Student Publications by Year (2011 - 2018)

2018

Graduate Student	Publication
Bieri, Gregor	Bieri G, Gitler AD, Brahic M (2018) Internalization, axonal transport and release of fibrillar forms of alpha-synuclein Neurobiol Dis 109(Pt B):219-225
Bieri, Gregor	Kramer NJ, Haney MS, Morgens DW, et al (2018) CRISPR-Cas9 screens in human cells and primary neurons identify modifiers of C9ORF72 dipeptide-repeat-protein toxicity Nat Genet 50(4):603-612
Chai, Noori	Chai N, Gitler AD (2018) Yeast screen for modifiers of C9orf72 poly(Glycine-Arginine) dipeptide repeat toxicity FEMS Yeast Res 18(4)
Gomez, Jesse L.	Gomez J, Natu V, Jeska, B, Barnett, M, and Grill-Spector, K (2018) Development differentially sculpts receptive fields across human visual cortex, Nat Commun, 9(1):788
Guttenplan, Kevin A.	Guttenplan KA, Liddelow SA (2018) Play It Again, SAM: Macrophages Control Peripheral Fat Metabolism Trends Immunol 39(2):81-82
Hardcastle, Kiah	Mallory, CS, Hardcastle, K, Bant, JS, and Giocomo, LM (2018) Grid scale drives the scale and long-term stability of place maps, Nat Neurosci, 21:270-282
Iyer, Manasi	Gontier G, Iyer M, Shea JM, et al (2018) Tet2 Rescues Age-Related Regenerative Decline and Enhances Cognitive Function in the Adult Mouse Brain Cell Rep 22(8):1974-1981
Kramer, Nicholas J.	Kramer NJ, Haney MS, Morgens DW, et al (2018) CRISPR-Cas9 screens in human cells and primary neurons identify modifiers of C9ORF72 dipeptide-repeat-protein toxicity Nat Genet 50(4):603-612
Mallory, Caitlin S.	Mallory, CS, Hardcastle, K, Bant, JS, and Giocomo, LM(2018) Grid scale drives the scale and long-term stability of place maps, Nat Neurosci, 21:270-282
Mallory, Caitlin S.	Mallory CS, Giocomo LM (2018) From entorhinal neural codes to navigation Nat Neurosci 21(1):7-8
Mallory, Caitlin S.	Mallory CS, Giocomo LM (2018) Heterogeneity in hippocampal place coding Curr Opin Neurobiol 49:158-167
Mount, Christopher W.	Mount, CW, Majzner, RG, Sundaresh, S, Arnold, EP, Kadapakkam, M, Haile, S, Labanieh, L, Hulleman, E, Woo, PJ, Rietberg, SP, Monje, M, and Mackall, CL (2018) Potent antitumor efficacy of anti-GD2 CAR T cells in H3-K27M+ diffuse midline gliomas, Nat Med 24(5):572-579
Mount, Christopher W.	Filbin MG, Tirosh I, Hovestadt V, et al (2018) Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq Science 360(6386):331-335
Salay, Lindsey D.	Salay LD, Ishiko N, Huberman AD (2018) A midline thalamic circuit determines reactions to visual threat Nature 557(7704):183-189
Sayyid, Zahra N.	Wei W, Sayyid ZN, Ma X, Wang T, Dong Y (2018) Presence of Anxiety and Depression Symptoms Affects the First Time Treatment Efficacy and Recurrence of Benign Paroxysmal Positional Vertigo Front Neurol 9:178
Seigneur, Erica M.	Seigneur E, Südhof TC (2018) Genetic Ablation of All Cerebellins Reveals Synapse Organizer Functions in Multiple Regions Throughout the Brain J Neurosci 38(20):4774-4790
Shuster, Scott A.	Li H, Shuster SA, Li J, Luo L (2018) Linking neuronal lineage and wiring specificity Neural Dev 13(1):5

2017

Graduate Student	Publication
Allen, William E.	Allen WE, Kauvar IV, Chen MZ, et al (2017) Global Representations of Goal-Directed Behavior in Distinct Cell Types of Mouse Neocortex Neuron 94(4):891-907e6
Allen, William E.	Allen WE, Denardo LA, Chen MZ, et al (2017) Thirst-associated preoptic neurons encode an aversive motivational drive Science 357(6356):1149-1155
Ballard, Ian C.	Ballard IC, Hennigan K, Mcclure SM (2017) Mere Exposure: Preference Change for Novel Drinks Reflected in Human Ventral Tegmental Area J Cogn Neurosci 29(5):793-804
Bennett, Mariko L.	Liddelow, S A, Guttenplan, K A, Clarke, L E, et al (2017) Neurotoxic reactive astrocytes are induced by activated microglia Nature 541(7638) 481–487
Bennett, Mariko L.	Valdearcos M, Douglass JD, Robblee MM, et al (2017) Microglial Inflammatory Signaling Orchestrates the Hypothalamic Immune Response to Dietary Excess and Mediates Obesity Susceptibility Cell Metab 26(1):185-197e3
Bennett, Mariko L.	Bennett ML, Barres BA (2017) A genetically distinct microglial subset promotes myelination EMBO J 36(22):3269-3271
Bieri, Gregor	Becker LA, Huang B, Bieri G, et al (2017) Therapeutic reduction of ataxin-2 extends lifespan and reduces pathology in TDP-43 mice Nature 544(7650):367-371
Bonanno, Liana N.	Mathur V, Burai R, Vest RT, et al (2017) Activation of the STING-Dependent Type I Interferon Response Reduces Microglial Reactivity and Neuroinflammation Neuron 96(6):1290-1302e6
Evans, Stephen W.	Chamberland S, Yang HH, Pan M, Evans SW, Chavarha M, Yang Y, Salesse C, Wu H, Wu JC, Clandinin TR, Toth K, Lin MZ, and St-Pierre F (2017) Fast two-photon imaging of subcellular voltage dynamics in 2 neuronal tissue with genetically encoded indicators, eLife 6
Fernandez, Corey	Fernandez C, Iyer M, Low I (2017) Gpr126 Is Critical for Schwann Cell Function during Peripheral Nerve Regeneration J Neurosci 37(12):3106-3108
Gomez, Jesse L.	Gomez J, Barnett MA, Natu V, Mezer A, Palomero-Gallagher N, Weiner KS, Amunts K, Zilles K, Grill-Spector K (2017) Microstructural proliferation in human cortex is coupled with the development of face processing Science 355(6320):68-71
Gomez, Jesse L.	Grill-Spector K, Weiner KS, Kay K, Gomez J (2017) The Functional Neuroanatomy of Human Face Perception Annu Rev Vis Sci 3:167-196
Guttenplan, Kevin A.	Liddelow, S A, Guttenplan, K A, et al (2017) Neurotoxic reactive astrocytes are induced by activated microglia Nature 541(7638) 481–487
Hardcastle, Kiah	Hardcastle K, Maheswaranathan N, Ganguli S, Giocomo LM (2017) A Multiplexed, Heterogeneous, and Adaptive Code for Navigation in Medial Entorhinal Cortex Neuron 94(2) 375–387e7
Hardcastle, Kiah	Hardcastle K, Ganguli S, Giocomo LM (2017) Cell types for our sense of location: where we are and where we are going Nat Neurosci 20(11):1474-1482
Hsueh, Brian	Romanov RA, Zeisel A, Bakker J, et al (2017) Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes Nat Neurosci 20(2):176-188
Hsueh, Brian	Feng Y, Cui P, Lu X, et al (2017) CLARITY reveals dynamics of ovarian follicular architecture and vasculature in three-dimensions Sci Rep 7:44810
Hsueh, Brian	Leuze C, Aswendt M, Ferenczi E, et al (2017) The separate effects of lipids and proteins on brain MRI contrast revealed through tissue clearing Neuroimage 156:412-422
Iyer, Manasi	Fernandez C, Iyer M, Low I (2017) Gpr126 Is Critical for Schwann Cell Function during Peripheral Nerve Regeneration J Neurosci 37(12):3106-3108
Kaganovsky, Konstantin	Kaganovsky K, Ding JB (2017) The Locomotion Tug-of-War: Cholinergic and Dopaminergic Interactions Outside the Striatum Neuron 96(6):1208-1210
Keller, Arielle	Keller AS, Christopher L (2017) Distinct Phases of Tau, Amyloid, and Functional Connectivity in Healthy Older Adults J Neurosci 37(37):8857-8859
Kim, Christina K.	Kim CK, Adhikari A, Deisseroth K (2017) Integration of optogenetics with complementary methodologies in systems neuroscience Nat Rev Neurosci 18(4):222-235
Kramer, Nicholas J.	Kramer NJ, Gitler AD (2017) Raise the Roof: Boosting the Efficacy of a Spinal Muscular Atrophy Therapy Neuron 93(1):3-5
Lechtenberg, Kendra J.	James ML, Hoehne A, Mayer AT, et al (2017) Imaging B cells in a mouse model of multiple sclerosis using (64)Cu-Rituximab-PET J Nucl Med
Lin, Grant L.	Lin GL, Monje M (2017) A Protocol for Rapid Post-mortem Cell Culture of Diffuse Intrinsic Pontine Glioma (DIPG) J Vis Exp (121)
Lu, Sharon Y.	Niwa S, Tao L, Lu SY*, Liew GM, Nachury MV, Shen K (2017) The BLOC-1 related complex (BORC) regulates the axonal transport of synaptic vesicle precursors by activating ARL-8 Current Biology
Madrid, Jesus E.	Madrid JE, Oztan O, Sclafani V, et al (2017) Preference for novel faces in male infant monkeys predicts cerebrospinal fluid oxytocin concentrations later in life Sci Rep 7(1):12935
Madugula, Sasidhar S.	Grosberg LE, Ganesan K, Goetz GA, et al (2017) Activation of ganglion cells and axon bundles using epiretinal electrical stimulation J Neurophysiol 118(3):1457-1471
Mount, Christopher W.	Venteicher AS, Tirosh I, Hebert C, et al (2017) Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq Science 355(6332)
Mount, Christopher W.	Mount CW, Monje M (2017) Wrapped to Adapt: Experience-Dependent Myelination Neuron 95(4):743-756
Naecker, Benjamin N.	Naecker B, Maheswaranthan N, Ganguli S, Baccus SA (2017) Pyret: A Python package for analysis of neurophysiological data The Journal of Open Source Software 2:9
Payne, Hannah L.	Payne HL, Raymond JL (2017) Magnetic eye tracking in mice Elife 6
Perry, LeeAnn M.	Perry LM, Goldstein-Piekarski AN, Williams LM (2017) Sex differences modulating serotonergic polymorphisms implicated in the mechanistic pathways of risk for depression and related disorders J Neurosci Res 95:737-762
Richman, Ethan B.	Allen WE, Kauvar IV, Chen MZ, et al (2017) Global Representations of Goal-Directed Behavior in Distinct Cell Types of Mouse Neocortex Neuron 94(4):891-907e6
Seigneur, Erica M.	Seigneur E, Südhof TC (2017) Cerebellins are differentially expressed in selective subsets of neurons throughout the brain J Comp Neurol 525(15):3286-3311
Sorokin, Jordan M	Makinson CD, Tanaka BS, Sorokin JM, Wong JC, Christian CA, Goldin AL, Escayg A, Huguenard JR (2017) Regulation of Thalamic and Cortical Network Synchrony by Scn8a Neuron 93:1165-1179
Sorokin, Jordan M	Sorokin JM, Davidson TJ, Frechette E, Abramian AM, Deisseroth K, Huguenard JR, Paz JT (2017) Bidirectional Control of Generalized Epilepsy Networks via Rapid Real-Time Switching of Firing Mode Neuron 93:194-210
Sorokin, Jordan M	Yackle K, Schwarz LA, Kam K, Sorokin JM, Huguenard JR, Feldman JL, Luo L, Krasnow MA (2017) Breathing control center neurons that promote arousal in mice Science 355:1411-1415
Sypek, Elizabeth	Corder GF, Tawfik VL, Wang D, Sypek EI, Low SA, Sotoudeh C, Barres BA, Bohlen C, Scherrer, G (2017) Loss of mu opioid receptor signaling in nociceptors, and not spinal microglia, abrogates morphine tolerance without disrupting analgesic efficacy Nat Med 23:164-173
Sypek, Elizabeth	François A, Low SA, Sypek EI, Christensen AJ, Sotoudeh C, Beier KT, Ramakrishnan C, Ritola KD, Sharif-Naeini R, Deisseroth K, Delp, SL, Malenka RC, Luo L, Hantman AW, Scherrer, G (2017) A brain-stem spinal cord inhibitory circuit for mechanical pain modulation by GABA and enkephalins Neuron 93:822-839
Xie, Qijing	Li H, Horns F, Wu B, et al (2017) Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-Cell RNA Sequencing Cell 171(5):1206-1220e22
Yang, Helen H.	Chamberland S, Yang HH, Pan M, Chavarha M, Yang Y, Salesse C, Wu H, Wu JC, Clandinin TR,*, Toth K, Lin MZ, St-Pierre F (2017) Fast two-photon imaging of subcellular voltage dynamics in neuronal tissue with genetically encoded indicators eLife 6
Yee, Ada X.	Yee AX, Hsu Y-T, Chen L (2017) A metaplastic view of the interaction between homeostatic and Hebbian plasticity Phil Tran R Soc B 372(1715): 20160155

2016

Graduate Student	Publication
Allen, William E.	Ye L, Allen WE, Thompson KR, Tian Q, Hsueh B, Ramakrishnan C, Wang AC, Jennings JH, Adhikari A, Halpern CH, Witten IB, Barth AL, Luo L, McNab JA, Deisseroth K (2016) Wiring and Molecular Features of Prefrontal Ensembles Representing Distinct Experiences. Cell 165(7):1776-88 PMCID: n/a
Bennett, Mariko L.	Bennett ML, Bennett FC, Liddelow S, Ajami B, Zamanian JL, Fernhoff N, Mulinyawe S, Bohlen C, Adil A, Tucker A, Weissman I, Chang E, Li G, Grant GA, Hayden Gephart Melanie G,Barres BA. (2016) New tools for studying microglia in the mouse and human PNAS 113:E1738-46 PMCID: PMC4812770
Bieri, Gregor	Brahic M, Bousset L, Bieri G, Melki R, Gitler AD (2016) Axonal transport and secretion of fibrillar forms of α-synuclein, Aβ42 peptide and HTTExon 1. Acta Neuropathol 131:539-48 PMCID: PMC4789229
Ferenczi, Emily A.	Ferenczi EA, Zalocusky KA, Liston C, Grosenick L, Warden MR, Amatya D, Katovich K, Mehta H, Patenaude B, Ramakrishnan C, Kalanithi P, Etkin A, Knutson B, Glover GH, Deisseroth K (2016) Prefrontal cortical regulation of brainwide circuit dynamics and reward-related behavior. Science 351:aac9698 PMCID: PMC4772156
Ferenczi, Emily A.	Ferenczi EA, Vierock J, Atsuta-Tsunoda K, Tsunoda SP, Ramakrishnan C, Gorini C, Thompson K, Lee SY, Berndt A, Perry C, Minniberger S, Vogt A, Mattis J, Prakash R, Delp S, Deisseroth K, Hegemann P (2016) Optogenetic approaches addressing extracellular modulation of neural excitability. Sci Rep 6:23947 PMCID: PMC4820717
Ha, Huong T.	Ha H and Huguenard JR (2016) Criminal Minds: Cav3.2 Channels Are the Culprits, but NMDAR Are the Co-Conspirators. Epilepsy Currents 16(1): 36–38. PMCID: PMC4749115
Hsueh, Brian	Ye L, Allen WE, Thompson KR, Tian Q, Hsueh B, Ramakrishnan C, Wang AC, Jennings JH, Adhikari A, Halpern CH, Witten IB, Barth AL, Luo L, McNab JA, Deisseroth K (2016) Wiring and Molecular Features of Prefrontal Ensembles Representing Distinct Experiences. Cell 165(7):1776-88 PMCID: n/a
Kaganovsky, Konstantin	Kaganovsky K, Wang CY (2016) How Do Microtubule Dynamics Relate to the Hallmarks of Learning and Memory? J Neurosci 36:5911-3 PMCID: n/a
Kim, Christina K.	Lui H, Zhang J, Makinson SR, Cahill MK, Kelley KW, Huang HY, Shang Y, Oldham MC, Martens LH, Gao F, Coppola G, Sloan SA, Hsieh CL, Kim CC, Bigio EH, Weintraub S, Mesulam MM, Rademakers R, Mackenzie IR, Seeley WW, Karydas A, Miller BL, Borroni B, Ghidoni R, Farese RV, Paz JT, Barres BA, Huang EJ (2016) Progranulin Deficiency Promotes Circuit-Specific Synaptic Pruning by Microglia via Complement Activation. Cell 165:921-35 PMCID: PMC4860138
Mattis, Joanna H.	Ferenczi EA, Vierock J, Atsuta-Tsunoda K, Tsunoda SP, Ramakrishnan C, Gorini C, Thompson K, Lee SY, Berndt A, Perry C, Minniberger S, Vogt A, Mattis JH, Prakash R, Delp S, Deisseroth K, Hegemann P (2016) Optogenetic approaches addressing extracellular modulation of neural excitability. Sci Rep 6:23947 PMCID: PMC4820717
Minhas, Paras S.	Woodling NS, Colas D, Wang Q, Minhas P, Panchal M, Liang X, Mhatre SD, Brown H, Ko N, Zagol-Ikapitte I, van der Hart M, Khroyan TV, Chuluun B, Priyam PG, Milne GL, Rassoulpour A, Boutaud O, Manning-Boğ AB, Heller HC, Andreasson KI (2016) Cyclooxygenase inhibition targets neurons to prevent early behavioural decline in Alzheimer's disease model mice. Brain 139(Pt 7):2063-81 PMCID: n/a
Nimarko, Akua F.	Shi R, Schroeder GM, Nimarko AF (2016) Dissecting the Role of P/Q-Type Calcium Channels in Corticothalamic Circuit Dysfunction and Absence Epilepsy. J Neurosci 36:5677-9 PMCID: n/a
Panagiotakos, Georgi	Leone DP, Panagiotakos G, Heavner WE, Joshi P, Zhao Y, Westphal H, McConnell SK (2016) Compensatory Actions of Ldb Adaptor Proteins During Corticospinal Motor Neuron Differentiation. Cereb Cortex pii: bhw003 PMCID: n/a
Prakash, Rohit	Ferenczi EA, Vierock J, Atsuta-Tsunoda K, Tsunoda SP, Ramakrishnan C, Gorini C, Thompson K, Lee SY, Berndt A, Perry C, Minniberger S, Vogt A, Mattis J, Prakash R, Delp S, Deisseroth K, Hegemann P (2016) Optogenetic approaches addressing extracellular modulation of neural excitability. Sci Rep 6:23947 PMCID: PMC4820717
Sacchet, Matthew D.	Henje Blom E, Ho TC, Connolly CG, LeWinn KZ, Sacchet MD, Tymofiyeva O, Weng HY, Yang TT (2016) The neuroscience and context of adolescent depression. Acta Paediatr 105:358-65 PMCID: PMC4779656
Sacchet, Matthew D.	Sacchet MD, Gotlib IH (2016) Neurofeedback training for major depressive disorder: recent developments and future directions. Expert Rev Neurother 22:1-3 PMCID: n/a
Sacchet, Matthew D.	Ho TC, Zhang S, Sacchet MD, Weng H, Connolly CG, Henje Blom E, Han LK, Mobayed NO, Yang TT (2016) Fusiform Gyrus Dysfunction is Associated with Perceptual Processing Efficiency to Emotional Faces in Adolescent Depression: A Model-Based Approach. Front Psychol 7:40 PMC4740953
Sacchet, Matthew D.	Schmaal L, Hibar DP, Sämann PG, Hall GB, Baune BT, Jahanshad N, Cheung JW, van Erp TG, Bos D, Ikram MA, Vernooij MW, Niessen WJ, Tiemeier H, Hofman A, Wittfeld K, Grabe HJ, Janowitz D, Bülow R, Selonke M, Völzke H, Grotegerd D, Dannlowski U, Arolt V, Opel N, Heindel W, Kugel H, Hoehn D, Czisch M, Couvy-Duchesne B, Rentería ME, Strike LT, Wright MJ, Mills NT, de Zubicaray GI, McMahon KL, Medland SE, Martin NG, Gillespie NA, Goya-Maldonado R, Gruber O, Krämer B, Hatton SN, Lagopoulos J, Hickie IB, Frodl T, Carballedo A, Frey EM, van Velzen LS, Penninx BW, van Tol MJ, van der Wee NJ, Davey CG, Harrison BJ, Mwangi B, Cao B, Soares JC, Veer IM, Walter H, Schoepf D, Zurowski B, Konrad C, Schramm E, Normann C, Schnell K, Sacchet MD, Gotlib IH, MacQueen GM, Godlewska BR, Nickson T, McIntosh AM, Papmeyer M, Whalley HC, Hall J, Sussmann JE, Li M, Walter M, Aftanas L, Brack I, Bokhan NA, Thompson PM, Veltman DJ (2016) Cortical abnormalities in adults and adolescents with major depression based on brain scans from 20 cohorts worldwide in the ENIGMA Major Depressive Disorder Working Group. Mol Psychiatry : PMCID: n/a
Sacchet, Matthew D.	van Lutterveld R, Houlihan SD, Pal P, Sacchet MD, McFarlane-Blake C, Patel PR, Sullivan JS, Ossadtchi A, Druker S, Bauer C, Brewer JA (2016) Source-space EEG neurofeedback links subjective experience with brain activity during effortless awareness meditation. Neuroimage pii:S1053-8119(16)00156-7 PMCID: n/a
Sacchet, Matthew D.	Sacchet MD, Ho TC, Connolly CG, Tymofiyeva O, Lewinn KZ, Han LK, Blom EH, Tapert SF, Max JE, Frank GK, Paulus MP, Simmons AN, Gotlib IH, Yang TT (2016) Large-Scale Hypoconnectivity between Resting-State Functional Networks in Unmedicated Adolescent Major Depressive Disorder. Neuropsychopharmacology PMCID: n/a
Sacchet, Matthew D.	Hamilton JP, Glover GH, Bagarinao E, Chang C,Mackey S, Sacchet MD, Gotlib IH (2016) Effects of salience-network-node neurofeedback training on affective biases in major depressive disorder. Psychiatry Res 249:91-6 PMC4803612
Sacchet, Matthew D.	Sacchet MD, Foland-Ross LC, Gotlib IH (2016) Imaging genetics of Depression Imaging Genetics: Principles and Practices, edited by Bigos KL, Hariri AR, Weinberger DR. Oxford University Press. PMCID: n/a
Schroeder, Gabrielle M.	Shi R, Schroeder GM,Nimarko AF (2016) Dissecting the Role of P/Q-Type Calcium Channels in Corticothalamic Circuit Dysfunction and Absence Epilepsy. J Neurosci 36:5677-9 PMCID: n/a
Schroeder, Gabrielle M.	Tarvin KA, Wong LJ, Lumpkin DC, Schroeder GM, D'Andrea D, Meade S, Rivers P, Murphy TG (2016) Dynamic Status Signal Reflects Outcome of Social Interactions, but Not Energetic Stress. Front Ecol Evol 4:79 PMCID: n/a
Shi, Rebecca D.	Shi R, Schroeder GM,Nimarko AF (2016) Dissecting the Role of P/Q-Type Calcium Channels in Corticothalamic Circuit Dysfunction and Absence Epilepsy. J Neurosci 36:5677-9 PMCID: n/a
Sloan, Steven A.	Lui H, Zhang J, Makinson SR, Cahill MK, Kelley KW, Huang HY, Shang Y, Oldham MC, Martens LH, Gao F, Coppola G, Sloan SA, Hsieh CL, Kim CC, Bigio EH, Weintraub S, Mesulam MM, Rademakers R, Mackenzie IR, Seeley WW, Karydas A, Miller BL, Borroni B, Ghidoni R, Farese RV Jr, Paz JT, Barres BA, Huang EJ (2016) Progranulin Deficiency Promotes Circuit-Specific Synaptic Pruning by Microglia via Complement Activation. Cell 165:921-35 PMCID: PMC4860138
Wang, Yuqi	Kaganovsky K, Wang CY (2016) How Do Microtubule Dynamics Relate to the Hallmarks of Learning and Memory? J Neurosci 36:5911-3 PMCID: n/a
Weissmiller, April M.	Xu W, Weissmiller AM, White JA, Fang F, Wang X, Wu Y, Pearn ML, Zhao X, Sawa M, Chen S, Gunawardena S, Ding J, Mobley WC, Wu C (2016) Amyloid precursor protein-mediated endocytic pathway disruption induces axonal dysfunction and neurodegeneration. J Clin Invest 126:1815-33 PMCID: PMC4855914
Yang, Helen H.	Fisher YE, Yang HH, Xie M, Clandinin TR (2016) FlpStop: a tool for conditional gene control that enables molecular dissection of neural computation in Drosophila. In review at Neuron.
Yang, Helen H.	Yang HH and St-Pierre F (2016). Genetically encoded voltage indicators: opportunities and challenges. In review at the Journal of Neuroscience.
Yang, Helen H.	Yang HH, St-Pierre F, Sun X, Ding X, Lin MZ, Clandinin TR(2016) Subcellular Imaging of Voltage and Calcium Signals Reveals Neural Processing In Vivo. Cell pii: S0092-8674(16)30582-7 PMCID: n/a
Zalocusky, Kelly A	Zalocusky KA, Ramakrishnan C, Lerner TN, Davidson TJ, Knutson B, Deisseroth K (2016) Nucleus accumbens D2R cells signal prior outcomes and control risky decision-making. Nature 531:642-6 PMCID: n/a
Zalocusky, Kelly A	Ferenczi EA, Zalocusky KA, Liston C, Grosenick L, Warden MR, Amatya D, Katovich K, Mehta H, Patenaude B, Ramakrishnan C, Kalanithi P, Etkin A, Knutson B, Glover GH, Deisseroth K (2016) Prefrontal cortical regulation of brainwide circuit dynamics and reward-related behavior. Science 351:aac9698 PMCID: PMC4772156

2015

Graduate Student	Publication
Alfa, Ronald W.	Alfa RW, Park S, Skelly KR, Poffenberger G, Jain N, Gu X, Kockel L, Wang J, Liu Y, Powers AC, Kim SK(2015) Suppression of insulin production and secretion by a decretin hormone. Cell Metab 21:323-33 PMCID: PMC4349554
Allen, William E.	Allen WE, Luo L (2015) Intersectional illumination of neural circuit function. Neuron 85:889-92 PMCID: n/a
Allen, William E.	Yang SJ, Allen WE, Kauvar I, Andalman AS, Young NP, Kim CK, Marshel JH, Wetzstein G,Deisseroth K (2015) Extended field-of-view and increased-signal 3D holographic illumination with time-division multiplexing. Opt Express 23:32573-81 PMCID: PMC4775739
Berns, Dominic S.	DeNardo LA, Berns DS, DeLoach K, Luo L (2015) Connectivity of mouse somatosensory and prefrontal cortex examined with trans-synaptic tracing. Nat Neurosci 18:1687-97 PMCID: PMC4624522
Bieri, Gregor	Smith LK, He Y, Park JS, Bieri G, Snethlage CE, Lin K, Gontier G, Wabl R, Plambeck KE, Udeochu J, Wheatley EG, Bouchard J, Eggel A, Narasimha R, Grant JL, Luo J, Wyss-Coray T, Villeda SA(2015) β2-microglobulin is a systemic pro-aging factor that impairs cognitive function and neurogenesis. Nat Med 21(8):932-7 PMCID: PMC4529371
Bieri, Gregor	Jovičić A, Mertens J, Boeynaems S, Bogaert E,Chai N, Yamada SB, Paul JW, Sun S, Herdy JR, Bieri G, Kramer NJ, Gage FH, Van Den Bosch L, Robberecht W, Gitler AD (2015) Modifiers of C9orf72 dipeptide repeat toxicity connect nucleocytoplasmic transport defects to FTD/ALS. Nat Neurosci 18:1226-9 PMCID: PMC4552077
Bryant, Astra S.	Bryant AS, Goddard CA, Huguenard JR, Knudsen EI (2015) Cholinergic control of gamma power in the midbrain spatial attention network. J Neurosci 35:761-75 PMCID: PMC4293421
Chai, Noori	Jovičić A, Mertens J, Boeynaems S, Bogaert E, Chai N, Yamada SB, Paul JW, Sun S, Herdy JR, Bieri G,Kramer NJ, Gage FH, Van Den Bosch L, Robberecht W, Gitler AD (2015) Modifiers of C9orf72 dipeptide repeat toxicity connect nucleocytoplasmic transport defects to FTD/ALS. Nat Neurosci 18:1226-9 PMCID: PMC4552077
Farzampour, Zoya	Farzampour Z, Reimer RJ, Huguenard J (2015) Endozepines. Adv Pharmacol 72:147-64 PMCID: PMC4550098
Farzampour, Zoya	Hiu T, Farzampour Z, Paz JT, Wang EH, Badgely C, Olson A, Micheva KD, Wang G, Lemmens R, Tran KV, Nishiyama Y, Liang X, Hamilton SA, O'Rourke N, Smith SJ, Huguenard JR, Bliss TM, Steinberg GK (2015) Enhanced phasic GABA inhibition during the repair phase of stroke: a novel therapeutic target. Brain 139(Pt2): 468-80 PMCID: PMC4805083
Farzampour, Zoya	Farzampour Z, Huguenard J (2015) Seizing upon Mechanisms for Impaired Consciousness. Neuron 85:453-5 PMCID: PMC4554486
Fenno, Lief E.	Yamamoto K, Tanei Z, Hashimoto T, Wakabayashi T, Okuno H, Naka Y, Yizhar O, Fenno LE, Fukayama M, Bito H, Cirrito JR, Holtzman DM, Deisseroth K, Iwatsubo T (2015) Chronic optogenetic activation augments aβ pathology in a mouse model of Alzheimer disease. Cell Rep 11:859-65 PMCID: n/a
Fenno, Lief E.	Fenno LE, Gunaydin LA, Deisseroth K (2015) Mapping Anatomy to Behavior in Thy1:18 ChR2-YFP Transgenic Mice Using Optogenetics. Cold Spring Harb Protoc 2015:537-48 PMCID: n/a
Ferenczi, Emily A.	Adhikari A, Lerner TN, Finkelstein J, Pak S, Jennings JH, Davidson TJ, Ferenczi E, Gunaydin LA, Mirzabekov JJ, Ye L, Kim SY, Lei A, Deisseroth K (2015) Basomedial amygdala mediates top-down control of anxiety and fear. Nature 527:179-85 PMCID: PMC4780260
Ferenczi, Emily A.	Montgomery KL, Yeh AJ, Ho JS, Tsao V, Mohan Iyer S, Grosenick L, Ferenczi EA, Tanabe Y, Deisseroth K,Delp SL, Poon AS (2015) Wirelessly powered, fully internal optogenetics for brain, spinal and peripheral circuits in mice. Nat Methods 12:969-74 PMCID: n/a
Figley, Matthew D.	Figley MD, Gitler AD (2015) Neurodegeneration: A Leg Up on TDP-43. Curr Biol 25:R728-31 PMCID: n/a
Fisher, Yvette E.	Fisher YE, Leong JC, Sporar K, Ketkar MD, Gohl DM, Clandinin TR, Silies M. (2015) A Class of Visual Neurons with Wide-Field Properties Is Required for Local Motion Detection Current Biology Fisher, Y.E., Leong, J.C.S., Sporar, K., Ketkar, M.D., Gohl, D.M., Clandinin, T.R., Fisher, Y.E., Leong, J.C.S., Sporar, K., Ketkar, M.D., et al. (2015). A Class of Visual Neurons with Wide-Field Properties Is Required for Local Motion Detection. Curr. Bi PMCID: PMC26670999
Fisher, Yvette E.	Fisher YE, Silies M, Clandinin TR (2015) Orientation Selectivity Sharpens Motion Detection in Drosophila. Neuron 88(2):390-402 PMCID: PMC4664581
Fisher, Yvette E.	Esch JJ, Fisher YE, Leong JCS, Clandinin TR (2015) Chapter 12 Genetic Pathways to Circuit Understanding in Drosophila. Neural Tracing Methods, Tracing Neurons and Their connections 92(249-274) PMCID: n/a
Gomez, Jesse L.	Gomez J, Pestilli F, Witthoft N, Golarai G, Liberman A, Poltoratski S, Yoon J, Grill-Spector K (2015) Functionally defined white matter reveals segregated pathways in human ventral temporal cortex associated with category-specific processing. Neuron 85:216-27 PMCID: PMC4287959
Grant, Jacqueline L.	Smith LK, He Y, Park JS, Bieri G, Snethlage CE, Lin K, Gontier G, Wabl R, Plambeck KE, Udeochu J, Wheatley EG, Bouchard J, Eggel A, Narasimha R, Grant JL, Luo J, Wyss-Coray T, Villeda SA (2015) β2-microglobulin is a systemic pro-aging factor that impairs cognitive function and neurogenesis. Nat Med 21(8):932-7 PMCID: PMC4529371
Grosenick, Logan M.	Montgomery KL, Yeh AJ, Ho JS, Tsao V, Mohan Iyer S, Grosenick LM, Ferenczi EA, Tanabe Y, Deisseroth K,Delp SL, Poon AS (2015) Wirelessly powered, fully internal optogenetics for brain, spinal and peripheral circuits in mice. Nat Methods 12:969-74 PMCID: n/a
Gunaydin, Lisa A.	Fenno LE, Gunaydin LA, Deisseroth K (2015) Mapping Anatomy to Behavior in Thy1:18 ChR2-YFP Transgenic Mice Using Optogenetics. Cold Spring Harb Protoc 2015:537-48 PMCID: n/a
Hardcastle, Kiah	Hardcastle K, Ganguli S, Giocomo LM (2015) Environmental boundaries as an error correction mechanism for grid cells. Neuron 86:827-39 PMCID: n/a
Hsueh, Brian	Font-Burgada J, Shalapour S, Ramaswamy S, Hsueh B, Rossell D, Umemura A, Taniguchi K, Nakagawa H, Valasek MA, Ye L, Kopp JL, Sander M, Carter H,Deisseroth K, Verma IM, Karin M (2015) Hybrid Periportal Hepatocytes Regenerate the Injured Liver without Giving Rise to Cancer. Cell 162:766-79 PMCID: PMC4545590
Kastner, David B.	Kastner DB, Baccus SA, Sharpee TO (2015) Critical and maximally informative encoding between neural populations in the retina. Proc Natl Acad Sci U S A 112(8):2533-8 PMCID: PMC4345597
Katta, Samata	Katta S, Krieg M, Goodman MB (2015) Feeling Force: Physical and Physiological Principles Enabling Sensory Mechanotransduction. Annu Rev Cell Dev Biol 31:347-71PMCID: n/a
Kim, Christina K.	Yang SJ, Allen WE, Kauvar I, Andalman AS, Young NP, Kim CK, Marshel JH, Wetzstein G,Deisseroth K (2015) Extended field-of-view and increased-signal 3D holographic illumination with time-division multiplexing. Opt Express 23:32573-81 PMCID: n/a
Kramer, Nicholas J.	Jovičić A, Mertens J, Boeynaems S, Bogaert E,Chai N, Yamada SB, Paul JW, Sun S, Herdy JR, Bieri G, Kramer NJ, Gage FH, Van Den Bosch L, Robberecht W,Gitler AD (2015) Modifiers of C9orf72 dipeptide repeat toxicity connect nucleocytoplasmic transport defects to FTD/ALS. Nat Neurosci 18:1226-9 PMCID: PMC4552077
Kramer, Nicholas J.	Dhungel N, Eleuteri S, Li LB, Kramer NJ, Chartron JW, Spencer B, Kosberg K, Fields JA, Stafa K, Adame A, Lashuel H, Frydman J, Shen K, Masliah E, Gitler AD (2015) Parkinson's disease genes VPS35 and EIF4G1 interact genetically and converge on α-synuclein. Neuron 85:76-87 PMCID: PMC4289081
Leong, Jonathan C.	Fisher YE, Leong JC, Sporar K, Ketkar MD, Gohl DM,Clandinin TR, Silies M. (2015) A Class of Visual Neurons with Wide-Field Properties Is Required for Local Motion Detection Curr. Bi PMCID: PMC26670999
Li, Li	Dhungel N, Eleuteri S, Li LB, Kramer NJ, Chartron JW, Spencer B, Kosberg K, Fields JA, Stafa K, Adame A, Lashuel H, Frydman J, Shen K, Masliah E, Gitler AD (2015) Parkinson's disease genes VPS35 and EIF4G1 interact genetically and converge on α-synuclein. Neuron 85:76-87 PMCID: PMC4289081
Maheswaranathan, Niruban	Sohl-Dickstein J, Weiss E, Maheswaranathan N,Ganguli S (2015) Deep Unsupervised Learning using Nonequilibrium Thermodynamics. Proceedings of The 32nd International Conference on Machine Learning http://arxiv.org/abs/1503.03585 PMCID: n/a
Miller, Chris H.	Miller CH, Hamilton JP,Sacchet MD, Gotlib IH (2015) Meta-analysis of Functional Neuroimaging of Major Depressive Disorder in Youth. JAMA Psychiatry 72:1045-53PMCID: n/a
Minhas, Paras S.	Zhang L, Zhang S, Maezawa I, Trushin S, Minhas PS, Pinto M, Jin LW, Prasain K, Nguyen TD, Yamazaki Y, Kanekiyo T, Bu G, Gateno B, Chang KO, Nath KA, Nemutlu E, Dzeja P, Pang YP, Hua DH, Trushina E (2015) Modulation of mitochondrial complex I activity averts cognitive decline in multiple animal models of familial Alzheimer's Disease. EBioMedicine 2:294-305 PMCID: PMC4465115
Mount, Christopher W.	Venkatesh HS, Johung TB, Caretti V, Noll A, Tang Y, Nagaraja S, Gibson EM, Mount CW, Polepalli J, Mitra SS, Woo PJ, Malenka RC, Vogel H, Bredel M, Mallick P,Monje M (2015) Neuronal Activity Promotes Glioma Growth through Neuroligin-3 Secretion. Cell 161:803-16 PMCID: PMC4447122
Payne, Hannah L.	Okubo TS, Mackevicius EL, Payne HL, Lynch GF, Fee MS (2015) Growth and splitting of neural sequences in songbird vocal development. Nature 528:352-7 PMCID: n/a
Rinaldi, Jacob M.	Katoh A, Shin SL, Kimpo RR, Rinaldi JM, Raymond JL (2015) Purkinje cell responses during visually and vestibularly driven smooth eye movements in mice. Brain Behav 5(3):e00310 PMCID: PMC4309896
Rubin, Amanda J.	Mhatre SD, Tsai CA, Rubin AJ, James ML, Andreasson KI (2015) Microglial malfunction: the third rail in the development of Alzheimer's disease. Trends Neurosci 38:621-36 PMCID: PMC4670239
Sacchet, Matthew D.	Chen MC, Ferrari L, Sacchet MD, Foland-Ross LC, Qiu MH, Gotlib IH, Fuller PM, Arrigoni E, Lu J (2015) Identification of a direct GABAergic pallidocortical pathway in rodents. Eur J Neurosci 41:748-59 PMC4363158
Sacchet, Matthew D.	Sacchet MD, Prasad G, Foland-Ross LC, Thompson PM, Gotlib IH (2015) Support vector machine classification of major depressive disorder using diffusion-weighted neuroimaging and graph theory. Front Psychiatry 6:21 PMC4332161
Sacchet, Matthew D.	Foland-Ross LC, Sacchet MD, Prasad G, Gilbert B, Thompson PM, Gotlib IH (2015) Cortical thickness predicts the first onset of major depression in adolescence. Int J Dev Neurosci 46:125-31 PMC4604750
Sacchet, Matthew D.	Miller CH, Hamilton JP, Sacchet MD, Gotlib IH(2015) Meta-analysis of Functional Neuroimaging of Major Depressive Disorder in Youth. JAMA Psychiatry 72:1045-53 PMCID: n/a
Sacchet, Matthew D.	Sacchet MD, LaPlante RA, Wan Q, Pritchett DL, Lee AK, Hämäläinen M, Moore CI, Kerr CE, Jones SR (2015) Attention drives synchronization of alpha and beta rhythms between right inferior frontal and primary sensory neocortex. J Neurosci 35:2074-82 PMC4315835
Sacchet, Matthew D.	Sacchet MD, Livermore EE, Iglesias JE, Glover GH, Gotlib IH (2015) Subcortical volumes differentiate Major Depressive Disorder, Bipolar Disorder, and remitted Major Depressive Disorder. J Psychiatr Res 68:91-8 PMCID: n/a
Sacchet, Matthew D.	Morelli SA, Sacchet MD, Zaki J (2015) Common and distinct neural correlates of personal and vicarious reward: A quantitative meta-analysis. Neuroimage 112:244-53 PMC4408229
Sacchet, Matthew D.	Henje Blom E, Han LK, Connolly CG, Ho TC, Lin J, LeWinn KZ, Simmons AN, Sacchet MD, Mobayed N, Luna ME, Paulus M, Epel ES, Blackburn EH, Wolkowitz OM, Yang TT (2015) Peripheral telomere length and hippocampal volume in adolescents with major depressive disorder. Transl Psychiatry 5:e676 PMCID: n/a
Sayyid, Zahra N.	Atkinson PJ, Huarcaya Najarro E, Sayyid ZN, Cheng AG(2015) Sensory hair cell development and regeneration: similarities and differences. Development 142:1561-71 PMCID: PMC4419275
Sayyid, Zahra N.	Tsao GJ, Messner AH, Seybold J, Sayyid ZN, Cheng AG, Golianu B (2015) Intraoperative acupuncture for posttonsillectomy pain: a randomized, double-blind, placebo-controlled trial. Laryngoscope 125:1972-8 PMCID: n/a
Sloan, Steven A.	Zuchero JB, Fu MM, Sloan SA, Ibrahim A, Olson A, Zaremba A, Dugas JC, Wienbar S, Caprariello AV, Kantor C, Leonoudakus D, Lariosa-Willingham K, Kronenberg G, Gertz K, Soderling SH, Miller RH,Barres BA (2015) CNS Myelin Wrapping Is Driven by Actin Disassembly. Dev Cell 34:152-67 PMCID: PMC4519368
Sloan, Steven A.	Li MD, Burns TC, Kumar S, Morgan AA, Sloan SA, Palmer TD (2015) Aging-like changes in the transcriptome of irradiated microglia. Glia 63(5): 754–767 PMCID: PMC4625786
Sloan, Steven A.	Paşca AM, Sloan SA, Clarke LE, Tian Y, Makinson CD, Huber N, Kim CH, Park JY, O'Rourke NA, Nguyen KD,Smith SJ, Huguenard JR, Geschwind DH, Barres BA, Paşca SP (2015) Functional cortical neurons and astrocytes from human pluripotent stem cells in 3D culture. Nat Methods 12:671-8 PMCID: PMC4489980
Sloan, Steven A.	Dong X, Chen K, Cuevas-Diaz Duran R, You Y, Sloan SA, Zhang Y, Zong S, Cao Q,Barres BA, Wu JQ (2015) Comprehensive Identification of Long Non-coding RNAs in Purified Cell Types from the Brain Reveals Functional LncRNA in OPC Fate Determination. PLoS Genet 11:e1005669 PMCID: n/a
Sloan, Steven A.	Yan Q, Weyn-Vanhentenryck SM, Wu J, Sloan SA, Zhang Y, Chen K, Wu JQ, Barres BA, Zhang C (2015) Systematic discovery of regulated and conserved alternative exons in the mammalian brain reveals NMD modulating chromatin regulators. Proc Natl Acad Sci U S A 112:3445-50 PMCID: PMC4371929
Sloan, Steven A.	Darmanis S, Sloan SA, Zhang Y, Enge M, Caneda C, Shuer LM, Hayden Gephart MG,Barres BA, Quake SR (2015) A survey of human brain transcriptome diversity at the single cell level. Proc Natl Acad Sci U S A 112:7285-90 PMCID: PMC4466750
Sorokin, Jordan M.	Stavisky SD, Kao JC, Sorokin JM, Ryu SI, Shenoy KV. (2015) System Identification of Brain-Machine Interface Control Using a Cursor Jump Perturbation. Proceedings of the 7th International IEEE EMBS Conference on Neural Engineering PMCID: n/a
Stavisky, Sergey	Even-Chen N, Stavisky SD, Kao JC, Ryu SI, Shenoy KV (2015) Auto-deleting brain machine interface: Error detection using spiking neural activity in the motor cortex. Conf Proc IEEE Eng Med Biol Soc 2015:71-5 PMCID: n/a
Stavisky, Sergey	Stavisky SD, Kao JC, Nuyujukian P, Ryu SI, Shenoy KV (2015) A high performing brain-machine interface driven by low-frequency local field potentials alone and together with spikes. J Neural Eng 12:036009 PMCID: PMC4457459
Stavisky, Sergey	Stavisky SD, Kao JC, Sorokin JM, Ryu SI, Shenoy KV. (2015) System Identification of Brain-Machine Interface Control Using a Cursor Jump Perturbation. Proceedings of the 7th International IEEE EMBS Conference on Neural Engineering PMCID: n/a
Steinmetz, Nicholas A.	Okun M, Steinmetz NA, Cossell L, Iacaruso MF, Ko H, Barthó P, Moore T, Hofer SB, Mrsic-Flogel TD, Carandini M, Harris KD (2015) Diverse coupling of neurons to populations in sensory cortex. Nature 521:511-5 PMCID: PMC4449271
Suarez-Mier, Gabriela B.	Suarez-Mier GB, Buckwalter MS (2015) Glial Fibrillary Acidic Protein-Expressing Glia in the Mouse Lung. ASN Neuro 7(5) PMCID: PMC4601129
Taylor, Caitlin A.	Wei X, Howell AS, Dong X, Taylor CA, Cooper RC, Zhang J, Zou W, Sherwood DR, Shen K (2015) The unfolded protein response is required for dendrite morphogenesis. Elife 4:e06963 PMCID: PMC4484204
Taylor, Caitlin A.	Taylor CA, Yan J, Howell AS, Dong X, Shen K (2015) RAB-10 Regulates Dendritic Branching by Balancing Dendritic Transport. PLoS Genet 11:e1005695 PMCID: PMC4669152
Trautmann, Eric M.	Trautmann EM, O'Shea DJ, Shrestha S, Lin S, Ryu S, Shenoy K (2015) Design of an implantable artificial dural window for chronic two-photon optical imaging in non-human primates. Conf Proc IEEE Eng Med Biol Soc 2015:7554-7 PMCID: n/a
Tsai, Connie	Mhatre SD, Tsai CA, Rubin AJ, James ML, Andreasson KI (2015) Microglial malfunction: the third rail in the development of Alzheimer's disease. Trends Neurosci 38:621-36 PMCID: PMC4670239
Woodling, Nathaniel S.	Johansson JU, Woodling NS, Brown HD, Wang Q, Andreasson KI (2015) Microarray analysis of the in vivo response of microglia to Aβ peptides in mice with conditional deletion of the prostaglandin EP2 receptor. Genom Data 5:268-271 PMCID: PMC4522932
Woodling, Nathaniel S.	Johansson JU, Woodling NS, Wang Q, Panchal M, Liang X, Trueba-Saiz A, Brown HD, Mhatre SD, Loui T,Andreasson KI (2015) Prostaglandin signaling suppresses beneficial microglial function in Alzheimer's disease models. J Clin Invest 125:350-64 PMCID: PMC4382270
Yee, Ada X.	Liang J, Xu W, Hsu YT, Yee AX, Chen L, Südhof TC (2015) Conditional neuroligin-2 knockout in adult medial prefrontal cortex links chronic changes in synaptic inhibition to cognitive impairments. Mol Psychiatry 20:850-9 PMCID: n/a
Yee, Ada X.	Liang J, Xu W, Hsu YT, Yee AX, Chen L, Südhof TC (2015) Conditional knockout of Nlgn2 in the adult medial prefrontal cortex (mPFC) induces delayed loss of inhibitory synapses. Mol Psychiatry 20:793 PMCID: n/a
Zalocusky, Kelly A	Lerner TN, Shilyansky C, Davidson TJ, Evans KE, Beier KT, Zalocusky KA, Crow AK, Malenka RC, Luo L, Tomer R, Deisseroth K (2015) Intact-Brain Analyses Reveal Distinct Information Carried by SNc Dopamine Subcircuits. Cell 162:635-47 PMCID: PMC4790813

2014

Graduate Student	Publication
Adelson, Jaimie D.	Adelson JD, Sapp RW, Brott BK, Lee H, Miyamichi K, Luo L, Cheng S, Djurisic M, Shatz CJ (2014) Developmental Sculpting of Intracortical Circuits by MHC Class I H2-Db and H2-Kb. Cereb Cortex 26(4):1453-63 PMCID: PMC4785944
Adelson, Jaimie D.	Lee H, Brott BK, Kirkby LA, Adelson JD, Cheng S, Feller MB, Datwani A, Shatz CJ (2014) Synapse elimination and learning rules co-regulated by MHC class I H2-Db. Nature 509:195-200 PMCID: PMC4016165
Adelson, Jaimie D.	Bochner DN, Sapp RW, Adelson JD, Zhang S, Lee H, Djurisic M, Syken J, Dan Y, Shatz CJ (2014) Blocking PirB up-regulates spines and functional synapses to unlock visual cortical plasticity and facilitate recovery from amblyopia. Sci Transl Med 6:258ra140 PMCID: PMC4476552
Alfa, Ronald W.	Park S, Alfa RW, Topper SM, Kim GE, Kockel L, Kim SK (2014) A genetic strategy to measure circulating Drosophila insulin reveals genes regulating insulin production and secretion. PLoS Genet 10:e1004555 PMCID: PMC4125106
Ames, Katherine C.	Ames KC, Ryu SI, Shenoy KV (2014) Neural Dynamics of Reaching following Incorrect or Absent Motor Preparation. Neuron 81:438-51 PMCID: PMC3936035
Bennett, Mariko L.	Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T,Barres BA, Wu JQ (2014) An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. J Neurosci 34:11929-47 PMCID: PMC4152602
Bieri, Gregor	Luo J, Nguyen A, Villeda S, Zhang H, Ding Z, Lindsey D, Bieri G, Castellano JM, Beaupre GS, Wyss-Coray T(2014) Long-term cognitive impairments and pathological alterations in a mouse model of repetitive mild traumatic brain injury. Front Neurol 5:12 PMCID: PMC3912443
Bieri, Gregor	Figley MD, Bieri G, Kolaitis RM, Taylor JP, Gitler AD(2014) Profilin 1 Associates with Stress Granules and ALS-Linked Mutations Alter Stress Granule Dynamics. J Neurosci 34:8083-97 PMCID: PMC4051967
Bieri, Gregor	Villeda SA, Plambeck KE, Middeldorp J, Castellano JM,Mosher KI, Luo J, Smith LK, Bieri G, Lin K, Berdnik D, Wabl R, Udeochu J, Wheatley EG, Zou B, Simmons DA, Xie XS, Longo FM, Wyss-Coray T (2014) Young blood reverses age-related impairments in cognitive function and synaptic plasticity in mice. Nat Med 20(6):659-63 PMCID: PMC4224436
Bieri, Gregor	Gibson EM, Purger D, Mount CW, Goldstein AK, Lin GL, Wood LS, Inema I, Miller SE, Bieri G, Zuchero JB, Barres BA, Woo PJ, Vogel H, Monje M (2014) Neuronal activity promotes oligodendrogenesis and adaptive myelination in the mammalian brain. Science 344:1252304 PMCID: PMC4096908
Bochner, David N.	Bochner DN, Sapp RW, Adelson JD, Zhang S, Lee H, Djurisic M, Syken J, Dan Y, Shatz CJ (2014) Blocking PirB up-regulates spines and functional synapses to unlock visual cortical plasticity and facilitate recovery from amblyopia. Sci Transl Med 6:258ra140 PMCID: PMC4476552
Bryant, Astra S.	Goddard CA, Mysore SP, Bryant AS, Huguenard JR, Knudsen EI (2014) Spatially Reciprocal Inhibition of Inhibition within a Stimulus Selection Network in the Avian Midbrain. PLoS One 9:e85865 PMCID: PMC3897538
Cekanaviciute, Egle	Cekanaviciute E, Fathali N, Doyle KP, Williams AM, Han J, Buckwalter MS (2014) Astrocytic transforming growth factor-beta signaling reduces subacute neuroinflammation after stroke in mice. Glia 62:1227-40 PMCID: PMC4061255
Cekanaviciute, Egle	Cekanaviciute E, Dietrich HK, Axtell RC, Williams AM, Egusquiza R, Wai KM, Koshy AA, Buckwalter MS(2014) Astrocytic TGF-β signaling limits inflammation and reduces neuronal damage during central nervous system Toxoplasma infection. J Immunol 193:139-49 PMCID: PMC4075480
Chia, Poh H.	Ozkan E, Chia PH, Wang RR, Goriatcheva N, Borek D, Otwinowski Z, Walz T, Shen K, Garcia KC (2014) Extracellular Architecture of the SYG-1/SYG-2 Adhesion Complex Instructs Synaptogenesis. Cell 156:482-94 PMCID: PMC3962013
Chia, Poh H.	Chia PH, Chen B, Li P, Rosen MK, Shen K (2014) Local F-actin Network Links Synapse Formation and Axon Branching. Cell 156:208-20 PMCID: PMC3954643
Course, Meredith M.	Tsai PI, Course MM, Lovas JR, Hsieh CH, Babic M, Zinsmaier KE, Wang X (2014) PINK1-mediated Phosphorylation of Miro Inhibits Synaptic Growth and Protects Dopaminergic Neurons in Drosophila Sci Rep 4:6962 PMCID: PMC4223694
Farzampour, Zoya	Tani H, Dulla CG, Farzampour Z, Taylor-Weiner A, Huguenard JR, Reimer RJ (2014) A local glutamate-glutamine cycle sustains synaptic excitatory transmitter release. Neuron 81:888-900 PMCID: PMC4001919
Fenno, Lief E.	Gunaydin LA, Grosenick L, Finkelstein JC, Kauvar IV, Fenno LE, Adhikari A, Lammel S, Mirzabekov JJ, Airan RD, Zalocusky KA, Tye KM, Anikeeva P, Malenka RC, Deisseroth K (2014) Natural neural projection dynamics underlying social behavior. Cell 157:1535-51 PMCID: PMC4123133
Fenno, Lief E.	Gunaydin LA, Grosenick L, Finkelstein JC, Kauvar IV, Fenno LE, Adhikari A, Lammel S, Mirzabekov JJ, Airan RD, Zalocusky KA, Tye KM, Anikeeva P, Malenka RC, Deisseroth K (2014) Natural Neural Projection Dynamics Underlying Social Behavior. Cell 157(7): 1535 - 1551 PMCID: PMC4123133
Fenno, Lief E.	Fenno LE, Mattis J, Ramakrishnan C, Hyun M, Lee SY, He M, Tucciarone J, Selimbeyoglu A, Berndt A,Grosenick L, Zalocusky KA, Bernstein H, Swanson H, Perry C, Diester I, Boyce FM, Bass CE, Neve R, Huang ZJ, Deisseroth K (2014) Targeting cells with single vectors using multiple-feature Boolean logic. Nat Methods 11:763-72 PMCID: PMC4085277
Fenno, Lief E.	Cheng MY, Wang EH, Woodson WJ, Wang S, Sun G, Lee AG, Arac A, Fenno LE, Deisseroth K, Steinberg GK (2014) Optogenetic neuronal stimulation promotes functional recovery after stroke. Proc Natl Acad Sci U S A 111:12913-8 PMCID: PMC4156770
Ferenczi, Emily A.	Leone DP, Heavner WE, Ferenczi EA, Dobreva G, Huguenard JR, Grosschedl R, McConnell SK (2014) Satb2 Regulates the Differentiation of Both Callosal and Subcerebral Projection Neurons in the Developing Cerebral Cortex. Cereb Cortex 25(10):3406-19 PMCID: PMC4585495
Figley, Matthew D.	Figley MD, Bieri G, Kolaitis RM, Taylor JP, Gitler AD(2014) Profilin 1 Associates with Stress Granules and ALS-Linked Mutations Alter Stress Granule Dynamics. J Neurosci 34:8083-97 PMCID: PMC4051967
Figley, Matthew D.	Figley MD, Thomas A, Gitler AD (2014) Evaluating noncoding nucleotide repeat expansions in amyotrophic lateral sclerosis. Neurobiol Aging 35:936.e1-4 PMCID: PMC3880650
Foo, Lynette C.	Scholze AR, Foo LC, Mulinyawe S, Barres BA (2014) BMP Signaling in Astrocytes Downregulates EGFR to Modulate Survival and Maturation. PLoS One 9:e110668 PMCID: PMC4201562
Gomez, Jesse L.	Gomez JL, Pestilli F, Golarai G, Witthoft N, Poltoratski S, Yoon J, Grill-Spector K (2014) Functionally-defined white matter selectively predicts face- and place-processing performance. Neuron 85(1):216-227 PMCID: PMC4287959
Grosenick, Logan M.	Gunaydin LA, Grosenick L, Finkelstein JC, Kauvar IV, Fenno LE, Adhikari A, Lammel S, Mirzabekov JJ, Airan RD, Zalocusky KA, Tye KM, Anikeeva P, Malenka RC, Deisseroth K (2014) Natural neural projection dynamics underlying social behavior. Cell 157:1535-51 PMCID: PMC4123133
Grosenick, Logan M.	Fenno LE, Mattis J, Ramakrishnan C, Hyun M, Lee SY, He M, Tucciarone J, Selimbeyoglu A, Berndt A, Grosenick L, Zalocusky KA, Bernstein H, Swanson H, Perry C, Diester I, Boyce FM, Bass CE, Neve R, Huang ZJ, Deisseroth K (2014) Targeting cells with single vectors using multiple-feature Boolean logic. Nat Methods 11:763-72 PMCID: PMC4085277
Gunaydin, Lisa A.	Gunaydin LA, Grosenick L, Finkelstein JC, Kauvar IV, Fenno LE, Adhikari A, Lammel S, Mirzabekov JJ, Airan RD, Zalocusky KA, Tye KM, Anikeeva P, Malenka RC, Deisseroth K (2014) Natural neural projection dynamics underlying social behavior. Cell 157:1535-51 PMCID: PMC4123133
Gunaydin, Lisa A.	Gunaydin LA, Deisseroth K (2014) Dopaminergic Dynamics Contributing to Social Behavior. Cold Spring Harb Symp Quant Biol 79:221-7 PMCID: n/a
Guo, Cong	Guo CC, Ke MC, Raymond JL (2014) Cerebellar encoding of multiple candidate error cues in the service of motor learning. J Neurosci 34:9880-90 PMCID: PMC4107405
Hsueh, Brian	Tomer R, Ye L, Hsueh B, Deisseroth K (2014) Advanced CLARITY for rapid and high-resolution imaging of intact tissues. Nat Protoc 9:1682-97 PMCID: PMC4096681
Hsueh, Brian	Zhang MD, Tortoriello G, Hsueh B, Tomer R, Ye L, Mitsios N, Borgius L, Grant G, Kiehn O, Watanabe M, Uhlén M, Mulder J, Deisseroth K, Harkany T, Hökfelt TG (2014) Neuronal calcium-binding proteins 1/2 localize to dorsal root ganglia and excitatory spinal neurons and are regulated by nerve injury. Proc Natl Acad Sci U S A 111:E1149-58 PMCID: PMC3970515
Kastner, David B.	Kastner DB, Baccus SA (2014) Insights from the retina into the diverse and general computations of adaptation, detection, and prediction. Curr Opin Neurobiol 25:63-9 PMCID: n/a
Kim, Christina K.	Kimpo RR, Rinaldi JM, Kim CK, Payne HL, Raymond JL(2014) Gating of neural error signals during motor learning. Elife 3:e02076 PMCID: PMC3989583
Krock, Rebecca M.	Krock RM, Moore T (2014) The Influence of Gaze Control on Visual Perception: Eye Movements and Visual Stability. Cold Spring Harb Symp Quant Biol 79:123-30 PMCID: n/a
Lee, Christine K	Kyuyoung CL, Huguenard JR (2014) Modulation of Short-Term Plasticity in the Corticothalamic Circuit by Group III Metabotropic Glutamate Receptors. J Neurosci 34:675-87 PMCID: PMC3870944
Lin, Grant L.	Gibson EM, Purger D, Mount CW, Goldstein AK, Lin GL, Wood LS, Inema I, Miller SE,Bieri G, Zuchero JB, Barres BA, Woo PJ, Vogel H, Monje M (2014) Neuronal activity promotes oligodendrogenesis and adaptive myelination in the mammalian brain. Science 344:1252304 PMCID: PMC4096908
Mattis, Joanna H.	Fenno LE, Mattis J, Ramakrishnan C, Hyun M, Lee SY, He M, Tucciarone J, Selimbeyoglu A, Berndt A,Grosenick L, Zalocusky KA, Bernstein H, Swanson H, Perry C, Diester I, Boyce FM, Bass CE, Neve R, Huang ZJ, Deisseroth K (2014) Targeting cells with single vectors using multiple-feature Boolean logic. Nat Methods 11:763-72 PMCID: PMC4085277
Mosher, Kira L.	Villeda SA, Plambeck KE, Middeldorp J, Castellano JM, Mosher KI, Luo J, Smith LK, Bieri G, Lin K, Berdnik D, Wabl R, Udeochu J, Wheatley EG, Zou B, Simmons DA, Xie XS, Longo FM, Wyss-Coray T (2014) Young blood reverses age-related impairments in cognitive function and synaptic plasticity in mice. Nat Med 20(6):659-63 PMCID: PMC4224436
Mount, Christopher W.	Gibson EM, Purger D, Mount CW, Goldstein AK, Lin GL, Wood LS, Inema I, Miller SE,Bieri G, Zuchero JB, Barres BA, Woo PJ, Vogel H, Monje M (2014) Neuronal activity promotes oligodendrogenesis and adaptive myelination in the mammalian brain. Science 344:1252304 PMCID: PMC4096908
Panagiotakos, Georgi	Paşca SP, Panagiotakos G, Dolmetsch RE (2014) Generating human neurons in vitro and using them to understand neuropsychiatric disease. Annu Rev Neurosci 37:479-501 PMCID: n/a
Panagiotakos, Georgi	Portmann T, Yang M, Mao R, Panagiotakos G, Ellegood J, Dolen G, Bader PL, Grueter BA, Goold C, Fisher E, Clifford K, Rengarajan P, Kalikhman D, Loureiro D, Saw NL, Zhengqui Z, Miller MA, Lerch JP, Henkelman RM, Shamloo M, Malenka RC, Crawley JN, Dolmetsch RE (2014) Behavioral abnormalities and circuit defects in the basal ganglia of a mouse model of 16p11.2 deletion syndrome. Cell Rep 7:1077-92 PMCID: PMC4251471
Payne, Hannah L.	Kimpo RR, Rinaldi JM, Kim CK, Payne HL, Raymond JL(2014) Gating of neural error signals during motor learning. Elife 3:e02076 PMCID: PMC3989583
Prolo, Laura M.	Song Y, Tharin S, Divi V, Prolo LM, Sirjani DB (2014) Anterolateral approach to the upper cervical spine: case report and operative technique. Head Neck 37(9):E115-9 PMCID: n/a
Rinaldi, Jacob M.	Kimpo RR, Rinaldi JM, Kim CK, Payne HL, Raymond JL (2014) Gating of neural error signals during motor learning. Elife 3:e02076 PMCID: PMC3989583
Sacchet, Matthew D.	Sacchet MD, Prasad G, Foland-Ross LC, Joshi SH, Hamilton JP, Thompson PM, Gotlib IH (2014) Structural abnormality of the corticospinal tract in major depressive disorder. Biol Mood Anxiety Disord 4:8 PMCID: PMC4187017
Sacchet, Matthew D.	Foland-Ross LC, Hamilton P, Sacchet MD, Furman DJ, Sherdell L, Gotlib IH (2014) Activation of the medial prefrontal and posterior cingulate cortex during encoding of negative material predicts symptom worsening in major depression. Neuroreport 25:324-9 PMCID: PMC3947655
Sacchet, Matthew D.	Sacchet MD, Prasad G, Foland-Ross LC, Thompson PM, Gotlib IH (2014) ELUCIDATING BRAIN CONNECTIVITY NETWORKS IN MAJOR DEPRESSIVE DISORDER USING CLASSIFICATION-BASED SCORING. Proc IEEE Int Symp Biomed Imaging 2014:246-249 PMCID: PMC4287315
Sacchet, Matthew D.	Sacchet MD, Prasad G, Foland-Ross LC, Joshi SH, Hamilton JP, Thompson PM, Gotlib IH (2014) Characterizing White Matter Connectivity in Major Depressive Disorder: Automater Fiber Quantification and Maximum Density Paths. Proc IEEE Int Symp Biomed Imaging 11:592-595 PMCID: PMC4273938
Scharr, Alexandra L.	Effertz T, Scharr AL, Ricci AJ(2014) The how and why of identifying the hair cell mechano-electrical transduction channel. Pflugers Arch 467(1): 73-84 PMCID: PMC4282604
Selimbeyoglu, Aysel A.	Fenno LE, Mattis J, Ramakrishnan C, Hyun M, Lee SY, He M, Tucciarone J, Selimbeyoglu A, Berndt A,Grosenick L, Zalocusky KA, Bernstein H, Swanson H, Perry C, Diester I, Boyce FM, Bass CE, Neve R, Huang ZJ,Deisseroth K (2014) Targeting cells with single vectors using multiple-feature Boolean logic. Nat Methods 11:763-72 PMCID: PMC4085277
Sloan, Steven A.	Sloan SA, Barres BA (2014) Mechanisms of astrocyte development and their contributions to neurodevelopmental disorders. Curr Opin Neurobiol 27:75-81 PMCID: PMC4433289
Sloan, Steven A.	Zhang Y, Chen K, Sloan SA,Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T,Barres BA, Wu JQ (2014) An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. J Neurosci 34:11929-47 PMCID: PMC4152602
Sloan, Steven A.	Sloan SA, Barres BA (2014) The Detrimental Role of Glial Acidification during Ischemia. Neuron 81:221-3 PMCID: PMC4429529
Stavisky, Sergey	Stavisky SD, Kao JY, Nuyujukian P, Ryu SI, Shenoy KV (2014) Hybrid decoding of both spikes and low-frequency local field potentials for brain-machine interfaces. IEEE Neural Engineering and Repair Conference Paper pp. 3041-3044 PMCID: n/a
Stavisky, Sergey	Nuyujukian P, Kao JC, Fan JM, Stavisky SD, Ryu SI, Shenoy KV (2014) Performance sustaining intracortical neural prostheses. J Neural Eng 11:066003 PMCID: n/a
Stavisky, Sergey	Kao JC, Stavisky SD, Sussillo D, Nuyujukian P, Shenoy KV (2014) Information Systems Opportunities in Brain-Machine Interfaces Proceedings of the IEEE Vol. 102, No. 5, pp. 666-682 PMCID: n/a
Steinmetz, Nicholas A.	Sridharan D, Steinmetz NA, Moore T, Knudsen EI (2014) Distinguishing bias from sensitivity effects in multialternative detection tasks. J Vis 14(9):16 PMCID: PMC4141865
Steinmetz, Nicholas A.	Zirnsak M, Steinmetz NA, Noudoost B, Xu KZ, Moore T (2014) Visual space is compressed in prefrontal cortex before eye movements. Nature 507:504-7 PMCID: PMC4064801
Steinmetz, Nicholas A.	Steinmetz NA, Moore T (2014) Eye movement preparation modulates neuronal responses in area V4 when dissociated from attentional demands. Neuron 83:496-506 PMCID: PMC4130345
Toyoda, Izumi	Buckmaster PS, Wen X, Toyoda I, Gulland FM, Van Bonn W (2014) Hippocampal neuropathology of domoic acid-induced epilepsy in California sea lions (Zalophus californianus). J Comp Neurol 522:1691-706 PMCID: PMC4100486
Toyoda, Izumi	Fujita S, Toyoda I, Thamattoor AK, Buckmaster PS (2014) Preictal activity of subicular, CA1, and dentate gyrus principal neurons in the dorsal hippocampus before spontaneous seizures in a rat model of temporal lobe epilepsy. J Neurosci 34:16671-87 PMCID: PMC4261094
Wagner, Mark J.	Gong Y, Wagner MJ, Zhong Li J, Schnitzer MJ (2014) Imaging neural spiking in brain tissue using FRET-opsin protein voltage sensors. Nat Commun 5:3674 PMCID: PMC4247277
Wang, Megan	Burrows BE, Zirnsak M, Akhlaghpour H, Wang M, Moore T (2014) Global selection of saccadic target features by neurons in area v4. J Neurosci 34:6700-6 PMCID: PMC4012320
Weiler, Nicholas J.	Weiler NC, Collman F, Vogelstein JT, Burns R, Smith SJ (2014) Synaptic molecular imaging in spared and deprived columns of mouse barrel cortex with array tomography. Sci Data 1:140046 PMCID: PMC4411012
Woodling, Nathaniel S.	Woodling NS, Wang Q, Priyam PG, Larkin P, Shi J, Johansson JU, Zagol-Ikapitte I, Boutaud O, Andreasson KI (2014) Suppression of Alzheimer-associated inflammation by microglial prostaglandin-E2 EP4 receptor signaling. J Neurosci 34:5882-94 PMCID: PMC3996215
Yang, Helen H.	Yang HH, Clandinin TR(2014) What can fruit flies teach us about karate? Elife 3:e04040 PMCID: PMC4136469
Zalocusky, Kelly A	Gunaydin LA, Grosenick L, Finkelstein JC, Kauvar IV, Fenno LE, Adhikari A, Lammel S, Mirzabekov JJ, Airan RD, Zalocusky KA, Tye KM, Anikeeva P, Malenka RC, Deisseroth K (2014) Natural Neural Projection Dynamics Underlying Social Behavior Cell 157(7): 1535 - 1551 PMCID: PMC4123133
Zalocusky, Kelly A	Fenno LE, Mattis J, Ramakrishnan C, Hyun M, Lee SY, He M, Tucciarone J, Selimbeyoglu A, Berndt A,Grosenick L, Zalocusky KA, Bernstein H, Swanson H, Perry C, Diester I, Boyce FM, Bass CE, Neve R, Huang ZJ, Deisseroth K (2014) Targeting cells with single vectors using multiple-feature Boolean logic. Nat Methods 11:763-72 PMCID: PMC4085277

2013

Graduate Student	Publication
Arroyo, Sergio E.	Bennett C, Arroyo S, Hestrin S (2013) Subthreshold mechanisms underlying state-dependent modulation of visual responses. Neuron 80:350-7 PMCID: PMC3806653
Bennett, Corbett C.	Bennett C, Arroyo S, Hestrin S (2013) Subthreshold mechanisms underlying state-dependent modulation of visual responses. Neuron 80:350-7 PMCID: PMC3806653
Bennett, Mariko L.	Aguzzi A, Barres BA, Bennett ML (2013) Microglia: scapegoat, saboteur, or something else? Science 339:156-61 PMCID: PMC4431634
Berns, Dominic S.	Stephan AH, Madison DV, Mateos JM, Fraser DA, Lovelett EA, Coutellier L, Kim L, Tsai HH, Huang EJ, Rowitch DH, Berns DS, Tenner AJ, Shamloo M, Barres BA (2013) A dramatic increase of C1q protein in the CNS during normal aging. J Neurosci 33:13460-74 PMCID: PMC3742932
Bieri, Gregor	Lucin KM, O'Brien CE, Bieri G, Czirr E, Mosher KI, Abbey RJ, Mastroeni DF, Rogers J, Spencer B, Masliah E, Wyss-Coray T (2013) Microglial beclin 1 regulates retromer trafficking and phagocytosis and is impaired in Alzheimer's disease. Neuron 79:873-86 PMCID: PMC3779465
Braun, Amy E.	Carpentier PA, Haditsch U, Braun AE, Cantu AV, Moon HM, Price RO, Anderson MP, Saravanapandian V, Ismail K, Rivera M, Weimann JM,Palmer TD (2013) Stereotypical alterations in cortical patterning are associated with maternal illness-induced placental dysfunction. J Neurosci 33:16874-88 PMCID: PMC3807021
Cekanaviciute, Egle	Johansson JU, Pradhan S, Lokteva LA, Woodling NS, Ko N, Brown HD, Wang Q, Loh C, Cekanaviciute E, Buckwalter M, Manning-Bog AB, Andreasson KI (2013) Suppression of inflammation with conditional deletion of the prostaglandin E2 EP2 receptor in macrophages and brain microglia. J Neurosci 33:16016-32 PMCID: PMC3787507
Chia, Poh H.	Chia PH, Li P, Shen K (2013) Cell biology in neuroscience: cellular and molecular mechanisms underlying presynapse formation. J Cell Biol 203:11-22 PMCID: PMC3798257
Chia, Poh H.	Chia PH, Patel MR, Wagner OI, Klopfenstein DR, Shen K (2013) Intramolecular regulation of presynaptic scaffold protein SYD-2/liprin-α Mol Cell Neurosci 56C:76-84 PMCID: PMC3930023
Farzampour, Zoya	Morland C, Nordengen K, Larsson M, Prolo LM, Farzampour Z, Reimer RJ, Gundersen V (2013) Vesicular uptake and exocytosis of L-aspartate is independent of sialin. FASEB J 27:1264-74 PMCID: PMC3574276
Ferenczi, Emily A.	Tye KM, Mirzabekov JJ, Warden MR, Ferenczi EA, Tsai HC, Finkelstein J, Kim SY, Adhikari A, Thompson KR, Andalman AS, Gunaydin LA, Witten IB, Deisseroth K (2013) Dopamine neurons modulate neural encoding and expression of depression-related behaviour. Nature 493:537-41 PMCID: PMC4160519
Figley, Matthew D.	Figley MD, Gitler AD (2013) Yeast genetic screen reveals novel therapeutic strategy for ALS. Rare Dis 1:e24420 PMCID: PMC3933050
Fisher, Yvette E.	Silies M, Gohl DM, Fisher YE, Freifeld L, Clark DA, Clandinin TR (2013) Modular use of peripheral input channels tunes motion-detecting circuitry. Neuron 79:111-27 PMCID: PMC3713415
Foo, Lynette C.	Chung WS, Clarke LE, Wang GX, Stafford BK, Sher A, Chakraborty C, Joung J, Foo LC, Thompson A, Chen C, Smith SJ, Barres BA (2013) Astrocytes mediate synapse elimination through MEGF10 and MERTK pathways. Nature 504:394-400 PMCID: PMC3969024
Grant, Jacqueline L.	Steinman L, Axtell RC, Barbieri D, Bhat R, Brownell SE, de Jong BA, Dunn SE, Grant JL, Han MH, Ho PP, Kuipers HF, Kurnellas MP, Ousman SS, Rothbard JB (2013) Piet Mondrian's trees and the evolution in understanding multiple sclerosis, Charcot Prize Lecture 2011. Mult Scler 19:5-14 PMCID: n/a
Grosenick, Logan M.	Chung K, Wallace J, Kim SY, Kalyanasundaram S, Andalman AS, Davidson TJ, Mirzabekov JJ, Zalocusky KA, Mattis J, Denisin AK, Pak S, Bernstein H, Ramakrishnan C, Grosenick L, Gradinaru V, Deisseroth K (2013) Structural and molecular interrogation of intact biological systems. Nature 497:332-7 PMCID: PMC4092167
Grosenick, Logan M.	Burns R, Roncal WG, Kleissas D, Lillaney K, Manavalan P, Perlman E, Berger DR, Bock DD, Chung K, Grosenick L, Kasthuri N, Weiler NC, Deisseroth K, Kazhdan M, Lichtman J, Reid RC, Smith SJ, Szalay AS, Vogelstein JT, Vogelstein RJ (2013) The Open Connectome Project Data Cluster: Scalable Analysis and Vision for High-Throughput Neuroscience. Sci Stat Database Manag : PMCID: PMC3881956
Guenthner, Casey J.	Guenthner CJ, Miyamichi K, Yang HH, Heller HC, Luo L (2013) Permanent genetic access to transiently active neurons via TRAP: targeted recombination in active populations. Neuron 78:773-84 PMCID: PMC3782391
Gunaydin, Lisa A.	Tye KM, Mirzabekov JJ, Warden MR, Ferenczi EA, Tsai HC, Finkelstein J, Kim SY, Adhikari A, Thompson KR, Andalman AS, Gunaydin LA, Witten IB, Deisseroth K (2013) Dopamine neurons modulate neural encoding and expression of depression-related behaviour. Nature 493:537-41 PMCID: PMC4160519
Joo, William J.	Shiau CE, Monk KR, Joo WJ, Talbot WS (2013) An Anti-inflammatory NOD-like Receptor Is Required for Microglia Development. Cell Rep 5:1342-52 PMCID: PMC3878655
Joo, William J.	Joo WJ, Sweeney LB, Liang L, Luo L (2013) Linking cell fate, trajectory choice, and target selection: genetic analysis of Sema-2b in olfactory axon targeting. Neuron 78:673-86 PMCID: PMC3727417
Kastner, David B.	Kastner DB, Baccus SA (2013) Spatial segregation of adaptation and predictive sensitization in retinal ganglion cells. Neuron 79:541-54 PMCID: PMC4046856
Kim, Christina K.	Kim SY, Adhikari A, Lee SY, Marshel JH, Kim CK, Mallory CS, Lo M, Pak S, Mattis J, Lim BK, Malenka RC, Warden MR, Neve R, Tye KM,Deisseroth K (2013) Diverging neural pathways assemble a behavioural state from separable features in anxiety. Nature 496:219-23PMCID: n/a
Kim, Sung-Yon	Tye KM, Mirzabekov JJ, Warden MR, Ferenczi EA, Tsai HC, Finkelstein J, Kim SY, Adhikari A, Thompson KR, Andalman AS, Gunaydin LA, Witten IB, Deisseroth K (2013) Dopamine neurons modulate neural encoding and expression of depression-related behaviour. Nature 493:537-41 PMCID: PMC4160519
Kim, Sung-Yon	Kim SY, Adhikari A, Lee SY, Marshel JH, Kim CK, Mallory CS, Lo M, Pak S, Mattis J, Lim BK, Malenka RC, Warden MR, Neve R, Tye KM, Deisseroth K (2013) Diverging neural pathways assemble a behavioural state from separable features in anxiety. Nature 496:219-23 PMCID: n/a
Kim, Sung-Yon	Chung K, Wallace J, Kim SY, Kalyanasundaram S, Andalman AS, Davidson TJ, Mirzabekov JJ, Zalocusky KA, Mattis J, Denisin AK, Pak S, Bernstein H, Ramakrishnan C, Grosenick L, Gradinaru V, Deisseroth K(2013) Structural and molecular interrogation of intact biological systems. Nature 497:332-7 PMCID: PMC4092167
Li, Li	Sigdel TK, Shoemaker LD, Chen R, Li L, Butte AJ, Sarwal MM, Steinberg GK (2013) Immune response profiling identifies autoantibodies specific to Moyamoya patients. Orphanet J Rare Dis 8:45 PMCID: PMC3648437
Lim, Jana P.	Jee C, Lee J, Lim JP, Parry D, Messing RO, McIntire SL (2013) SEB-3, a CRF receptor-like GPCR, regulates locomotor activity states, stress responses and ethanol tolerance in Caenorhabditis elegans. Genes Brain Behav 12:250-62 PMCID: PMC3848202
Lim, Jana P.	Lim JP, Brunet A (2013) Bridging the transgenerational gap with epigenetic memory. Trends Genet 29:176-86 PMCID: PMC3595609
Mallory, Caitlin S.	Kim SY, Adhikari A, Lee SY, Marshel JH, Kim CK, Mallory CS, Lo M, Pak S, Mattis J, Lim BK, Malenka RC, Warden MR, Neve R, Tye KM,Deisseroth K (2013) Diverging neural pathways assemble a behavioural state from separable features in anxiety. Nature 496:219-23 PMCID: n/a
Mattis, Joanna H.	Kim SY, Adhikari A, Lee SY, Marshel JH, Kim CK, Mallory CS, Lo M, Pak S, Mattis J, Lim BK, Malenka RC, Warden MR, Neve R, Tye KM, Deisseroth K (2013) Diverging neural pathways assemble a behavioural state from separable features in anxiety. Nature 496:219-23 PMCID: n/a
Mattis, Joanna H.	Chung K, Wallace J, Kim SY, Kalyanasundaram S, Andalman AS, Davidson TJ, Mirzabekov JJ, Zalocusky KA, Mattis J, Denisin AK, Pak S, Bernstein H, Ramakrishnan C, Grosenick L, Gradinaru V, Deisseroth K(2013) Structural and molecular interrogation of intact biological systems. Nature 497:332-7 PMCID: PMC4092167
Mattis, Joanna H.	Stamatakis AM, Jennings JH, Ung RL, Blair GA, Weinberg RJ, Neve RL, Boyce F, Mattis J, Ramakrishnan C,Deisseroth K, Stuber GD (2013) A unique population of ventral tegmental area neurons inhibits the lateral habenula to promote reward. Neuron 80:1039-53 PMCID: PMC3873746
Mosher, Kira L.	Lucin KM, O'Brien CE, Bieri G, Czirr E, Mosher KI, Abbey RJ, Mastroeni DF, Rogers J, Spencer B, Masliah E, Wyss-Coray T (2013) Microglial beclin 1 regulates retromer trafficking and phagocytosis and is impaired in Alzheimer's disease. Neuron 79:873-86 PMCID: PMC3779465
Nechvatal, Jordan M.	Nechvatal JM, Lyons DM (2013) Coping changes the brain. Front Behav Neurosci 7:13 PMCID: PMC3579178
O'Shea, Daniel J.	Ozden I, Wang J, Lu Y, May T, Lee J, Goo W, O'Shea DJ, Kalanithi P, Diester I, Diagne M, Deisseroth K, Shenoy KV, Nurmikko AV (2013) A coaxial optrode as multifunction write-read probe for optogenetic studies in non-human primates. J Neurosci Methods 219:142-54 PMCID: PMC3789534
Panagiotakos, Georgi	Yucel G, Altindag B, Gomez-Ospina N, Rana A, Panagiotakos G, Lara MF, Dolmetsch R, Oro AE (2013) State-dependent signaling by Cav1.2 regulates hair follicle stem cell function. Genes Dev 27:1217-22 PMCID: PMC3690395
Panagiotakos, Georgi	Gomez-Ospina N, Panagiotakos G, Portmann T, Pasca SP, Rabah D, Budzillo A, Kinet JP, Dolmetsch RE(2013) A promoter in the coding region of the calcium channel gene CACNA1C generates the transcription factor CCAT. PLoS One 8:e60526 PMCID: PMC3628902
Pradhan, Suraj S.	Pradhan S, Andreasson K (2013) Commentary: Progressive inflammation as a contributing factor to early development of Parkinson's disease. Exp Neurol 241:148-55 PMCID: n/a
Pradhan, Suraj S.	Johansson JU, Pradhan S, Lokteva LA, Woodling NS, Ko N, Brown HD, Wang Q, Loh C, Cekanaviciute E,Buckwalter M, Manning-Bog AB, Andreasson KI (2013) Suppression of inflammation with conditional deletion of the prostaglandin E2 EP2 receptor in macrophages and brain microglia. J Neurosci 33:16016-32 PMCID: PMC3787507
Prolo, Laura M.	Morland C, Nordengen K, Larsson M, Prolo LM, Farzampour Z, Reimer RJ, Gundersen V (2013) Vesicular uptake and exocytosis of L-aspartate is independent of sialin. FASEB J 27:1264-74 PMCID: PMC3574276
Rauschecker, Andreas	Yeatman JD, Rauschecker AM, Wandell BA (2013) Anatomy of the visual word form area: adjacent cortical circuits and long-range white matter connections. Brain Lang 125:146-55 PMCID: PMC3432298
Rauschecker, Andreas	Winawer J, Kay KN, Foster BL, Rauschecker AM, Parvizi J, Wandell BA (2013) Asynchronous Broadband Signals Are the Principal Source of the BOLD Response in Human Visual Cortex. Curr Biol 23:1145-53 PMCID: PMC3710543
Rauschecker, Andreas	Chen J, Dastjerdi M, Foster BL, Larocque KF, Rauschecker AM, Parvizi J, Wagner AD (2013) Human hippocampal increases in low-frequency power during associative prediction violations. Neuropsychologia : PMCID: PMC3805697
Rinaldi, Jacob M.	Nguyen-Vu TD, Kimpo RR, Rinaldi JM, Kohli A, Zeng H, Deisseroth K, Raymond JL (2013) Cerebellar Purkinje cell activity drives motor learning. Nat Neurosci 16:1734-6 PMCID: PMC3966616
Sacchet, Matthew D.	Kerr CE, Sacchet MD, Lazar SW, Moore CI, Jones SR (2013) Mindfulness starts with the body: somatosensory attention and top-down modulation of cortical alpha rhythms in mindfulness meditation. Front Hum Neurosci 7:12 PMC3570934
Sacchet, Matthew D.	Sacchet MD, Knutson B (2013) Spatial smoothing systematically biases the localization of reward-related brain activity. Neuroimage 66:270-7 PMC3618861
Sacchet, Matthew D.	Capecelatro MR, Sacchet MD, Hitchcock PF, Miller SM, Britton WB (2013) Major depression duration reduces appetitive word use: an elaborated verbal recall of emotional photographs. J Psychiatr Res 47:809-15 PMC3732741
Sloan, Steven A.	Sloan SA, Barres BA (2013) Glia as primary drivers of neuropathology in TDP-43 proteinopathies. Proc Natl Acad Sci U S A 110:4439-40 PMCID: PMC3607032
Squire, Ryan F.	Squire RF, Noudoost B, Schafer RJ, Moore T (2013) Prefrontal contributions to visual selective attention. Annu Rev Neurosci 36:451-66 PMCID: n/a
Stavisky, Sergey	Kao JC, Nuyujukian P, Stavisky S, Ryu SI, Ganguli S, Shenoy KV (2013) Investigating the role of firing-rate normalization and dimensionality reduction in brain-machine interface robustness. Conf Proc IEEE Eng Med Biol Soc 2013:293-8 PMCID: n/a
Toyoda, Izumi	Toyoda I, Bower MR, Leyva F, Buckmaster PS (2013) Early Activation of Ventral Hippocampus and Subiculum during Spontaneous Seizures in a Rat Model of Temporal Lobe Epilepsy. J Neurosci 33:11100-15 PMCID: PMC3718374
Vidal, George	Djurisic M, Vidal GS, Mann M, Aharon A, Kim T, Ferrao Santos A, Zuo Y, Hübener M, Shatz CJ (2013) PirB regulates a structural substrate for cortical plasticity. Proc Natl Acad Sci U S A 110:20771-6 PMCID: PMC3870667
Vidal, George	Kim T, Vidal GS, Djurisic M, William CM, Birnbaum ME, Garcia KC, Hyman BT, Shatz CJ (2013) Human LilrB2 is a β-amyloid receptor and its murine homolog PirB regulates synaptic plasticity in an Alzheimer's model. Science 341:1399-404 PMCID: PMC3853120
Weiler, Nicholas J.	Burns R, Roncal WG, Kleissas D, Lillaney K, Manavalan P, Perlman E, Berger DR, Bock DD, Chung K,Grosenick L, Kasthuri N, Weiler NC, Deisseroth K, Kazhdan M, Lichtman J, Reid RC, Smith SJ, Szalay AS, Vogelstein JT, Vogelstein RJ (2013) The Open Connectome Project Data Cluster: Scalable Analysis and Vision for High-Throughput Neuroscience. Sci Stat Database Manag : PMCID: PMC3881956
Woodling, Nathaniel S.	Johansson JU, Pradhan S, Lokteva LA, Woodling NS, Ko N, Brown HD, Wang Q, Loh C, Cekanaviciute E,Buckwalter M, Manning-Bog AB, Andreasson KI (2013) Suppression of inflammation with conditional deletion of the prostaglandin E2 EP2 receptor in macrophages and brain microglia. J Neurosci 33:16016-32 PMCID: PMC3787507
Yang, Helen H.	Guenthner CJ, Miyamichi K, Yang HH, Heller HC, Luo L(2013) Permanent genetic access to transiently active neurons via TRAP: targeted recombination in active populations. Neuron 78:773-84 PMCID: PMC3782391
Yee, Ada X.	Yu X, Wang G, Gilmore A, Yee AX, Li X, Xu T, Smith SJ,Chen L, Zuo Y (2013) Accelerated experience-dependent pruning of cortical synapses in ephrin-A2 knockout mice. Neuron 80:64-71 PMCID: PMC3792401
Zalocusky, Kelly A	Chung K, Wallace J, Kim SY, Kalyanasundaram S, Andalman AS, Davidson TJ, Mirzabekov JJ, Zalocusky KA, Mattis J, Denisin AK, Pak S, Bernstein H, Ramakrishnan C, Grosenick L, Gradinaru V, Deisseroth K(2013) Structural and molecular interrogation of intact biological systems. Nature 497:332-7 PMCID: PMC4092167
Zalocusky, Kelly A	Zalocusky K, Deisseroth K (2013) Optogenetics in the behaving rat: integration of diverse new technologies in a vital animal model. Optogenetics 1:1-17 PMCID: n/a

2012

Graduate Student	Publication
Adelson, Jaimie D.	Adelson JD, Barreto GE, Xu L, Kim T, Brott BK, Ouyang YB, Naserke T, Djurisic M, Xiong X, Shatz CJ,Giffard RG (2012) Neuroprotection from stroke in the absence of MHCI or PirB. Neuron 73:1100-7 PMCID: PMC3314229
Arons, Magali H.	Arons MH, Thynne CJ, Grabrucker AM, Li D, Schoen M, Cheyne JE, Boeckers TM, Montgomery JM, Garner CC (2012) Autism-associated mutations in ProSAP2/Shank3 impair synaptic transmission and neurexin-neuroligin-mediated transsynaptic signaling. J Neurosci 32:14966-78 PMCID: PMC3752148
Arroyo, Sergio E.	Bennett C, Arroyo S, Berns D, Hestrin S (2012) Mechanisms Generating Dual-Component Nicotinic EPSCs in Cortical Interneurons. J Neurosci 32:17287-96 PMCID: PMC3525105
Arroyo, Sergio E.	Arroyo S, Bennett C, Aziz D, Brown SP, Hestrin S (2012) Prolonged disynaptic inhibition in the cortex mediated by slow, non-α7 nicotinic excitation of a specific subset of cortical interneurons. J Neurosci 32:3859-64 PMCID: PMC3320796
Bennett, Corbett C.	Bennett C, Arroyo S, Berns D, Hestrin S (2012) Mechanisms Generating Dual-Component Nicotinic EPSCs in Cortical Interneurons. J Neurosci 32:17287-96 PMCID: PMC3525105
Bennett, Corbett C.	Arroyo S, Bennett C, Aziz D, Brown SP, Hestrin S (2012) Prolonged disynaptic inhibition in the cortex mediated by slow, non-α7 nicotinic excitation of a specific subset of cortical interneurons. J Neurosci 32:3859-64 PMCID: PMC3320796
Bennett, Mariko L.	Howe ML, Barres BA (2012) A novel role for microglia in minimizing excitotoxicity. BMC Biol 10:7 PMCID: PMC3269391
Bennett, Mariko L.	Allen NJ, Bennett ML, Foo LC, Wang GX, Chakraborty C, Smith SJ, Barres BA (2012) Astrocyte glypicans 4 and 6 promote formation of excitatory synapses via GluA1 AMPA receptors. Nature 486:410-4 PMCID: PMC3383085
Betley, Michael J.	Lammel S, Lim BK, Ran C, Huang KW, Betley MJ, Tye KM, Deisseroth K, Malenka RC (2012) Input-specific control of reward and aversion in the ventral tegmental area. Nature 491:212-7 PMCID: PMC3493743
Bieri, Gregor	Mosher KI, Andres RH, Fukuhara T, Bieri G, Hasegawa-Moriyama M, He Y, Guzman R, Wyss-Coray T(2012) Neural progenitor cells regulate microglia functions and activity. Nat Neurosci 15:1485-7 PMCID: PMC3495979
Bryant, Astra S.	Lacey CJ, Bryant A, Brill J, Huguenard JR (2012) Enhanced NMDA receptor-dependent thalamic excitation and network oscillations in stargazer mice. J Neurosci 32:11067-81 PMCID: PMC3430525
Cekanaviciute, Egle	Han J, Pollak J, Yang T, Siddiqui MR, Doyle KP, Taravosh-Lahn K, Cekanaviciute E, Han A, Goodman JZ, Jones B, Jing D, Massa SM, Longo FM, Buckwalter MS (2012) Delayed administration of a small molecule tropomyosin-related kinase B ligand promotes recovery after hypoxic-ischemic stroke. Stroke 43:1918-24 PMCID: PMC3383889
Chia, Poh H.	Chia PH, Patel MR, Shen K (2012) NAB-1 instructs synapse assembly by linking adhesion molecules and F-actin to active zone proteins. Nat Neurosci 15:234-42 NIHMSID 336323
Fenno, Lief E.	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O, Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Ferenczi, Emily A.	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O, Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Ferenczi, Emily A.	Ferenczi EA, Deisseroth K (2012) When the electricity (and the lights) go out: transient changes in excitability. Nat Neurosci 15:1058-60 PMCID: n/a
Figley, Matthew D.	Armakola M, Higgins MJ, Figley MD, Barmada SJ, Scarborough EA, Diaz Z, Fang X, Shorter J, Krogan NJ, Finkbeiner S, Farese RV,Gitler AD (2012) Inhibition of RNA lariat debranching enzyme suppresses TDP-43 toxicity in ALS disease models. Nat Genet 44:1302-9 PMCID: PMC3510335
Foo, Lynette C.	Tien AC, Tsai HH, Molofsky AV, McMahon M, Foo LC, Kaul A, Dougherty JD, Heintz N, Gutmann DH, Barres BA, Rowitch DH (2012) Regulated temporal-spatial astrocyte precursor cell proliferation involves BRAF signalling in mammalian spinal cord. Development 139:2477-87 PMCID: PMC3383225
Foo, Lynette C.	Zamanian JL, Xu L, Foo LC, Nouri N, Zhou L, Giffard RG, Barres BA (2012) Genomic analysis of reactive astrogliosis. J Neurosci 32:6391-410 PMCID: PMC3480225
Foo, Lynette C.	Allen NJ, Bennett ML, Foo LC, Wang GX, Chakraborty C, Smith SJ, Barres BA (2012) Astrocyte glypicans 4 and 6 promote formation of excitatory synapses via GluA1 AMPA receptors. Nature 486:410-4 PMCID: PMC3383085
Grant, Jacqueline L.	Grant JL, Ghosn EE, Axtell RC, Herges K, Kuipers HF, Woodling NS, Andreasson K, Herzenberg LA, Herzenberg LA, Steinman L (2012) Reversal of paralysis and reduced inflammation from peripheral administration of β-amyloid in TH1 and TH17 versions of experimental autoimmune encephalomyelitis. Sci Transl Med 4:145ra105 PMCID: PMC3677069
Grosenick, Logan M.	Anikeeva P, Andalman AS, Witten I, Warden M, Goshen I, Grosenick L, Gunaydin LA, Frank LM,Deisseroth K (2012) Optetrode: a multichannel readout for optogenetic control in freely moving mice. Nat Neurosci 15:163-70 PMCID: PMC4164695
Gunaydin, Lisa A.	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O, Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Gunaydin, Lisa A.	Anikeeva P, Andalman AS, Witten I, Warden M, Goshen I, Grosenick L, Gunaydin LA, Frank LM,Deisseroth K (2012) Optetrode: a multichannel readout for optogenetic control in freely moving mice. Nat Neurosci 15:163-70 PMCID: PMC4164695
Hsu, Andrew D.	Wang W, Lundin VF,Millan I, Zeng A, Chen X, Yang J, Allen E, Chen N, Bach G, Hsu A, Maloney MT, Kapur M, Yang Y(2012) Nemitin, a novel map8/map1s interacting protein with wd40 repeats. PLoS One 7:e33094 PMCID: PMC3327699
Joo, William J.	Tasic B, Miyamichi K, Hippenmeyer S, Dani VS, Zeng H, Joo W, Zong H, Chen-Tsai Y, Luo L (2012) Extensions of MADM (Mosaic Analysis with Double Markers) in Mice. PLoS One 7:e33332 PMCID: PMC3314016
Kapur, Mridu	Wang W, Lundin VF, Millan I, Zeng A, Chen X, Yang J, Allen E, Chen N, Bach G, Hsu A, Maloney MT, Kapur M, Yang Y (2012) Nemitin, a novel map8/map1s interacting protein with wd40 repeats. PLoS One 7:e33094 PMCID: PMC3327699
Mattis, Joanna H.	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O, Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Millan, Ivan	Liu S, Sawada T, Lee S, Yu W, Silverio G, Alapatt P, Millan I, Shen A, Saxton W, Kanao T, Takahashi R, Hattori N, Imai Y,Lu B (2012) Parkinson's Disease-Associated Kinase PINK1 Regulates Miro Protein Level and Axonal Transport of Mitochondria. PLoS Genet 8:e1002537 PMCID: PMC3291531
Millan, Ivan	Wang W, Lundin VF, Millan I, Zeng A, Chen X, Yang J, Allen E, Chen N, Bach G, Hsu A, Maloney MT, Kapur M, Yang Y (2012) Nemitin, a novel map8/map1s interacting protein with wd40 repeats. PLoS One 7:e33094 PMCID: PMC3327699
Mosher, Kira L.	Mosher KI, Andres RH, Fukuhara T, Bieri G, Hasegawa-Moriyama M, He Y, Guzman R, Wyss-Coray T(2012) Neural progenitor cells regulate microglia functions and activity. Nat Neurosci 15:1485-7 PMCID: PMC3495979
O'Shea, Daniel J.	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O,Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Prakash, Rohit	Prakash R, Yizhar O, Grewe B, Ramakrishnan C, Wang N, Goshen I, Packer AM, Peterka DS, Yuste R,Schnitzer MJ, Deisseroth K (2012) Two-photon optogenetic toolbox for fast inhibition, excitation and bistable modulation. Nat Methods 9(12):1171-9 PMCID: n/a
Prakash, Rohit	Packer AM, Peterka DS, Hirtz JJ, Prakash R, Deisseroth K, Yuste R (2012) Two-photon optogenetics of dendritic spines and neural circuits. Nat Methods 9:1202-5 PMCID: PMC3518588
Prakash, Rohit	Mattis J, Tye KM, Ferenczi EA, Ramakrishnan C, O'Shea DJ, Prakash R, Gunaydin LA, Hyun M, Fenno LE, Gradinaru V, Yizhar O, Deisseroth K (2012) Principles for applying optogenetic tools derived from direct comparative analysis of microbial opsins. Nat Methods 9:159-72 PMCID: PMC4165888
Rauschecker, Andreas	Wandell BA, Rauschecker AM, Yeatman JD (2012) Learning to see words. Annu Rev Psychol 63:31-53 PMCID: PMC3228885
Rauschecker, Andreas	Rauschecker AM, Bowen RF, Parvizi J, Wandell BA (2012) Position sensitivity in the visual word form area. Proc Natl Acad Sci U S A 109:E1568-77 PMCID: PMC3386120
Sacchet, Matthew D.	Roberts-Wolfe D, Sacchet MD, Hastings E, Roth H, Britton W (2012) Mindfulness training alters emotional memory recall compared to active controls: support for an emotional information processing model of mindfulness. Front Hum Neurosci 6:15 PMC3277910
Sacchet, Matthew D.	Wu CC, Sacchet MD, Knutson B (2012) Toward an affective neuroscience account of financial risk taking. Front Neurosci 6:159 PMC3487049
Sacchet, Matthew D.	Sacchet MD, Mellinger J, Sitaram R, Braun C, Birbaumer N, Fetz E (2012) Volitional control of neuromagnetic coherence. Front Neurosci 6:189 PMC3530077
Stavisky, Sergey	Sussillo D, Nuyujukian P, Fan JM, Kao JC, Stavisky SD, Ryu S, Shenoy K (2012) A recurrent neural network for closed-loop intracortical brain-machine interface decoders. J Neural Eng 9:026027 PMCID: PMC3638090
Steinmetz, Nicholas A.	Steinmetz NA, Moore T (2012) Lumping and splitting the neural circuitry of visual attention. Neuron 73:410-2 N/A: Commentary article w/ no NIH or other funding
Wang, Tzu-Chieh	Wang JT, Barres BA (2012) Axon Degeneration: Where the Wld(s) Things Are. Curr Biol 22(7):R221-3 PMCID: PMC4449840
Wang, Tzu-Chieh	Wang JT, Medress ZA, Barres BA (2012) Axon degeneration: Molecular mechanisms of a self-destruction pathway. J Cell Biol 196:7-18 PMCID: PMC3255986
Weiler, Nicholas J.	O'Rourke NA, Weiler NC, Micheva KD, Smith SJ (2012) Deep molecular diversity of mammalian synapses: why it matters and how to measure it. Nat Rev Neurosci 13:365-79 PMCID: PMC3670986
Woodling, Nathaniel S.	Shi J, Wang Q, Johansson JU, Liang X, Woodling NS, Priyam P, Loui TM, Merchant M, Breyer RM, Montine TJ, Andreasson K (2012) Inflammatory prostaglandin E(2) signaling in a mouse model of Alzheimer disease. Ann Neurol 72:788-98 PMCID: PMC3509238
Woodling, Nathaniel S.	Grant JL, Ghosn EE, Axtell RC, Herges K, Kuipers HF, Woodling NS, Andreasson K, Herzenberg LA, Herzenberg LA, Steinman L (2012) Reversal of paralysis and reduced inflammation from peripheral administration of β-amyloid in TH1 and TH17 versions of experimental autoimmune encephalomyelitis. Sci Transl Med 4:145ra105 PMCID: PMC3677069

2011

Graduate Student	Publication
Alfa, Ronald W.	Bader PL, Faizi M, Kim LH, Owen SF, Tadross MR, Alfa RW, Bett GC, Tsien RW, Rasmusson RL, Shamloo M (2011) Mouse model of Timothy syndrome recapitulates triad of autistic traits. Proc Natl Acad Sci U S A 108:15432-7 PMCID: PMC3174658
Arons, Magali H.	Grabrucker AM, Rowan M, Garner CC (2011) Brain-Delivery of Zinc-Ions as Potential Treatment for Neurological Diseases: Mini Review. Drug Deliv Lett 1:13-23 PMCID: PMC3220161
Arons, Magali H.	Grabrucker AM, Knight MJ, Proepper C, Bockmann J, Joubert M, Rowan M, Nienhaus GU, Garner CC, Bowie JU, Kreutz MR, Gundelfinger ED, Boeckers TM (2011) Concerted action of zinc and ProSAP/Shank in synaptogenesis and synapse maturation. EMBO J 30:569-81 PMCID: PMC3034012
Arons, Magali H.	Grabrucker AM, Schmeisser MJ, Udvardi PT, Arons M, Schoen M, Woodling NS, Andreasson KI, Hof PR, Buxbaum JD, Garner CC, Boeckers TM (2011) Amyloid beta protein-induced zinc sequestration leads to synaptic loss via dysregulation of the ProSAP2/Shank3 scaffold. Mol Neurodegener 6:65 PMCID: PMC3189132
Bryant, Astra S.	Paz JT, Bryant AS, Peng K, Fenno L, Yizhar O, Frankel WN, Deisseroth K, Huguenard JR (2011) A new mode of corticothalamic transmission revealed in the Gria4(-/-) model of absence epilepsy. Nat Neurosci 14:1167-73 PMCID: PMC3308017
Fenno, Lief E.	Fenno L, Yizhar O, Deisseroth K (2011) The development and application of optogenetics. Annu Rev Neurosci 34:389-412 PMCID: n/a
Fenno, Lief E.	Zhang F, Vierock J, Yizhar O, Fenno LE, Tsunoda S, Kianianmomeni A, Prigge M, Berndt A, Cushman J, Polle J, Magnuson J, Hegemann P, Deisseroth K (2011) The microbial opsin family of optogenetic tools. Cell 147:1446-57 PMCID: PMC4166436
Fenno, Lief E.	Yizhar O, Fenno L, Zhang F, Hegemann P, Deisseroth K (2011) Microbial opsins: a family of single-component tools for optical control of neural activity. Cold Spring Harb Protoc 2011:top102 PMCID: n/a
Fenno, Lief E.	Paralikar K, Cong P; Yizhar O, Fenno LE, Santa W, Nielsen C, Dinsmoor D, Hocken B, Munns GO, Giftakis J, Deisseroth K, Denison T (2011) An Implantable Optical Stimulation Delivery System for Actuating an Excitable Biosubstrate IEEE Journal of Solid-State Circuits 46(1):321-332 PMCID: n/a
Fenno, Lief E.	Yizhar O, Fenno LE, Prigge M, Schneider F, Davidson TJ, O'Shea DJ, Sohal VS, Goshen I, Finkelstein J, Paz JT, Stehfest K, Fudim R, Ramakrishnan C, Huguenard JR, Hegemann P, Deisseroth K (2011) Neocortical excitation/inhibition balance in information processing and social dysfunction. Nature 477:171-8 PMCID: PMC4155501
Fenno, Lief E.	Tye KM, Prakash R, Kim S-Y, Fenno LE, Grosenick L, Zarabi H, Thompson KR, Gradinaru V, Ramakrishnan C, Deisseroth K (2011) Amygdala circuitry mediating reversible and bidirectional control of anxiety. Nature 471:358-62 PMCID: PMC3154022
Fenno, Lief E.	Paz JT, Bryant AS, Peng K, Fenno L, Yizhar O, Frankel WN, Deisseroth K, Huguenard JR (2011) A new mode of corticothalamic transmission revealed in the Gria4(-/-) model of absence epilepsy. Nat Neurosci 14:1167-73 PMCID: PMC3308017
Fenno, Lief E.	Yizhar O, Fenno LE, Davidson TJ, Mogri M, Deisseroth K (2011) Optogenetics in neural systems. Neuron 71:9-34 PMCID: n/a
Fenno, Lief E.	Byers B, Cord B, Nguyen HN, Schüle B, Fenno L, Lee PC, Deisseroth K, Langston JW, Pera RR, Palmer TD (2011) SNCA triplication Parkinson's patient's iPSC-derived DA neurons accumulate α-synuclein and are susceptible to oxidative stress. PLoS One 6:e26159 PMCID: PMC3217921
Foo, Lynette C.	Foo LC, Allen NJ, Bushong EA, Ventura PB, Chung WS, Zhou L, Cahoy JD, Daneman R, Zong H, Ellisman MH, Barres BA (2011) Development of a method for the purification and culture of rodent astrocytes. Neuron 71:799-811 PMCID: PMC3172573
Grosenick, Logan M.	Tye KM, Prakash R, Kim S-Y, Fenno LE, Grosenick L, Zarabi H, Thompson KR, Gradinaru V, Ramakrishnan C, Deisseroth K (2011) Amygdala circuitry mediating reversible and bidirectional control of anxiety. Nature 471:358-62 PMCID: PMC3154022
House, Patrick K.	House PK, Vyas A, Sapolsky R (2011) Predator cat odors activate sexual arousal pathways in brains of Toxoplasma gondii infected rats. PLoS One 6:e23277 PMCID: PMC3157360
Joo, William J.	Sweeney LB, Chou YH, Wu Z, Joo W, Komiyama T, Potter CJ, Kolodkin AL, Garcia KC, Luo L (2011) Secreted semaphorins from degenerating larval ORN axons direct adult projection neuron dendrite targeting. Neuron 72:734-47 PMCID: PMC3365565
Kastner, David B.	Kastner DB, Baccus SA (2011) Coordinated dynamic encoding in the retina using opposing forms of plasticity. Nat Neurosci 14:1317-22 PMCID: PMC3359137
Kim, Sung-Yon	Tye KM, Prakash R, Kim S-Y, Fenno LE, Grosenick L, Zarabi H, Thompson KR, Gradinaru V, Ramakrishnan C, Deisseroth K (2011) Amygdala circuitry mediating reversible and bidirectional control of anxiety. Nature 471:358-62 PMCID: PMC3154022
Lee, Christine K	Lee CK, Huguenard JR (2011) Martinotti cells: community organizers. Neuron 69:1042-5 PMCID: PMC3068616
Li, Li	Yoo AS, Sun AX, Li L, Shcheglovitov A, Portmann T, Li Y, Lee-Messer C, Dolmetsch RE, Tsien RW, Crabtree GR (2011) MicroRNA-mediated conversion of human fibroblasts to neurons. Nature 476:228-31 PMCID: PMC3348862
Li, Li	Groth RD, Lindskog M, Thiagarajan TC, Li L, Tsien RW (2011) Beta Ca2+/CaM-dependent kinase type II triggers upregulation of GluA1 to coordinate adaptation to synaptic inactivity in hippocampal neurons. Proc Natl Acad Sci U S A 108:828-33 PMCID: PMC3021030
Lim, Jana P.	Greer EL, Maures TJ, Ucar D, Hauswirth AG, Mancini E, Lim JP, Benayoun BA, Shi Y,Brunet A (2011) Transgenerational epigenetic inheritance of longevity in Caenorhabditis elegans. Nature 479:365-71 PMCID: PMC3368121
Mattis, Joanna H.	Berndt A, Schoenenberger P, Mattis J, Tye KM, Deisseroth K, Hegemann P, Oertner TG (2011) High-efficiency channelrhodopsins for fast neuronal stimulation at low light levels. Proc Natl Acad Sci U S A 108:7595-600 PMCID: PMC3088623
Mosher, Kira L.	Villeda SA, Luo J, Mosher KI, Zou B, Britschgi M, Bieri G, Stan TM, Fainberg N, Ding Z, Eggel A, Lucin KM, Czirr E, Park JS, Couillard-Després S, Aigner L, Li G, Peskind ER, Kaye JA, Quinn JF, Galasko DR, Xie XS,Rando TA, Wyss-Coray T (2011) The ageing systemic milieu negatively regulates neurogenesis and cognitive function. Nature 477:90-4 PMCID: PMC3170097
O'Shea, Daniel J.	Yizhar O, Fenno LE, Prigge M, Schneider F, Davidson TJ, O'Shea DJ, Sohal VS, Goshen I, Finkelstein J, Paz JT, Stehfest K, Fudim R, Ramakrishnan C, Huguenard JR, Hegemann P, Deisseroth K (2011) Neocortical excitation/inhibition balance in information processing and social dysfunction. Nature 477:171-8 PMCID: PMC4155501
Panagiotakos, Georgi	Osterhout JA, Josten N, Yamada J, Pan F, Wu SW, Nguyen PL, Panagiotakos G, Inoue YU, Egusa SF, Volgyi B, Inoue T, Bloomfield SA, Barres BA, Berson DM, Feldheim DA, Huberman AD (2011) Cadherin-6 mediates axon-target matching in a non-image-forming visual circuit. Neuron 71:632-9 PMCID: PMC3513360
Pollen, Alexander A.	McLean CY, Reno PL, Pollen AA, Bassan AI, Capellini TD, Guenther C, Indjeian VB, Lim X, Menke DB, Schaar BT, Wenger AM, Bejerano G, Kingsley DM (2011) Human-specific loss of regulatory DNA and the evolution of human-specific traits. Nature 471:216-9 PMCID: PMC3071156
Prakash, Rohit	Abilez OJ, Wong J, Prakash R, Deisseroth K, Zarins CK, Kuhl E (2011) Multiscale computational models for optogenetic control of cardiac function. Biophys J 101:1326-34 PMCID: PMC3177076
Prakash, Rohit	Goshen I, Brodsky M, Prakash R, Wallace J, Gradinaru V, Ramakrishnan C, Deisseroth K (2011) Dynamics of retrieval strategies for remote memories. Cell 147:678-89 PMCID: n/a
Prakash, Rohit	Tye KM, Prakash R, Kim S-Y, Fenno LE, Grosenick L, Zarabi H, Thompson KR, Gradinaru V, Ramakrishnan C, Deisseroth K (2011) Amygdala circuitry mediating reversible and bidirectional control of anxiety. Nature 471:358-62 PMCID: PMC3154022
Rauschecker, Andreas	Nune G, Winawer J, Rauschecker AM, Dastjerdi M, Foster BL, Wandell B, Parvizi J (2011) Problem of signal contamination in interhemispheric dual-sided subdural electrodes. Epilepsia 52:e176-80 PMCID: PMC3644859
Rauschecker, Andreas	Rauschecker AM, Bowen RF, Perry LM, Kevan AM, Dougherty RF, Wandell BA (2011) Visual feature-tolerance in the reading network. Neuron 71:941-53 PMCID: PMC3180962
Rauschecker, Andreas	Rauschecker AM, Dastjerdi M, Weiner KS, Witthoft N, Chen J, Selimbeyoglu A, Parvizi J (2011) Illusions of visual motion elicited by electrical stimulation of human MT complex. PLoS One 6:e21798 PMCID: PMC3135604
Rauschecker, Andreas	Dastjerdi M, Foster BL, Nasrullah S, Rauschecker AM, Dougherty RF, Townsend JD, Chang C, Greicius MD,Menon V, Kennedy DP, Parvizi J (2011) Differential electrophysiological response during rest, self-referential, and non-self-referential tasks in human posteromedial cortex. Proc Natl Acad Sci U S A 108:3023-8 PMCID: PMC3041085
Selimbeyoglu, Aysel A.	Selimbeyoglu A, Keskin-Ergen Y, Demiralp T (2011) What if you are not sure? Electroencephalographic correlates of subjective confidence level about a decision. Clin Neurophysiol 123(6):1158-67 PMCID: n/a
Selimbeyoglu, Aysel A.	Rauschecker AM, Dastjerdi M, Weiner KS, Witthoft N, Chen J, Selimbeyoglu A, Parvizi J (2011) Illusions of visual motion elicited by electrical stimulation of human MT complex. PLoS One 6:e21798 PMCID: PMC3135604
Suarez-Mier, Gabriela B.	Taniguchi H, Anacker C, Suarez-Mier GB, Wang Q,Andreasson K (2011) Function of prostaglandin E2 EP receptors in the acute outcome of rodent hypoxic ischemic encephalopathy. Neurosci Lett 504:185-90 PMCID: PMC3210938
Vidal, George	Vidal Pérez -Treviño GS (2011) NKCC1 cotransporters: keeping an 'ion' them. J Physiol 589:781-2 PMCID: PMC3060356
Woodling, Nathaniel S.	Liang X, Lin L, Woodling NS, Wang Q, Anacker C, Pan T, Merchant M, Andreasson K (2011) Signaling via the prostaglandin E₂ receptor EP4 exerts neuronal and vascular protection in a mouse model of cerebral ischemia. J Clin Invest 121:4362-71 PMCID: PMC3204834
Woodling, Nathaniel S.	Grabrucker AM, Schmeisser MJ, Udvardi PT, Arons M, Schoen M, Woodling NS, Andreasson KI, Hof PR, Buxbaum JD, Garner CC, Boeckers TM (2011) Amyloid beta protein-induced zinc sequestration leads to synaptic loss via dysregulation of the ProSAP2/Shank3 scaffold. Mol Neurodegener 6:65 PMCID: PMC3189132
Zalocusky, Kelly A	Witten IB, Steinberg EE, Lee SY, Davidson TJ, Zalocusky KA, Brodsky M, Yizhar O, Cho SL, Gong S, Ramakrishnan C, Stuber GD, Tye KM, Janak PH, Deisseroth K (2011) Recombinase-driver rat lines: tools, techniques, and optogenetic application to dopamine-mediated reinforcement. Neuron 72:721-33 PMCID: PMC3282061

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