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 2019

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Complement Targets Newborn Retinal Ganglion Cells for Phagocytic Elimination by Microglia, Sarah R. Anderson, Jianmin Zhang, Michael R. Steele, Cesar O. Romero, Amanda G. Kautzman, Dorothy P. Schafer, and Monica L. Vetter

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Transforming growth factor-beta renders ageing microglia inhibitory to oligodendrocyte generation by CNS progenitors, Roey Baror, Bjorn Neumann, Michael Segel, Kevin J. Chalut, Stephen P.J. Fancy J, Dorothy P. Schafer, and Robin J.M. Franklin

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Diapause induces functional axonal regeneration after necrotic insult in C. elegans, Mauricio Caneo, Victoria Julian, Alexandra B. Byrne, Mark J. Alkema, and Andrea Calixto

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Co-option of neurotransmitter signaling for inter-organismal communication in C. elegans, Christopher D. Chute, Elizabeth M. DiLoreto, Ying K. Zhang, Douglas K. Reilly, Diego Rayes, Veronica L. Coyle, Hee June Choi, Mark J. Alkema, Frank C. Schroeder, and Jagan Srinivasan

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The flight response impairs cytoprotective mechanisms by activating the insulin pathway, Maria Jose De Rosa, Tania Veuthey, Jeremy Florman, Jeff Grant, Maria Gabriela Blanco, Natalia Andersen, Jamie L. Donnelly, Diego Rayes, and Mark J. Alkema

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Differential Role of Pontomedullary Glutamatergic Neuronal Populations in Sleep-Wake Control, Evelyn T. M. Erickson, Loris L. Ferrari, Heinrich S. Gompf, and Christelle Anaclet

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Sensory lesioning induces microglial synapse elimination via ADAM10 and fractalkine signaling, Georgia Gunner, Kasey M. Johnson, Erica Mondo, Liwang Liu, Andrew R. Tapper, and Dorothy P. Schafer

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Gain-of-function mutations in the UNC-2/CaV2alpha channel lead to excitation-dominant synaptic transmission in C. elegans, Yung-Chi Huang, Jennifer K. Pirri, Diego Rayes, Shangbang Gao, Ben Mulcahy, Jeff Grant, Yasunori Saheki, Michael M. Francis, Mei Zhen, and Mark J. Alkema

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5-HT2A deletion protects against Clozapine-induced hyperglycemia, Radhika Sudhir Joshi, Shishu Pal Singh, and Mitradas M. Panicker

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Neural JNK3 regulates blood flow recovery after hindlimb ischemia in mice via an Egr1/Creb1 axis, Shashi Kant, Siobhan M. Craige, Kai Chen, Michaella M. Reif, Heather Learnard, Mark Kelly, Amada D. Caliz, Khanh-Van T. Tran, Kasmir Ramo, Owen M. Peters, Marc R. Freeman, Roger J. Davis, and John F. Keaney Jr.

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Integrins Have Cell-Type-Specific Roles in the Development of Motor Neuron Connectivity, Devyn Oliver, Emily Norman, Heather Bates, Rachel Avard, Monika Rettler, Claire Y. Benard, Michael M. Francis, and Michele L. Lemons

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The nuclear hormone receptor NHR-86 controls anti-pathogen responses in C. elegans, Nicholas D. Peterson, Hilary K. Cheesman, Pengpeng Liu, Sarah M. Anderson, Kyle J. Foster, Richa Chhaya, Paola N. Perrat, Jose Thekkiniath, Qiyuan Yang, Cole M. Haynes, and Read Pukkila-Worley

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Neural Bursting Activity Mediates Subtype-Specific Neural Regeneration by an L-type Calcium Channel, Kendra Takle Ruppell

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Intron and Small RNA Localization in Mammalian Neurons, Harleen Saini

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Neuronal vulnerability and multilineage diversity in multiple sclerosis, Lucas Schirmer, Sebastian Werneburg, Dorothy P. Schafer, Arnold R. Kriegstein, and David H. Rowitch

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Glutathione S-Transferase Regulates Mitochondrial Populations in Axons through Increased Glutathione Oxidation, Gaynor A. Smith, Tzu-Huai Lin, Amy E. Sheehan, Wynand Van der Goes van Naters, Lukas J. Neukomm, Hillary K. Graves, Dana M. Bis-Brewer, Stephan Zuchner, and Marc R. Freeman

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The Mechanosensitive Ion Channel Piezo Inhibits Axon Regeneration, Yuanquan Song, Fei Wang, Jiaxin Gong, Yang Xiang, and Yuh Nung Jan

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Conditional, inducible gene silencing in dopamine neurons reveals a sex-specific role for Rit2 GTPase in acute cocaine response and striatal function, Carolyn G. Sweeney, Patrick Kearney, Rita R. Fagan, Lindsey A. Smith, Nicholas C. Bolden, Rubing Zhao-Shea, Iris V. Rivera, Jenya Kolpakova, Jun Xie, Guangping Gao, Andrew R. Tapper, Gilles E. Martin, and Haley Melikian

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Conditional, inducible gene silencing in dopamine neurons reveals a sex-specific role for Rit2 GTPase in acute cocaine response and striatal function, Carolyn G. Sweeney, Patrick J. Kearney, Rita R. Fagan, Lindsey A. Smith, Nicholas C. Bolden, Rubing Zhao-Shea, Iris V. Rivera, Jenya Kolpakova, Jun Xie, Guangping Gao, Andrew R. Tapper, Gilles E. Martin, and Haley Melikian

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Differential expression of neurexin genes in the mouse brain, Motokazu Uchigashima, Amy Cheung, Julie Suh, Masahiko Watanabe, and Kensuke Futai

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Newly Identified Sleep-Wake and Circadian Circuits as Potential Therapeutic Targets, Anne Venner, William D. Todd, Jimmy Fraigne, Hannah Bowrey, Ada Eban-Rothschild, Satvinder Kaur, and Christelle Anaclet

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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Breakdown of Neural Function under Isoflurane Anesthesia: In Vivo, Multineuronal Imaging in Caenorhabditis elegans, Mehraj R. Awal, Doug Austin, Jeremy Florman, Mark J. Alkema, Christopher V. Gabel, and Christopher W. Connor

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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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Focal adhesion molecules regulate astrocyte morphology and glutamate transporters to suppress seizure-like behavior, Sukhee Cho, Allie Muthukumar, Tobias Stork, Jaeda C. Coutinho-Budd, and Marc R. Freeman

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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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Molecular Mechanisms Directing Spine Outgrowth and Synaptic Partner Selection in Caenorhabditis elegans, Devyn Oliver, Kellianne Alexander, and Michael M. Francis

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Differential expression of zinc transporters accompanies the differentiation of C2C12 myoblasts, Amanda L. Paskavitz, Julia Quintana, Daniella Cangussu, Cristina Tavera-Montanez, Yao Xiao, Sonia Ortiz-Mirnada, Juan G. Navea, and Teresita Padilla-Benavides

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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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Demystifying Monarch Butterfly Migration, Steven M. Reppert and Jacobus C. de Roode

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Drosophila Ror is a nervous system-specific co-receptor for Wnt ligands, Caroline Ripp, Julia Loth, Iveta Petrova, Karen Linnemannstons, Monique Ulepic, Lee G. Fradkin, Jasprien Noordermeer, and Andreas Wodarz

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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

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Microtubule Acetylation Is Required for Mechanosensation in Drosophila, Connie Yan, Fei Wang, Yang Xiang, Stephen L. Rogers, and Jay Z. Parrish

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Transcriptional Regulation of Lipophorin Receptors Supports Neuronal Adaptation to Chronic Elevations of Activity, Jun Yin, Mary Gibbs, Caixia Long, Justin Rosenthal, Hyong S. Kim, Anna Kim, Chengyu Sheng, Peng Ding, Uzma Javed, and Quan Yuan

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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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