels, Kelly H. Oh, Linu S. Abraham, Chandler Gegg, Christian Silvestri, Yung-Chi Huang, Mark J. Alkema, Jacob Furst, Daniela Raicu, and Hongkyun Kim

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Nucleus to Synapse Nesprin1 Railroad Tracks Direct Synapse Maturation through RNA Localization, Mary Packard, Vahbiz Jokhi, Baojin Ding, Catalina Ruiz-Canada, James A. Ashley, and Vivian Budnik

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A Change in the Ion Selectivity of Ligand-Gated Ion Channels Provides a Mechanism to Switch Behavior, Jennifer K. Pirri, Diego Rayes, and Mark J. Alkema

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Genes Required for Wallerian Degeneration Also Govern Dendrite Degeneration: A Dissertation, Timothy M. Rooney

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Brains, Blood, and Guts: MeCP2 Regulates Microglia, Monocytes, and Peripheral Macrophages, Dorothy P. Schafer and Beth Stevens

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Microglia Function in Central Nervous System Development and Plasticity, Dorothy P. Schafer and Beth Stevens

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Age-Dependent TDP-43-Mediated Motor Neuron Degeneration Requires GSK3, hat-trick, and xmas-2, Jemeen Sreedharan, Lukas J. Neukomm, Robert H. Brown Jr., and Marc R. Freeman

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The molecular ticks of the Drosophila circadian clock, Ozgur Tataroglu and Patrick Emery

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Calcium and SOL Protease Mediate Temperature Resetting of Circadian Clocks, Ozgur Tataroglu, Xiaohu Zhao, Ania Busza, Jinli Ling, John S. O'Neill, and Patrick Emery

Publications from 2014

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Activity Regulates Neuronal Connectivity and Function in the C. elegans Motor Circuit: A Dissertation, Belinda Barbagallo

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A conserved dopamine-cholecystokinin signaling pathway shapes context-dependent Caenorhabditis elegans behavior, Raja Bhattacharya, Denis Touroutine, Belinda Barbagallo, Jason Climer, Christopher M. Lambert, Christopher M. Clark, Mark J. Alkema, and Michael M. Francis

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Neuroscience. Astrocytes eyeball axonal mitochondria, Thomas C. Burdett and Marc R. Freeman

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Long-distance mechanism of neurotransmitter recycling mediated by glial network facilitates visual function in Drosophila, Ratna Chaturvedi, Keith Reddig, and Hong-Sheng Li

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Neural Orchestration of the C. elegans Escape Response: A Dissertation, Christopher M. Clark

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Drosophila learn opposing components of a compound food stimulus, Gaurav Das, Martin Klappenbach, Eleftheria Vrontou, Emmanuel Perisse, Christopher M. Clark, Christopher J. Burke, and Scott Waddell

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The hepatic circadian clock modulates xenobiotic metabolism in mice, Jason P. DeBruyne, David R. Weaver, and Robert Dallmann

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PI3K signaling and Stat92E converge to modulate glial responsiveness to axonal injury, Johnna E. Doherty, Amy E. Sheehan, Rachel Bradshaw, A. Nicole Fox, Tsai-yi Lu, and Marc R. Freeman

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Signaling mechanisms regulating Wallerian degeneration, Marc R. Freeman

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A magnetic compass aids monarch butterfly migration, Patrick A. Guerra, Robert J. Gegear, and Steven M. Reppert

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Glial wingless/Wnt regulates glutamate receptor clustering and synaptic physiology at the Drosophila neuromuscular junction, Kimberly S. Kerr, Yuly F. Fuentes Medel, Cassandra Brewer, Romina Barria, James A. Ashley, Katharine C. Abruzzi, Amy E. Sheehan, Ozge E. Tasdemir, Marc R. Freeman, and Vivian Budnik

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The Anaphase-Promoting Complex (APC) ubiquitin ligase regulates GABA transmission at the C. elegans neuromuscular junction, Jennifer R. Kowalski, Hitesh Dube, Denis Touroutine, Kristen M. Rush, Patricia R. Goodwin, Marc Carozza, Zachary Didier, Michael M. Francis, and Peter Juo

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Morning and evening oscillators cooperate to reset circadian behavior in response to light input, Pallavi Lamba, Diana Wentworth, Patrick Emery, and Yong Zhang

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Adult neurogenesis and its promise as a hope for brain repair, Carlos Lois and Wolfgang Kelsch

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Loss of Na(+)/K(+)-ATPase in Drosophila photoreceptors leads to blindness and age-dependent neurodegeneration, Zhuo Luan, Keith Reddig, and Hong-Sheng Li

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DRK/DOS/SOS Converge with Crk/Mbc/dCed-12 to Activate Rac1 during Glial Engulfment of Axonal Debris, Tsai-yi Lu, Johnna E. Doherty, and Marc R. Freeman

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Activity-dependent regulation of astrocyte GAT levels during synaptogenesis, Allie Muthukumar, Tobias Stork, and Marc R. Freeman

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Rapid in vivo forward genetic approach for identifying axon death genes in Drosophila, Lukas J. Neukomm, Thomas C. Burdett, Michael A. Gonzalez, Stephan Zuchner, and Marc R. Freeman

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Diverse cellular and molecular modes of axon degeneration, Lukas J. Neukomm and Marc R. Freeman

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Differences in Access to Care and Healthcare Utilization Among Sexual Minorities: A Master's Thesis, Tan Phu Pham

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Optimized CRISPR/Cas tools for efficient germline and somatic genome engineering in Drosophila, Fillip Port, Hui-Min Chen, Tzumin Lee, and Simon L. Bullock

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Drosophila models of neuronal injury, Timothy M. Rooney and Marc R. Freeman

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Simultaneous optogenetic manipulation and calcium imaging in freely moving C. elegans, Frederick B. Shipley, Christopher M. Clark, Mark J. Alkema, and Andrew M. Leifer