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 2018

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Genetic Activation, Inactivation, and Deletion Reveal a Limited And Nuanced Role for Somatostatin-Containing Basal Forebrain Neurons in Behavioral State Control, Christelle Anaclet, Roberto De Luca, Anne Venner, Olga Malyshevskaya, Michael Lazarus, Elda Arrigoni, and Patrick M. Fuller

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Retrovirus-like Gag Protein Arc1 Binds RNA and Traffics across Synaptic Boutons, James A. Ashley, Benjamin Cordy, Diandra Lucia, Lee G. Fradkin, Vivian Budnik, and Travis Thomson

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Integrated Analysis of miRNA/mRNA Expression in the Neurocircuitry Underlying Nicotine Dependence, Alison P. Casserly

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Reconfiguration of a Multi-oscillator Network by Light in the Drosophila Circadian Clock, Abhishek Chatterjee, Angelique Lamaze, Joydeep De, Wilson Mena, Elisabeth Chelot, Beatrice Martin, Paul Hardin, Sebastian Kadener, Patrick Emery, and Francois Rouyer

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Nuclear Export Through Nuclear Envelope Remodeling in Saccharomyces cerevisiae, Baojin Ding, Anne M. Mirza, James A. Ashley, Vivian Budnik, and Mary Munson

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Transcription factor Pebbled/RREB1 regulates injury-induced axon degeneration, Jonathan E. Farley, Thomas C. Burdett, Romina Barria, Lukas J. Neukomm, Kevin P. Kenna, John E. Landers, and Marc R. Freeman

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Excitatory motor neurons are local oscillators for backward locomotion, Shangbang Gao, Sihui Asuka Guan, Anthony D. Fouad, Jun Meng, Taizo Kawano, Yung-Chi Huang, Yi Li, Salvador Alcaire, Wesley Hung, Yangning Lu, Yingchuan Billy Qi, Yishi Jin, Mark J. Alkema, Christopher Fang-Yen, and Mei Zhen

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The molecular interplay between axon degeneration and regeneration, Marie-Pier Girouard, Mardja Bueno, Victoria Julian, Sienna Drake, Alexandra B. Byrne, and Alyson E. Fournier

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Molecular, Neuronal, and Behavioral Effects of Ethanol and Nicotine Interactions, Paul M. Klenowski and Andrew R. Tapper

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Neural Network Interactions Modulate CRY-Dependent Photoresponses in Drosophila, Pallavi Lamba, Lauren E. Foley, and Patrick Emery

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Activity-Induced Regulation of Synaptic Strength through the Chromatin Reader L3mbtl1, Wenjie Mao, Anna C. Salzberg, Motokazu Uchigashima, Yuto Hasegawa, Hanno Hock, Masahiko Watanabe, Schahram Akbarian, Yuka Imamura. Kawasawa, and Kensuke Futai

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Loss of Sarm1 does not suppress motor neuron degeneration in the SOD1G93A mouse model of amyotrophic lateral sclerosis, Owen M. Peters, Elizabeth A. Lewis, Jeannette M. Osterloh, Alexandra Weiss, Johnny Salameh, Jake P. Metterville, Robert H. Brown Jr., and Marc R. Freeman

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Molecular Mechanisms Underlying Synaptic Connectivity in C. elegans, Alison M. Philbrook

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Neurexin directs partner-specific synaptic connectivity in C. elegans, Alison Philbrook, Shankar Ramachandran, Christopher M. Lambert, Devyn Oliver, Jeremy Florman, Mark J. Alkema, Michele Lemons, and Michael M. Francis

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Roles of microglia in nervous system development, plasticity, and disease, Beth Stevens and Dorothy P. Schafer

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Mechanisms Regulating the Dopamine Transporter and Their Impact on Behavior, Carolyn G. Sweeney

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Mice lacking Kcns1 in peripheral neurons show increased basal and neuropathic pain sensitivity, Christoforos Tsantoulas, Franziska Denk, Massimo Signore, Mohammed A. Nassar, Kensuke Futai, and Stephen B. McMahon

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Inflammasome-derived cytokine IL18 suppresses amyloid-induced seizures in Alzheimer-prone mice, TeChen Tzeng, Yuto Hasegawa, Risa Iguchi, Amy Cheung, Daniel R. Caffrey, Elizabeth Jeanne Thatcher, Wenjie Mao, Gail Germain, Nelsy DePaula Tamburro, Shigeo Okabe, Michael T. Heneka, Eicke Latz, Kensuke Futai, and Douglas T. Golenbock

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Clocks and meals keep mice from being cool, Vincent van der Vinne, Mark J. Bingaman, David R. Weaver, and Steven J. Swoap

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Desynchrony between brain and peripheral clocks caused by CK1delta/epsilon disruption in GABA neurons does not lead to adverse metabolic outcomes, Vincent van der Vinne, Steven J. Swoap, Thomas J. Vajtay, and David R. Weaver

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Functionally Complete Excision of Conditional Alleles in the Mouse Suprachiasmatic Nucleus by Vgat-ires-Cre, David R. Weaver, Vincent van der Vinne, Eustathia Lela Giannaris, Thomas J. Vajtay, Kristopher L. Holloway, and Christelle Anaclet

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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Dosage Compensation of Trisomy 21 and Its Implications for Hematopoietic Pathogenesis in Down Syndrome, Jen-Chieh Chiang

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Astrocytic regulation of seizure-like behavior, Sukhee Cho

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The secreted neurotrophin Spatzle 3 promotes glial morphogenesis and supports neuronal survival and function, Jaeda C. Coutinho-Budd, Amy E. Sheehan, and Marc R. Freeman

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The Transcription Factor Pebbled/RREB1 Regulates Injury-Induced Axon Degeneration, Jonathan E. Farley

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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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Excitatory Motor Neurons are Local Central Pattern Generators in an Anatomically Compressed Motor Circuit for Reverse Locomotion, Shangbang Gao, Sihui Asuka Guan, Anthony D. Fouad, Jun Meng, Yung-Chi Huang, Yi Li, Salvador Alcaire, Wesley Hung, Taizo Kawano, Yangning Lu, Yingchuan Billy Qi, Yishi Jin, Mark J. Alkema, Christopher Fang-Yen, and Mei Zhen

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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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Investigating Methodological Differences in the Assessment of Dendritic Morphology of Basolateral Amygdala Principal Neurons-A Comparison of Golgi-Cox and Neurobiotin Electroporation Techniques, Paul M. Klenowski, Sophie E. Wright, Erica W. H. Mu, Peter G. Noakes, Nickolas A. Lavidis, Selena E. Bartlett, Mark C. Bellingham, and Matthew J. Fogarty

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Neuronal circuitry controlling circadian photoreception in Drosophila, Pallavi Lamba

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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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Molecular Players in Preserving Excitatory-Inhibitory Balance in the Brain, Wenjie Mao

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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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Getting mRNA-Containing Ribonucleoprotein Granules Out of a Nuclear Back Door, Anup Parchure, Mary Munson, and Vivian Budnik

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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

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A microglia-cytokine axis to modulate synaptic connectivity and function, Sebastian Werneburg, Philip A. Feinberg, Kasey M. Johnson, and Dorothy P. Schafer

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Lower school performance in late chronotypes: underlying factors and mechanisms, Giulia Zerbini, Vincent van der Vinne, Lana K. M. Otto, Thomas Kantermann, Wim P. Krijnen, Till Roenneberg, and Martha Merrow

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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The genetic basis of natural variation in C. elegans telomere length, Daniel E. Cook, Stefan Zdraljevic, Robyn E. Tanny, Beomseok Seo, David Riccardi, Luke M. Noble, Matthew V. Rockman, Mark J. Alkema, Christian Braendle, Jan Kammenga, John Wang, Leonid Kruglyak, Marie-Anne Felix, Junho Lee, and Erik 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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Imprinting: When Early Life Memories Make Food Smell Bad, Diego Rayes and Mark J. Alkema

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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