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{tip:title=Mendeley!}We are maintaining the live 'official' list of ScanImage & Ephus citing/using papers on [Mendeley|http://www.mendeley.com/groups/1607163/scanimage-ephus/papers/]. Periodically we reproduce a snapshot of that list below. You may [join Mendeley|http://www.mendeley.com/] and then [_follow_ the ScanImage & Ephus group|http://www.mendeley.com/groups/1607163/scanimage-ephus/papers/] to be able to search the papers in the group, using either the web client or the [desktop client|http://www.mendeley.com/download-mendeley-desktop/?_section=footer].{tip}

{tip:title=Be Counted!}If you don't see on the list below a paper you've written, or know of, that uses ScanImage and/or Ephus, please [contact us\!|mailto:iyerv@janelia.hhmi.org?subject=\[ScanImage/Ephus Pubs\]] Note you can search the text below using your web browser's Find feature, e.g. Ctrl+F.{tip}

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_Snapshot: 2012-0206-2006_
Current total primary research publications: *202207*

!PubsByYear.jpg|height=400px!

1.  Li Y-T, Ma W-P, Pan C-J, Zhang LI, Tao HW: Broadening of cortical inhibition mediates developmental sharpening of orientation selectivity. _Journal of Neuroscience_ 2012 (in press).

2.  Odermatt B, Nikolaev A, Lagnado L: Encoding of luminance and contrast by linear and non-linear synapses in the retina. _Neuron_ 2012 (in press).

3.  Arttamangkul S, Lau EK, Lu H-W, Williams JT: Desensitization and Trafficking of mu-opioid Receptors in Locus Coeruleus Neurons: Modulation by Kinases. _Molecular pharmacology_ 2012, 81:348-55.

4.  Atallah BVV, Bruns W, Carandini M, Scanziani M: Parvalbumin-Expressing Interneurons Linearly Transform Cortical Responses to Visual Stimuli. _Neuron_ 2012, 73:159-170.

5.  Scott BB, Gardner T, Ji N, Fee MS, Lois C: Wandering Neuronal Migration in the Postnatal Vertebrate Forebrain. _Journal of Neuroscience_ 2012, 32:1436-1446.

6.  Viswanathan S, Bandyopadhyay S, Kao JPY, Kanold PO: Changing Microcircuits in the Subplate of the Developing Cortex. _Journal of Neuroscience_ 2012, 32:1589-1601.

7.  Wu X, Fu Y, Knott G, Lu J, Di Cristo G, Huang ZJ: GABA Signaling Promotes Synapse Elimination and Axon Pruning in Developing Cortical Inhibitory Interneurons. _Journal of Neuroscience_ 2012, 32:331-43.

8.  Xiong Q, Oviedo HV, Trotman LC, Zador AM: PTEN Regulation of Local and Long-Range Connections in Mouse Auditory Cortex. _Journal of Neuroscience_ 2012, 32:1643-1652.

9.  Acker CD, Yan P, Loew LM: Single-voxel recording of voltage transients in dendritic spines. _Biophysical journal_ 2011, 101:L11-3.

10.  Andermann ML, Kerlin AM, Roumis DK, Glickfeld LL, Reid RC: Functional Specialization of Mouse Higher Visual Cortical Areas. _Neuron_ 2011, 72:1025-1039.

11.  Baden T, Esposti F, Nikolaev A, Lagnado L: Spikes in Retinal Bipolar Cells Phase-Lock to Visual Stimuli with Millisecond Precision. _Current biology_ 2011, 21:1859-69.

12.  Bégin S, Burgoyne B, Mercier V, Villeneuve A, Vallée R, Côté D: Coherent anti-Stokes Raman scattering hyperspectral tissue imaging with a wavelength-swept system. _Biomedical optics express_ 2011, 2:1296-306.

13.  Berndt A, Schoenenberger P, Mattis J, Tye KM, Deisseroth K, Hegemann P, Oertner TG: High-efficiency channelrhodopsins for fast neuronal stimulation at low light levels. _Proceedings of the National Academy of Sciences of the United States of America_ 2011, 108:7595-600.

14.  Blumhagen F, Zhu P, Shum J, Schärer Y-PZ, Yaksi E, Deisseroth K, Friedrich RW: Neuronal filtering of multiplexed odour representations. _Nature_ 2011, 479:493-498.

15.  Bock DD, Lee W-CA, Kerlin AM, Andermann ML, Hood G, Wetzel AW, Yurgenson S, Soucy ER, Kim HS, Reid RC: Network anatomy and in vivo physiology of visual cortical neurons. _Nature_ 2011, 471:177-82.

16.  Borghuis BG, Tian L, Xu Y, Nikonov SS, Vardi N, Zemelman BV, Looger LL: Imaging light responses of targeted neuron populations in the rodent retina. _Journal of Neuroscience_ 2011, 31:2855-67.

17.  Chalifoux JR, Carter AG: Glutamate Spillover Promotes the Generation of NMDA Spikes. _Journal of Neuroscience_ 2011, 31:16435-16446.

18.  Chalifoux JR, Carter AG: GABAB receptor modulation of voltage-sensitive calcium channels in spines and dendrites. _The Journal of Neuroscience_ 2011, 31:4221-32.

19.  Christie JM, Chiu DN, Jahr CE: Ca(2+)-dependent enhancement of release by subthreshold somatic depolarization. _Nature neuroscience_ 2011, 14:62-8.

20.  De Pasquale R, Sherman SM: Synaptic Properties of Corticocortical Connections between the Primary and Secondary Visual Cortical Areas in the Mouse. _Journal of Neuroscience_ 2011, 31:16494-16506.

21.  Dreosti E, Esposti F, Baden T, Lagnado L: In vivo evidence that retinal bipolar cells generate spikes modulated by light. _Nature neuroscience_ 2011, 14:951-2.

22.  Hamad MIK, Ma-Högemeier Z-L, Riedel C, Conrads C, Veitinger T, Habijan T, Schulz J-N, Krause M, Wirth MJ, Hollmann M, et al.: Cell class-specific regulation of neocortical dendrite and spine growth by AMPA receptor splice and editing variants. _Development_ 2011, 138:4301-13.

23.  Herman MA, Nahir B, Jahr CE: Distribution of extracellular glutamate in the neuropil of hippocampus. _PloS one_ 2011, 6:e26501.

24.  Herzog E, Nadrigny F, Silm K, Biesemann C, Helling I, Bersot T, Steffens H, Schwartzmann R, Nagerl UV, El Mestikawy S, et al.: In Vivo Imaging of Intersynaptic Vesicle Exchange Using VGLUT1Venus Knock-In Mice. _Journal of Neuroscience_ 2011, 31:15544-15559.

25.  Hooks BM, Hires SA, Zhang Y-X, Huber D, Petreanu L, Svoboda K, Shepherd GMG: Laminar analysis of excitatory local circuits in vibrissal motor and sensory cortical areas. _PLoS biology_ 2011, 9:e1000572.

26.  Ikrar T, Olivas ND, Shi Y, Xu X: Mapping inhibitory neuronal circuits by laser scanning photostimulation. _Journal of visualized experiments?: JoVE_ 2011, \[no volume\].

27.  Kitamura K, Hausser M: Dendritic Calcium Signaling Triggered by Spontaneous and Sensory-Evoked Climbing Fiber Input to Cerebellar Purkinje Cells In Vivo. _Journal of Neuroscience_ 2011, 31:10847-10858.

28.  Kuhlman SJ, Tring E, Trachtenberg JT: Fast-spiking interneurons have an initial orientation bias that is lost with vision. _Nature neuroscience_ 2011, 14:1121-3.

29.  Lam Y-W, Sherman SM: Functional organization of the thalamic input to the thalamic reticular nucleus. _Journal of Neuroscience_ 2011, 31:6791-9.

30.  Lewis TL, Mao T, Arnold DB: A role for myosin VI in the localization of axonal proteins. _PLoS biology_ 2011, 9:e1001021.

31.  Lien AD, Scanziani M: In vivo Labeling of Constellations of Functionally Identified Neurons for Targeted in vitro Recordings. _Frontiers in neural circuits_ 2011, 5:16.

32.  Liu CC, Gao SS, Yuan T, Steele C, Puria S, Oghalai JS: Biophysical mechanisms underlying outer hair cell loss associated with a shortened tectorial membrane. _Journal of the Association for Research in Otolaryngology?: JARO_ 2011, 12:577-94.

33.  Mao T, Kusefoglu D, Hooks BM, Huber D, Petreanu L, Svoboda K: Long-Range Neuronal Circuits Underlying the Interaction between Sensory and Motor Cortex. _Neuron_ 2011, 72:111-123.

34.  Marshel JH, Garrett ME, Nauhaus I, Callaway EM: Functional Specialization of Seven Mouse Visual Cortical Areas. _Neuron_ 2011, 72:1040-1054.

35.  Mellios N, Sugihara H, Castro J, Banerjee A, Le C, Kumar A, Crawford B, Strathmann J, Tropea D, Levine SS, et al.: miR-132, an experience-dependent microRNA, is essential for visual cortex plasticity. _Nature neuroscience_ 2011, 14:1240-2.

36.  Middleton JW, Kiritani T, Pedersen C, Turner JG, Shepherd GMG, Tzounopoulos T: Mice with behavioral evidence of tinnitus exhibit dorsal cochlear nucleus hyperactivity because of decreased GABAergic inhibition. _Proceedings of the National Academy of Sciences_ 2011, 108:7601-6.

37.  Miri A, Daie K, Arrenberg AB, Baier H, Aksay E, Tank DW: Spatial gradients and multidimensional dynamics in a neural integrator circuit. _Nature Neuroscience_ 2011, 14:1150-9.

38.  Miri A, Daie K, Burdine RD, Aksay E, Tank DW: Regression-based identification of behavior-encoding neurons during large-scale optical imaging of neural activity at cellular resolution. _Journal of neurophysiology_ 2011, 105:964-80.

39.  Mostaço-Guidolin LB, Ko AC-T, Popescu DP, Smith MSD, Kohlenberg EK, Shiomi M, Major A, Sowa MG: Evaluation of texture parameters for the quantitative description of multimodal nonlinear optical images from atherosclerotic rabbit arteries. _Physics in medicine and biology_ 2011, 56:5319-34.

40.  Mostany R, Portera-Cailliau C: Absence of large-scale dendritic plasticity of layer 5 pyramidal neurons in peri-infarct cortex. _Journal of Neuroscience_ 2011, 31:1734-8.

41.  Nauhaus I, Nielsen KJ, Callaway EM: Nonlinearity of two-photon Ca2\+ imaging yields distorted measurements of tuning for V1 neuronal populations. _Journal of neurophysiology_ 2011, 107:923-36.

42.  Peñagarikano O, Abrahams BS, Herman EI, Winden KD, Gdalyahu A, Dong H, Sonnenblick LI, Gruver R, Almajano J, Bragin A, et al.: Absence of CNTNAP2 Leads to Epilepsy, Neuronal Migration Abnormalities, and Core Autism-Related Deficits. _Cell_ 2011, 147:235-246.

43.  Pugh JR, Jahr CE: NMDA Receptor Agonists Fail To Alter Release from Cerebellar Basket Cells. _Journal of Neuroscience_ 2011, 31:16550-16555.

44.  Pugh JR, Jahr CE: Axonal GABAA receptors increase cerebellar granule cell excitability and synaptic activity. _Journal of Neuroscience_ 2011, 31:565-74.

45.  Qiu S, Anderson CT, Levitt P, Shepherd GMG: Circuit-specific intracortical hyperconnectivity in mice with deletion of the autism-associated Met receptor tyrosine kinase. _Journal of Neuroscience_ 2011, 31:5855-64.

46.  Quillinan N, Lau EK, Virk M, von Zastrow M, Williams JT: Recovery from mu-opioid receptor desensitization after chronic treatment with morphine and methadone. _Journal of Neuroscience_ 2011, 31:4434-43.

47.  Ramsey AJ, Milenkovic M, Oliveira AF, Escobedo-Lozoya Y, Seshadri S, Salahpour A, Sawa A, Yasuda R, Caron MGMG: Impaired NMDA receptor transmission alters striatal synapses and DISC1 protein in an age-dependent manner. _Proceedings of the National Academy of Sciences_ 2011, 108:5795.

48.  Rosselet C, Fieschi M, Hugues S, Bureau I: Associative learning changes the organization of functional excitatory circuits targeting the supragranular layers of mouse barrel cortex. _Frontiers in neural circuits_ 2011, 4:126.

49.  Sedlacek M, Tipton PW, Brenowitz SD: Sustained firing of cartwheel cells in the dorsal cochlear nucleus evokes endocannabinoid release and retrograde suppression of parallel fiber synapses. _Journal of Neuroscience_ 2011, 31:15807-17.

50.  Sheets PL, Suter BA, Kiritani T, Chan CS, Surmeier DJ, Shepherd GMG: Corticospinal-specific HCN expression in mouse motor cortex: I(h)-dependent synaptic integration as a candidate microcircuit mechanism involved in motor control. _Journal of neurophysiology_ 2011, 106:2216-31.

51.  Truong TV, Supatto W, Koos DS, Choi JM, Fraser SE: Deep and fast live imaging with two-photon scanned light-sheet microscopy. _Nature Methods_ 2011, 8:757-60.

52.  Tuthill JC, Chiappe ME, Reiser MB: Neural correlates of illusory motion perception in Drosophila. _Proceedings of the National Academy of Sciences of the United States of America_ 2011, 108:9685-90.

53.  Vesuna S, Torres R, Levene MJ: Multiphoton fluorescence, second harmonic generation, and fluorescence lifetime imaging of whole cleared mouse organs. _Journal of biomedical optics_ 2011, 16:106009.

54.  Viaene AN, Petrof I, Sherman SM: Synaptic Properties of Thalamic Input to the Subgranular Layers of Primary Somatosensory and Auditory Cortices in the Mouse. _Journal of Neuroscience_ 2011, 31:12738-12747.

55.  Viaene AN, Petrof I, Sherman SM: Synaptic properties of thalamic input to layers 2/3 and 4 of primary somatosensory and auditory cortices. _Journal of neurophysiology_ 2011, 105:279-92.

56.  Viaene AN, Petrof I, Sherman SM: Properties of the thalamic projection from the posterior medial nucleus to primary and secondary somatosensory cortices in the mouse. _Proceedings of the National Academy of Sciences_ 2011, 108:18156-61.

57.  Woods GF, Oh WC, Boudewyn LC, Mikula SK, Zito K: Loss of PSD-95 Enrichment Is Not a Prerequisite for Spine Retraction. _Journal of Neuroscience_ 2011, 31:12129-12138.

58.  Andermann ML, Kerlin AM, Reid R: Chronic cellular imaging of mouse visual cortex during operant behavior and passive viewing. _Frontiers in Cellular Neuroscience_ 2010, 4.

59.  Anderson CT, Sheets PL, Kiritani T, Shepherd GMG: Sublayer-specific microcircuits of corticospinal and corticostriatal neurons in motor cortex. _Nature neuroscience_ 2010, 13:739-44.

60.  Chalifoux JR, Carter AG: GABAB receptors modulate NMDA receptor calcium signals in dendritic spines. _Neuron_ 2010, 66:101-13.

61.  Chiappe ME, Seelig JD, Reiser MB, Jayaraman V: Walking modulates speed sensitivity in Drosophila motion vision. _Current biology_ 2010, 20:1470-5.

62.  Ch'ng YH, Reid RC: Cellular imaging of visual cortex reveals the spatial and functional organization of spontaneous activity. _Frontiers in integrative neuroscience_ 2010, 4.

63.  Chowdhury TG, Jimenez JC, Bomar JM, Cruz-Martin A, Cantle JP, Portera-Cailliau C: Fate of cajal-retzius neurons in the postnatal mouse neocortex. _Frontiers in neuroanatomy_ 2010, 4:10.

64.  Christie LA, Russell TA, Xu J, Wood L, Shepherd GMG, Contractor A: AMPA receptor desensitization mutation results in severe developmental phenotypes and early postnatal lethality. _Proceedings of the National Academy of Sciences_ 2010, 107:9412-7.

65.  Cruz-Martín A, Crespo M, Portera-Cailliau C: Delayed stabilization of dendritic spines in fragile X mice. _The Journal of Neuroscience_ 2010, 30:7793-803.

66.  Dombeck DA, Harvey CD, Tian L, Looger LL, Tank DW: Functional imaging of hippocampal place cells at cellular resolution during virtual navigation. _Nature neuroscience_ 2010, 13:1433-40.

67.  Dorostkar MMM, Dreosti E, Odermatt B, Lagnado L: Computational processing of optical measurements of neuronal and synaptic activity in networks. _Journal of neuroscience methods_ 2010, 188:141-50.

68.  Guetg N, Abdel Aziz S, Holbro N, Turecek R, Rose T, Seddik R, Gassmann M, Moes S, Jenoe P, Oertner TG, et al.: NMDA receptor-dependent GABAB receptor internalization via CaMKII phosphorylation of serine 867 in GABAB1. _Proceedings of the National Academy of Sciences of the United States of America_ 2010, 107:13924-9.

69.  Heider B, Nathanson JL, Isacoff EY, Callaway EM, Siegel RM: Two-Photon Imaging of Calcium in Virally Transfected Striate Cortical Neurons of Behaving Monkey. _PloS one_ 2010, 5:e13829.

70.  Heneka MTM, Nadrigny F, Regen T, Martinez-Hernandez A, Dumitrescu-Ozimek L, Terwel D, Jardanhazi-Kurutz D, Walter J, Kirchhoff F, Hanisch U-K, et al.: Locus ceruleus controls Alzheimer's disease pathology by modulating microglial functions through norepinephrine. _Proceedings of the National Academy of Sciences of the United States of America_ 2010, 107:6058-63.

71.  Higley MJ, Sabatini BL: Competitive regulation of synaptic Ca2\+ influx by D2 dopamine and A2A adenosine receptors. _Nature neuroscience_ 2010, 13:958-66.

72.  Holbro N, Grunditz A, Wiegert JS, Oertner TG: AMPA receptors gate spine Ca(2+) transients and spike-timing-dependent potentiation. _Proceedings of the National Academy of Sciences_ 2010, 107:15975-80.

73.  Kerlin AM, Andermann ML, Berezovskii VK, Reid RC: Broadly tuned response properties of diverse inhibitory neuron subtypes in mouse visual cortex. _Neuron_ 2010, 67:858-71.

74.  Ko ACT, Ridsdale A, Smith MSD, Mostaço-Guidolin LB, Hewko MD, Pegoraro AF, Kohlenberg EK, Schattka B, Shiomi M, Stolow A, et al.: Multimodal nonlinear optical imaging of atherosclerotic plaque development in myocardial infarction-prone rabbits. _Journal of biomedical optics_ 2010, 15:020501.

75.  Komiyama T, Sato TR, O'Connor DH, Zhang Y-X, Huber D, Hooks BM, Gabitto M, Svoboda K: Learning-related fine-scale specificity imaged in motor cortex circuits of behaving mice. _Nature_ 2010, 464:1182-6.

76.  Lam Y-W, Sherman SM: Functional organization of the somatosensory cortical layer 6 feedback to the thalamus. _Cerebral cortex_ 2010, 20:13-24.

77.  Ma W-P, Liu B-H, Li Y-T, Huang ZJ, Zhang LI, Tao HW: Visual representations by cortical somatostatin inhibitory neurons--selective but with weak and delayed responses. _Journal of Neuroscience_ 2010, 30:14371-9.

78.  Martin SM, O'Brien GS, Portera-Cailliau C, Sagasti A: Wallerian degeneration of zebrafish trigeminal axons in the skin is required for regeneration and developmental pruning. _Development_ 2010, 137:3985-94.

79.  Mostaço-Guidolin LB, Sowa MG, Ridsdale A, Pegoraro AF, Smith MSD, Hewko MD, Kohlenberg EK, Schattka B, Shiomi M, Stolow A, et al.: Differentiating atherosclerotic plaque burden in arterial tissues using femtosecond CARS-based multimodal nonlinear optical imaging. _Biomedical optics express_ 2010, 1:59-73.

80.  Mostany R, Chowdhury TG, Johnston DG, Portonovo SA, Carmichael ST, Portera-Cailliau C: Local hemodynamics dictate long-term dendritic plasticity in peri-infarct cortex. _Journal of Neuroscience_ 2010, 30:14116-26.

81.  Niessing J, Friedrich RW: Olfactory pattern classification by discrete neuronal network states. _Nature_ 2010, 465:47-52.

82.  O'Connor DH, Clack NG, Huber D, Komiyama T, Myers EW, Svoboda K: Vibrissa-based object localization in head-fixed mice. _Journal of Neuroscience_ 2010, 30:1947-67.

83.  O'Connor DH, Peron SP, Huber D, Svoboda K: Neural activity in barrel cortex underlying vibrissa-based object localization in mice. _Neuron_ 2010, 67:1048-61.

84.  Oviedo HV, Bureau I, Svoboda K, Zador AM: The functional asymmetry of auditory cortex is reflected in the organization of local cortical circuits. _Nature neuroscience_ 2010, 13:1413-20.

85.  Parra SG, Chia TH, Zinter JP, Levene MJ: Multiphoton microscopy of cleared mouse organs. _Journal of biomedical optics_ 2010, 15:036017.

86.  Patterson MA, Szatmari EM, Yasuda R: AMPA receptors are exocytosed in stimulated spines and adjacent dendrites in a Ras-ERK-dependent manner during long-term potentiation. _Proceedings of the National Academy of Sciences of the United States of America_ 2010, 107:15951-6.

87.  Sato TR, Svoboda K: The functional properties of barrel cortex neurons projecting to the primary motor cortex. _Journal of Neuroscience_ 2010, 30:4256-60.

88.  Seelig JD, Chiappe ME, Lott GK, Dutta A, Osborne JE, Reiser MB, Jayaraman V: Two-photon calcium imaging from head-fixed Drosophila during optomotor walking behavior. _Nature methods_ 2010, 7:535-40.

89.  Shi Y, Nenadic Z, Xu X: Novel use of matched filtering for synaptic event detection and extraction. _PloS one_ 2010, 5:e15517.

90.  Smith SL, Häusser M: Parallel processing of visual space by neighboring neurons in mouse visual cortex. _Nature neuroscience_ 2010, 13:1144-9.

91.  Theyel BB, Llano DA, Sherman SM: The corticothalamocortical circuit drives higher-order cortex in the mouse. _Nature neuroscience_ 2010, 13:84-8.

92.  Wiechert MT, Judkewitz B, Riecke H, Friedrich RW: Mechanisms of pattern decorrelation by recurrent neuronal circuits. _Nature neuroscience_ 2010, 13:1003-10.

93.  Wilbrecht L, Holtmaat A, Wright N, Fox K, Svoboda K: Structural plasticity underlies experience-dependent functional plasticity of cortical circuits. _The Journal of Neuroscience_ 2010, 30:4927-32.

94.  Wood L, Shepherd GMG: Synaptic circuit abnormalities of motor-frontal layer 2/3 pyramidal neurons in a mutant mouse model of Rett syndrome. _Neurobiology of disease_ 2010, 38:281-7.

95.  Xia A, Gao SS, Yuan T, Osborn A, Bress A, Pfister M, Maricich SM, Pereira FA, Oghalai JS: Deficient forward transduction and enhanced reverse transduction in the alpha tectorin C1509G human hearing loss mutation. _Disease models & mechanisms_ 2010, 3:209-23.

96.  Xu X, Olivas ND, Levi R, Ikrar T, Nenadic Z: High precision and fast functional mapping of cortical circuitry through a novel combination of voltage sensitive dye imaging and laser scanning photostimulation. _Journal of neurophysiology_ 2010, 103:2301-12.

97.  Yuan T, Gao SS, Saggau P, Oghalai JS: Calcium imaging of inner ear hair cells within the cochlear epithelium of mice using two-photon microscopy. _Journal of biomedical optics_ 2010, 15:016002.

98.  Chia TH, Levene MJ: In vivo imaging of deep cortical layers using a microprism. _Journal of visualized experiments?: JoVE_ 2009, \[no volume\].

99.  Chia TH, Levene MJ: Microprisms for in vivo multilayer cortical imaging. _Journal of neurophysiology_ 2009, 102:1310-4.

100.  Chow DK, Groszer M, Pribadi M, Machniki M, Carmichael ST, Liu X, Trachtenberg JT: Laminar and compartmental regulation of dendritic growth in mature cortex. _Nature neuroscience_ 2009, 12:116-8.

101.  Christie JM, Jahr CE: Selective expression of ligand-gated ion channels in L5 pyramidal cell axons. _Journal of Neuroscience_ 2009, 29:11441.

102.  Ding JB, Takasaki KT, Sabatini BL: Supraresolution imaging in brain slices using stimulated-emission depletion two-photon laser scanning microscopy. _Neuron_ 2009, 63:429--437.

103.  Dombeck DA, Graziano MS, Tank DW: Functional clustering of neurons in motor cortex determined by cellular resolution imaging in awake behaving mice. _Journal of Neuroscience_ 2009, 29:13751-60.

104.  Dreosti E, Odermatt B, Dorostkar MM, Lagnado L: A genetically encoded reporter of synaptic activity in vivo. _Nature methods_ 2009, 6:883-9.

105.  Golshani P, Gonçalves JT, Khoshkhoo S, Mostany R, Smirnakis S, Portera-Cailliau C: Internally mediated developmental desynchronization of neocortical network activity. _Journal of Neuroscience_ 2009, 29:10890.

106.  Higley MJM, Soler-Llavina GJ, Sabatini BL: Cholinergic modulation of multivesicular release regulates striatal synaptic potency and integration. _Nature neuroscience_ 2009, 12:1121-8.

107.  Holbro N, Grunditz Å, Oertner TG: Differential distribution of endoplasmic reticulum controls metabotropic signaling and plasticity at hippocampal synapses. _Proceedings of the National Academy of Sciences_ 2009, 106:15055.

108.  Holtmaat A, Bonhoeffer T, Chow DK, Chuckowree J, De Paola V, Hofer SB, Hübener M, Keck T, Knott G, Lee W-CA, et al.: Long-term, high-resolution imaging in the mouse neocortex through a chronic cranial window. _Nature protocols_ 2009, 4:1128-44.

109.  Hoogland TM, Kuhn B, Göbel W, Huang W, Nakai J, Helmchen F, Flint J, Wang SSH: Radially expanding transglial calcium waves in the intact cerebellum. _Proceedings of the National Academy of Sciences_ 2009, 106:3496.

110.  Judkewitz B, Rizzi M, Kitamura K, Häusser M: Targeted single-cell electroporation of mammalian neurons in vivo. _Nature protocols_ 2009, 4:862-9.

111.  Knott GW, Holtmaat A, Trachtenberg JT, Svoboda K, Welker E: A protocol for preparing GFP-labeled neurons previously imaged in vivo and in slice preparations for light and electron microscopic analysis. _Nature protocols_ 2009, 4:1145-56.

112.  Lee CC, Sherman SM: Glutamatergic inhibition in sensory neocortex. _Cerebral cortex_ 2009, 19:2281-9.

113.  Lewis TL, Mao T, Svoboda K, Arnold DB: Myosin-dependent targeting of transmembrane proteins to neuronal dendrites. _Nature neuroscience_ 2009, 12:568-76.

114.  Liu B-hua, Li P, Li Y-tang, Sun YJ, Yanagawa Y, Obata K, Zhang LI, Tao HW: Visual receptive field structure of cortical inhibitory neurons revealed by two-photon imaging guided recording. _Journal of Neuroscience_ 2009, 29:10520-32.

115.  Llano DA, Sherman SM: Differences in intrinsic properties and local network connectivity of identified layer 5 and layer 6 adult mouse auditory corticothalamic neurons support a dual corticothalamic projection hypothesis. _Cerebral cortex_ 2009, 19:2810-26.

116.  Matter C, Pribadi M, Liu X, Trachtenberg JT: Delta-catenin is required for the maintenance of neural structure and function in mature cortex in vivo. _Neuron_ 2009, 64:320-7.

117.  O'Brien GS, Martin SM, Söllner C, Wright GJ, Becker CG, Portera-Cailliau C, Sagasti A: Developmentally regulated impediments to skin reinnervation by injured peripheral sensory axon terminals. _Current biology_ 2009, 19:2086-90.

118.  O'Brien G, Rieger S: Two-photon axotomy and time-lapse confocal imaging in live zebrafish embryos. _Journal of visualized experiments?: JoVE_ 2009, \[no volume\].

119.  Ozden I, Sullivan MR, Lee HM, Wang SS-H: Reliable coding emerges from coactivation of climbing fibers in microbands of cerebellar Purkinje neurons. _Journal of Neuroscience_ 2009, 29:10463-73.

120.  Petreanu L, Mao T, Sternson SM, Svoboda K: The subcellular organization of neocortical excitatory connections. _Nature_ 2009, 457:1142-5.

121.  Petrof I, Sherman SM: Synaptic properties of the mammillary and cortical afferents to the anterodorsal thalamic nucleus in the mouse. _Journal of Neuroscience_ 2009, 29:7815-9.

122.  Schoenenberger P, Gerosa D, Oertner TG: Temporal control of immediate early gene induction by light. _PLoS One_ 2009, 4:e8185.

123.  Schultz SR, Kitamura K, Post-Uiterweer A, Krupic J, Häusser M: Spatial pattern coding of sensory information by climbing fiber-evoked calcium signals in networks of neighboring cerebellar Purkinje cells. _The Journal of Neuroscience_ 2009, 29:8005-15.

124.  Simons SB, Escobedo Y, Yasuda R, Dudek SM: Regional differences in hippocampal calcium handling provide a cellular mechanism for limiting plasticity. _Proceedings of the National Academy of Sciences of the United States of America_ 2009, 106:14080-4.

125.  Tian L, Hires SA, Mao T, Huber D, Chiappe ME, Chalasani SH, Petreanu L, Akerboom J, McKinney SA, Schreiter ER, et al.: Imaging neural activity in worms, flies and mice with improved GCaMP calcium indicators. _Nature methods_ 2009, 6:875-81.

126.  Virk MS, Arttamangkul S, Birdsong WT, Williams JT: Buprenorphine is a weak partial agonist that inhibits opioid receptor desensitization. _The Journal of Neuroscience_ 2009, 29:7341-8.

127.  Watt AJ, Cuntz H, Mori M, Nusser Z, Sjöström PJ, Häusser M: Traveling waves in developing cerebellar cortex mediated by asymmetrical Purkinje cell connectivity. _Nature neuroscience_ 2009, 12:463-73.

128.  Wood L, Gray NW, Zhou Z, Greenberg ME, Shepherd GMG: Synaptic circuit abnormalities of motor-frontal layer 2/3 pyramidal neurons in an RNA interference model of methyl-CpG-binding protein 2 deficiency. _Journal of Neuroscience_ 2009, 29:12440-8.

129.  Yu YJ, Arttamangkul S, Evans CJ, Williams JT, von Zastrow M: Neurokinin 1 receptors regulate morphine-induced endocytosis and desensitization of mu-opioid receptors in CNS neurons. _Journal of Neuroscience_ 2009, 29:222-33.

130.  Zhao C, Kao JPY, Kanold PO: Functional excitatory microcircuits in neonatal cortex connect thalamus and layer 4. _Journal of Neuroscience_ 2009, 29:15479-88.

131.  Zhong H, Sia GM, Sato TR, Gray NW, Mao T, Khuchua Z, Huganir RL, Svoboda K: Subcellular dynamics of type II PKA in neurons. _Neuron_ 2009, 62:363--374.

132.  Zito K, Scheuss V, Knott G, Hill T, Svoboda K: Rapid functional maturation of nascent dendritic spines. _Neuron_ 2009, 61:247--258.

133.  Arttamangkul S, Quillinan N, Low MJ, von Zastrow M, Pintar J, Williams JT: Differential activation and trafficking of $\mu$-opioid receptors in brain slices. _Molecular pharmacology_ 2008, 74:972.

134.  Atasoy D, Aponte Y, Su HH, Sternson SM: A FLEX switch targets Channelrhodopsin-2 to multiple cell types for imaging and long-range circuit mapping. _Journal of Neuroscience_ 2008, 28:7025-30.

135.  Bigelow AW, Geard CR, Randers-Pehrson G, Brenner DJ: Microbeam-integrated multiphoton imaging system. _The Review of scientific instruments_ 2008, 79:123707.

136.  Bureau I, Shepherd GMG, Svoboda K: Circuit and plasticity defects in the developing somatosensory cortex of FMR1 knock-out mice. _Journal of Neuroscience_ 2008, 28:5178-88.

137.  Christie JM, Jahr CE: Dendritic NMDA receptors activate axonal calcium channels. _Neuron_ 2008, 60:298--307.

138.  Cruz-Martín A, Schweizer FE: Imbalance between excitation and inhibition among synaptic connections of CA3 pyramidal neurons in cultured hippocampal slices. _The European journal of neuroscience_ 2008, 27:1353-63.

139.  Gandhi SP, Yanagawa Y, Stryker MP: Delayed plasticity of inhibitory neurons in developing visual cortex. _Proceedings of the National Academy of Sciences_ 2008, 105:16797.

140.  Golshani P, Portera-Cailliau C: In vivo 2-photon calcium imaging in layer 2/3 of mice. _Journal of visualized experiments?: JoVE_ 2008, \[no volume\].

141.  Gregor T, McGregor AP, Wieschaus EF: Shape and function of the Bicoid morphogen gradient in dipteran species with different sized embryos. _Developmental biology_ 2008, 316:350-8.

142.  Grunditz Å, Holbro N, Tian L, Zuo Y, Oertner TG: Spine neck plasticity controls postsynaptic calcium signals through electrical compartmentalization. _Journal of Neuroscience_ 2008, 28:13457.

143.  Harvey CD, Ehrhardt AG, Cellurale C, Zhong H, Yasuda R, Davis RJ, Svoboda K: A genetically encoded fluorescent sensor of ERK activity. _Proceedings of the National Academy of Sciences_ 2008, 105:19264.

144.  Harvey CD, Yasuda R, Zhong H, Svoboda K: The spread of Ras activity triggered by activation of a single dendritic spine. _Science_ 2008, 321:136-40.

145.  Kitamura K, Judkewitz B, Kano M, Denk W, Häusser M: Targeted patch-clamp recordings and single-cell electroporation of unlabeled neurons in vivo. _Nature methods_ 2008, 5:61-7.

146.  Kuhlman SJ, Huang ZJ: High-resolution labeling and functional manipulation of specific neuron types in mouse brain by Cre-activated viral gene expression. _PLoS One_ 2008, 3:e2005.

147.  Lee CC, Sherman SM: Synaptic properties of thalamic and intracortical inputs to layer 4 of the first\- and higher-order cortical areas in the auditory and somatosensory systems. _Journal of neurophysiology_ 2008, 100:317-26.

148.  Major G, Polsky A, Denk W, Schiller J, Tank DW: Spatiotemporally graded NMDA spike/plateau potentials in basal dendrites of neocortical pyramidal neurons. _Journal of neurophysiology_ 2008, 99:2584-601.

149.  Mao T, O'Connor DH, Scheuss V, Nakai J, Svoboda K: Characterization and subcellular targeting of GCaMP-type genetically-encoded calcium indicators. _PLoS One_ 2008, 3:e1796.

150.  Mostany R, Portera-Cailliau C: A method for 2-photon imaging of blood flow in the neocortex through a cranial window. _Journal of visualized experiments?: JoVE_ 2008, \[no volume\].

151.  Ozden I, Lee HM, Sullivan MR, Wang SS-H: Identification and clustering of event patterns from in vivo multiphoton optical recordings of neuronal ensembles. _Journal of neurophysiology_ 2008, 100:495-503.

152.  Riegel AC, Williams JT: CRF facilitates calcium release from intracellular stores in midbrain dopamine neurons. _Neuron_ 2008, 57:559--570.

153.  Weiler N, Wood L, Yu J, Solla SA, Shepherd GMG: Top-down laminar organization of the excitatory network in motor cortex. _Nature neuroscience_ 2008, 11:360-6.

154.  Yu J, Anderson CT, Kiritani T, Sheets PL, Wokosin DL, Wood L, Shepherd GMG: Local-Circuit Phenotypes of Layer 5 Neurons in Motor-Frontal Cortex of YFP-H Mice. _Frontiers in neural circuits_ 2008, 2:6.

155.  Zhang Y-P, Holbro N, Oertner TG: Optical induction of plasticity at single synapses reveals input-specific accumulation of alphaCaMKII. _Proceedings of the National Academy of Sciences of the United States of America_ 2008, 105:12039-44.

156.  Carter AG, Soler-Llavina GJ, Sabatini BL: Timing and location of synaptic inputs determine modes of subthreshold integration in striatal medium spiny neurons. _Journal of Neuroscience_ 2007, 27:8967.

157.  Dombeck DA, Khabbaz AN, Collman F, Adelman TL, Tank DW: Imaging large-scale neural activity with cellular resolution in awake, mobile mice. _Neuron_ 2007, 56:43--57.

158.  Gregor T, Tank DW, Wieschaus EF, Bialek W: Probing the limits to positional information. _Cell_ 2007, 130:153--164.

159.  Gregor T, Wieschaus EF, McGregor AP, Bialek W, Tank DW: Stability and nuclear dynamics of the bicoid morphogen gradient. _Cell_ 2007, 130:141-52.

160.  Harvey CD, Svoboda K: Locally dynamic synaptic learning rules in pyramidal neuron dendrites. _Nature_ 2007, 450:1195--1200.

161.  Huber D, Petreanu L, Ghitani N, Ranade S, Hromádka T, Mainen Z, Svoboda K: Sparse optical microstimulation in barrel cortex drives learned behaviour in freely moving mice. _Nature_ 2007, 451:61--64.

162.  Lam Y-W, Sherman SM: Different topography of the reticulothalmic inputs to first\- and higher-order somatosensory thalamic relays revealed using photostimulation. _Journal of neurophysiology_ 2007, 98:2903-9.

163.  Petreanu L, Huber D, Sobczyk A, Svoboda K: Channelrhodopsin-2-assisted circuit mapping of long-range callosal projections. _Nature neuroscience_ 2007, 10:663-8.

164.  Sato TR, Gray NW, Mainen ZF, Svoboda K: The functional microarchitecture of the mouse barrel cortex. _PLoS biology_ 2007, 5:e189.

165.  Sjöström PJ, Turrigiano GG, Nelson SB: Multiple forms of long-term plasticity at unitary neocortical layer 5 synapses. _Neuropharmacology_ 2007, 52:176-84.

166.  Sobczyk A, Svoboda K: Activity-dependent plasticity of the NMDA-receptor fractional Ca2\+ current. _Neuron_ 2007, 53:17--24.

167.  Zhang Y-P, Oertner TG: Optical induction of synaptic plasticity using a light-sensitive channel. _Nature methods_ 2007, 4:139-41.

168.  Arttamangkul S, Torrecilla M, Kobayashi K, Okano H, Williams JT: Separation of $\mu$-Opioid Receptor Desensitization and Internalization: Endogenous Receptors in Primary Neuronal Cultures. _Journal of Neuroscience_ 2006, 26:4118.

169.  Birbach A, Verkuyl JM, Matus A: Reversible, activity-dependent targeting of profilin to neuronal nuclei. _Experimental cell research_ 2006, 312:2279-87.

170.  Bureau I, von Saint Paul F, Svoboda K: Interdigitated paralemniscal and lemniscal pathways in the mouse barrel cortex. _PLoS biology_ 2006, 4:e382.

171.  De Paola V, Holtmaat A, Knott G, Song S, Wilbrecht L, Caroni P, Svoboda K: Cell type-specific structural plasticity of axonal branches and boutons in the adult neocortex. _Neuron_ 2006, 49:861--875.

172.  Gray NW, Weimer RM, Bureau I, Svoboda K: Rapid redistribution of synaptic PSD-95 in the neocortex in vivo. _PLoS Biology_ 2006, 4:e370.

173.  Holtmaat A, Wilbrecht L, Knott GW, Welker E, Svoboda K: Experience-dependent and cell-type-specific spine growth in the neocortex. _Nature_ 2006, 441:979-83.

174.  Knott GW, Holtmaat A, Wilbrecht L, Welker E, Svoboda K: Spine growth precedes synapse formation in the adult neocortex in vivo. _Nature neuroscience_ 2006, 9:1117-24.

175.  Lam Y-W, Nelson CS, Sherman SM: Mapping of the functional interconnections between thalamic reticular neurons using photostimulation. _Journal of neurophysiology_ 2006, 96:2593-600.

176.  Papageorgas P, Maroulis D, Anagnostopoulos G, Albrecht H, Wagner B, Iakovidis DK, Theofanous NG: A high-performance imaging and control system for a micromirror-based laser-scanning endoscope device. _IEEE Transactions on Instrumentation and Measurement_ 2006, 55:1725 - 1733.

177.  Scheuss V, Yasuda R, Sobczyk A, Svoboda K: Nonlinear \[Ca2+\] signaling in dendrites and spines caused by activity-dependent depression of Ca2\+ extrusion. _Journal of Neuroscience_ 2006, 26:8183.

178.  Sjöström PJ, Häusser M: A cooperative switch determines the sign of synaptic plasticity in distal dendrites of neocortical pyramidal neurons. _Neuron_ 2006, 51:227-38.

179.  Soler-Llavina GJ, Sabatini BL: Synapse-specific plasticity and compartmentalized signaling in cerebellar stellate cells. _Nature neuroscience_ 2006, 9:798-806.

180.  Vigot R, Barbieri S, Bräuner-Osborne H, Turecek R, Shigemoto R, Zhang YP, Luján R, Jacobson LH, Biermann B, Fritschy JM, et al.: Differential compartmentalization and distinct functions of GABAB receptor variants. _Neuron_ 2006, 50:589--601.

181.  Yasuda R, Harvey CD, Zhong H, Sobczyk A, Van Aelst L, Svoboda K: Supersensitive Ras activation in dendrites and spines revealed by two-photon fluorescence lifetime imaging. _Nature neuroscience_ 2006, 9:283--291.

182.  Egger V, Svoboda K, Mainen ZF: Dendrodendritic synaptic signals in olfactory bulb granule cells: local spine boost and global low-threshold spike. _Journal of Neuroscience_ 2005, 25:3521.

183.  Gregor T, Bialek W, de Ruyter van Steveninck RR, Tank DW, Wieschaus EF: Diffusion and scaling during early embryonic pattern formation. _Proceedings of the National Academy of Sciences of the United States of America_ 2005, 102:18403-7.

184.  Holtmaat AJGD, Trachtenberg JT, Wilbrecht L, Shepherd GM, Zhang X, Knott GW, Svoboda K: Transient and persistent dendritic spines in the neocortex in vivo. _Neuron_ 2005, 45:279-91.

185.  Ngo-Anh TJ, Bloodgood BL, Lin M, Sabatini BL, Maylie J, Adelman JP: SK channels and NMDA receptors form a Ca2+-mediated feedback loop in dendritic spines. _Nature neuroscience_ 2005, 8:642-9.

186.  Ohki K, Chung S, Ch'ng YH, Kara P, Reid RC: Functional imaging with cellular resolution reveals precise micro-architecture in visual cortex. _Nature_ 2005, 433:597-603.

187.  Portera-Cailliau C, Weimer RM, De Paola V, Caroni P, Svoboda K: Diverse modes of axon elaboration in the developing neocortex. _PLoS Biology_ 2005, 3:e272.

188.  Shepherd GMG, Stepanyants A, Bureau I, Chklovskii D, Svoboda K: Geometric and functional organization of cortical circuits. _Nature neuroscience_ 2005, 8:782-90.

189.  Shepherd GMG, Svoboda K: Laminar and columnar organization of ascending excitatory projections to layer 2/3 pyramidal neurons in rat barrel cortex. _Journal of Neuroscience_ 2005, 25:5670-9.

190.  Sobczyk A, Scheuss V, Svoboda K: NMDA receptor subunit-dependent \[Ca2+\] signaling in individual hippocampal dendritic spines. _Journal of Neuroscience_ 2005, 25:6037.

191.  Song S, Sjöström PJ, Reigl M, Nelson S, Chklovskii DB: Highly nonrandom features of synaptic connectivity in local cortical circuits. _PLoS biology_ 2005, 3:e68.

192.  Sternson SM, Shepherd GMG, Friedman JM: Topographic mapping of VMH \--> arcuate nucleus microcircuits and their reorganization by fasting. _Nature neuroscience_ 2005, 8:1356-63.

193.  Brünig I, Kaech S, Brinkhaus H, Oertner TG, Matus A: Influx of extracellular calcium regulates actin-dependent morphological plasticity in dendritic spines. _Neuropharmacology_ 2004, 47:669--676.

194.  Bureau I, Shepherd GMG, Svoboda K: Precise development of functional and anatomical columns in the neocortex. _Neuron_ 2004, 42:789-801.

195.  Carter AG, Sabatini BL: State-dependent calcium signaling in dendritic spines of striatal medium spiny neurons. _Neuron_ 2004, 44:483-93.

196.  Nimchinsky EA, Yasuda R, Oertner TG, Svoboda K: The number of glutamate receptors opened by synaptic stimulation in single hippocampal spines. _Journal of Neuroscience_ 2004, 24:2054.

197.  Pologruto TA, Yasuda R, Svoboda K: Monitoring neural activity and \[Ca2+\] with genetically encoded Ca2\+ indicators. _Journal of Neuroscience_ 2004, 24:9572.

198.  Wang Y, Guo HF, Pologruto TA, Hannan F, Hakker I, Svoboda K, Zhong Y: Stereotyped odor-evoked activity in the mushroom body of Drosophila revealed by green fluorescent protein-based Ca2\+ imaging. _Journal of Neuroscience_ 2004, 24:6507.

199.  Zito K, Knott G, Shepherd GMG, Shenolikar S, Svoboda K: Induction of spine growth and synapse formation by regulation of the spine actin cytoskeleton. _Neuron_ 2004, 44:321-34.

200.  Egger V, Svoboda K, Mainen ZF: Mechanisms of Lateral Inhibition in the Olfactory Bulb: Efficiency and Modulation of Spike-Evoked Calcium Influx into Granule Cells. _Journal of Neuroscience_ 2003, 23:7551-7558.

201.  Shepherd GMG, Pologruto TA, Svoboda K: Circuit analysis of experience-dependent plasticity in the developing rat barrel cortex. _Neuron_ 2003, 38:277-89.

202.  Trachtenberg JT, Chen BE, Knott GW, Feng G, Sanes JR, Welker E, Svoboda K: Long-term in vivo imaging of experience-dependent synaptic plasticity in adult cortex. _Nature_ 2002, 420:788-94.


{comment}
_Snapshot: 2012-06-06_
Current total primary research publications: *207*
{comment}
1.        Arttamangkul S, Lau EK, Lu H-W, Williams JT: *Desensitization and Trafficking of mu-opioid Receptors in Locus Coeruleus Neurons: Modulation by Kinases.* _Molecular pharmacology_ 2012, *81*:348-55.

2.        Atallah BVV, Bruns W, Carandini M, Scanziani M: *Parvalbumin-Expressing Interneurons Linearly Transform Cortical Responses to Visual Stimuli*. _Neuron_ 2012, *73*:159-170.

3.        Ertürk A, Mauch CP, Hellal F, Förstner F, Keck T, Becker K, Jährling N, Steffens H, Richter M, Hübener M, et al.: *Three-dimensional imaging of the unsectioned adult spinal cord to assess axon regeneration and glial responses after injury.* _Nature medicine_ 2012, *18*:166-71.

4.        Huber D, Gutnisky DA, Peron S, O'Connor DH, Wiegert JS, Tian L, Oertner TG, Looger LL, Svoboda K: *Multiple dynamic representations in the motor cortex during sensorimotor learning*. _Nature_ 2012, *484*:473-478.

5.        Jacob V, Petreanu L, Wright N, Svoboda K, Fox K: *Regular spiking and intrinsic bursting pyramidal cells show orthogonal forms of experience-dependent plasticity in layer v of barrel cortex.* _Neuron_ 2012, *73*:391-404.

6.        Li Y-T, Ma W-P, Pan C-J, Zhang LI, Tao HW: *Broadening of Cortical Inhibition Mediates Developmental Sharpening of Orientation Selectivity.* _Journal of Neuroscience_ 2012, *32*:3981-3991.

7.        Li Y, Lu H, Cheng P-lin, Ge S, Xu H, Shi S-H, Dan Y: *Clonally related visual cortical neurons show similar stimulus feature selectivity*. _Nature_ 2012, *advance on*.

8.        Odermatt B, Nikolaev A, Lagnado L: *Encoding of Luminance and Contrast by Linear and Nonlinear Synapses in the Retina*. _Neuron_ 2012, *73*:758-773.

9.        Scott BB, Gardner T, Ji N, Fee MS, Lois C: *Wandering Neuronal Migration in the Postnatal Vertebrate Forebrain*. _Journal of Neuroscience_ 2012, *32*:1436-1446.

10.      Viswanathan S, Bandyopadhyay S, Kao JPY, Kanold PO: *Changing Microcircuits in the Subplate of the Developing Cortex*. _Journal of Neuroscience_ 2012, *32*:1589-1601.

11.      Wu X, Fu Y, Knott G, Lu J, Di Cristo G, Huang ZJ: *GABA Signaling Promotes Synapse Elimination and Axon Pruning in Developing Cortical Inhibitory Interneurons.* _Journal of Neuroscience_ 2012, *32*:331-43.

12.      Xiong Q, Oviedo HV, Trotman LC, Zador AM: *PTEN Regulation of Local and Long-Range Connections in Mouse Auditory Cortex*. _Journal of Neuroscience_ 2012, *32*:1643-1652.

13.      Zariwala HA, Borghuis BG, Hoogland TM, Madisen L, Tian L, De Zeeuw CI, Zeng H, Looger LL, Svoboda K, Chen T-W: *A Cre-Dependent GCaMP3 Reporter Mouse for Neuronal Imaging In Vivo*. _Journal of Neuroscience_ 2012, *32*:3131-3141.

14.      Acker CD, Yan P, Loew LM: *Single-voxel recording of voltage transients in dendritic spines.* _Biophysical journal_ 2011, *101*:L11-3.

15.      Andermann ML, Kerlin AM, Roumis DK, Glickfeld LL, Reid RC: *Functional Specialization of Mouse Higher Visual Cortical Areas*. _Neuron_ 2011, *72*:1025-1039.

16.      Baden T, Esposti F, Nikolaev A, Lagnado L: *Spikes in Retinal Bipolar Cells Phase-Lock to Visual Stimuli with Millisecond Precision.* _Current biology_ 2011, *21*:1859-69.

17.      Bégin S, Burgoyne B, Mercier V, Villeneuve A, Vallée R, Côté D: *Coherent anti-Stokes Raman scattering hyperspectral tissue imaging with a wavelength-swept system.* _Biomedical optics express_ 2011, *2*:1296-306.

18.      Berndt A, Schoenenberger P, Mattis J, Tye KM, Deisseroth K, Hegemann P, Oertner TG: *High-efficiency channelrhodopsins for fast neuronal stimulation at low light levels.* _Proceedings of the National Academy of Sciences of the United States of America_ 2011, *108*:7595-600.

19.      Blumhagen F, Zhu P, Shum J, Schärer Y-PZ, Yaksi E, Deisseroth K, Friedrich RW: *Neuronal filtering of multiplexed odour representations*. _Nature_ 2011, *479*:493-498.

20.      Bock DD, Lee W-CA, Kerlin AM, Andermann ML, Hood G, Wetzel AW, Yurgenson S, Soucy ER, Kim HS, Reid RC: *Network anatomy and in vivo physiology of visual cortical neurons.* _Nature_ 2011, *471*:177-82.

21.      Borghuis BG, Tian L, Xu Y, Nikonov SS, Vardi N, Zemelman BV, Looger LL: *Imaging light responses of targeted neuron populations in the rodent retina.* _Journal of Neuroscience_ 2011, *31*:2855-67.

22.      Chalifoux JR, Carter AG: *Glutamate Spillover Promotes the Generation of NMDA Spikes*. _Journal of Neuroscience_ 2011, *31*:16435-16446.

23.      Chalifoux JR, Carter AG: *GABAB receptor modulation of voltage-sensitive calcium channels in spines and dendrites.* _The Journal of Neuroscience_ 2011, *31*:4221-32.

24.      Christie JM, Chiu DN, Jahr CE: *Ca(2+)-dependent enhancement of release by subthreshold somatic depolarization.* _Nature neuroscience_ 2011, *14*:62-8.

25.      De Pasquale R, Sherman SM: *Synaptic Properties of Corticocortical Connections between the Primary and Secondary Visual Cortical Areas in the Mouse*. _Journal of Neuroscience_ 2011, *31*:16494-16506.

26.      Dreosti E, Esposti F, Baden T, Lagnado L: *In vivo evidence that retinal bipolar cells generate spikes modulated by light.* _Nature neuroscience_ 2011, *14*:951-2.

27.      Hamad MIK, Ma-Högemeier Z-L, Riedel C, Conrads C, Veitinger T, Habijan T, Schulz J-N, Krause M, Wirth MJ, Hollmann M, et al.: *Cell class-specific regulation of neocortical dendrite and spine growth by AMPA receptor splice and editing variants.* _Development_ 2011, *138*:4301-13.

28.      Herman MA, Nahir B, Jahr CE: *Distribution of extracellular glutamate in the neuropil of hippocampus.* _PloS one_ 2011, *6*:e26501.

29.      Herzog E, Nadrigny F, Silm K, Biesemann C, Helling I, Bersot T, Steffens H, Schwartzmann R, Nagerl UV, El Mestikawy S, et al.: *In Vivo Imaging of Intersynaptic Vesicle Exchange Using VGLUT1Venus Knock-In Mice*. _Journal of Neuroscience_ 2011, *31*:15544-15559.

30.      Hooks BM, Hires SA, Zhang Y-X, Huber D, Petreanu L, Svoboda K, Shepherd GMG: *Laminar analysis of excitatory local circuits in vibrissal motor and sensory cortical areas.* _PLoS biology_ 2011, *9*:e1000572.

31.      Ikrar T, Olivas ND, Shi Y, Xu X: *Mapping inhibitory neuronal circuits by laser scanning photostimulation.* _Journal of visualized experiments?: JoVE_ 2011, \[no volume\].

32.      Kitamura K, Hausser M: *Dendritic Calcium Signaling Triggered by Spontaneous and Sensory-Evoked Climbing Fiber Input to Cerebellar Purkinje Cells In Vivo*. _Journal of Neuroscience_ 2011, *31*:10847-10858.

33.      Kuhlman SJ, Tring E, Trachtenberg JT: *Fast-spiking interneurons have an initial orientation bias that is lost with vision.* _Nature neuroscience_ 2011, *14*:1121-3.

34.      Lam Y-W, Sherman SM: *Functional organization of the thalamic input to the thalamic reticular nucleus.* _Journal of Neuroscience_ 2011, *31*:6791-9.

35.      Lewis TL, Mao T, Arnold DB: *A role for myosin VI in the localization of axonal proteins.* _PLoS biology_ 2011, *9*:e1001021.

36.      Lien AD, Scanziani M: *In vivo Labeling of Constellations of Functionally Identified Neurons for Targeted in vitro Recordings.* _Frontiers in neural circuits_ 2011, *5*:16.

37.      Liu CC, Gao SS, Yuan T, Steele C, Puria S, Oghalai JS: *Biophysical mechanisms underlying outer hair cell loss associated with a shortened tectorial membrane.* _Journal of the Association for Research in Otolaryngology?: JARO_ 2011, *12*:577-94.

38.      Mao T, Kusefoglu D, Hooks BM, Huber D, Petreanu L, Svoboda K: *Long-Range Neuronal Circuits Underlying the Interaction between Sensory and Motor Cortex*. _Neuron_ 2011, *72*:111-123.

39.      Marshel JH, Garrett ME, Nauhaus I, Callaway EM: *Functional Specialization of Seven Mouse Visual Cortical Areas*. _Neuron_ 2011, *72*:1040-1054.

40.      Mellios N, Sugihara H, Castro J, Banerjee A, Le C, Kumar A, Crawford B, Strathmann J, Tropea D, Levine SS, et al.: *miR-132, an experience-dependent microRNA, is essential for visual cortex plasticity.* _Nature neuroscience_ 2011, *14*:1240-2.

41.      Middleton JW, Kiritani T, Pedersen C, Turner JG, Shepherd GMG, Tzounopoulos T: *Mice with behavioral evidence of tinnitus exhibit dorsal cochlear nucleus hyperactivity because of decreased GABAergic inhibition.* _Proceedings of the National Academy of Sciences_ 2011, *108*:7601-6.

42.      Miri A, Daie K, Arrenberg AB, Baier H, Aksay E, Tank DW: *Spatial gradients and multidimensional dynamics in a neural integrator circuit*. _Nature Neuroscience_ 2011, *14*:1150-9.

43.      Miri A, Daie K, Burdine RD, Aksay E, Tank DW: *Regression-based identification of behavior-encoding neurons during large-scale optical imaging of neural activity at cellular resolution.* _Journal of neurophysiology_ 2011, *105*:964-80.

44.      Mostaço-Guidolin LB, Ko AC-T, Popescu DP, Smith MSD, Kohlenberg EK, Shiomi M, Major A, Sowa MG: *Evaluation of texture parameters for the quantitative description of multimodal nonlinear optical images from atherosclerotic rabbit arteries.* _Physics in medicine and biology_ 2011, *56*:5319-34.

45.      Mostany R, Portera-Cailliau C: *Absence of large-scale dendritic plasticity of layer 5 pyramidal neurons in peri-infarct cortex.* _Journal of Neuroscience_ 2011, *31*:1734-8.

46.      Nauhaus I, Nielsen KJ, Callaway EM: *Nonlinearity of two-photon Ca2\+ imaging yields distorted measurements of tuning for V1 neuronal populations.* _Journal of neurophysiology_ 2011, *107*:923-36.

47.      Peñagarikano O, Abrahams BS, Herman EI, Winden KD, Gdalyahu A, Dong H, Sonnenblick LI, Gruver R, Almajano J, Bragin A, et al.: *Absence of CNTNAP2 Leads to Epilepsy, Neuronal Migration Abnormalities, and Core Autism-Related Deficits*. _Cell_ 2011, *147*:235-246.

48.      Pugh JR, Jahr CE: *NMDA Receptor Agonists Fail To Alter Release from Cerebellar Basket Cells*. _Journal of Neuroscience_ 2011, *31*:16550-16555.

49.      Pugh JR, Jahr CE: *Axonal GABAA receptors increase cerebellar granule cell excitability and synaptic activity.* _Journal of Neuroscience_ 2011, *31*:565-74.

50.      Qiu S, Anderson CT, Levitt P, Shepherd GMG: *Circuit-specific intracortical hyperconnectivity in mice with deletion of the autism-associated Met receptor tyrosine kinase.* _Journal of Neuroscience_ 2011, *31*:5855-64.

51.      Quillinan N, Lau EK, Virk M, von Zastrow M, Williams JT: *Recovery from mu-opioid receptor desensitization after chronic treatment with morphine and methadone.* _Journal of Neuroscience_ 2011, *31*:4434-43.

52.      Ramsey AJ, Milenkovic M, Oliveira AF, Escobedo-Lozoya Y, Seshadri S, Salahpour A, Sawa A, Yasuda R, Caron MGMG: *Impaired NMDA receptor transmission alters striatal synapses and DISC1 protein in an age-dependent manner*. _Proceedings of the National Academy of Sciences_ 2011, *108*:5795.

53.      Rosselet C, Fieschi M, Hugues S, Bureau I: *Associative learning changes the organization of functional excitatory circuits targeting the supragranular layers of mouse barrel cortex.* _Frontiers in neural circuits_ 2011, *4*:126.

54.      Sedlacek M, Tipton PW, Brenowitz SD: *Sustained firing of cartwheel cells in the dorsal cochlear nucleus evokes endocannabinoid release and retrograde suppression of parallel fiber synapses.* _Journal of Neuroscience_ 2011, *31*:15807-17.

55.      Sheets PL, Suter BA, Kiritani T, Chan CS, Surmeier DJ, Shepherd GMG: *Corticospinal-specific HCN expression in mouse motor cortex: I(h)-dependent synaptic integration as a candidate microcircuit mechanism involved in motor control.* _Journal of neurophysiology_ 2011, *106*:2216-31.

56.      Truong TV, Supatto W, Koos DS, Choi JM, Fraser SE: *Deep and fast live imaging with two-photon scanned light-sheet microscopy*. _Nature Methods_ 2011, *8*:757-60.

57.      Tuthill JC, Chiappe ME, Reiser MB: *Neural correlates of illusory motion perception in Drosophila.* _Proceedings of the National Academy of Sciences of the United States of America_ 2011, *108*:9685-90.

58.      Vesuna S, Torres R, Levene MJ: *Multiphoton fluorescence, second harmonic generation, and fluorescence lifetime imaging of whole cleared mouse organs.* _Journal of biomedical optics_ 2011, *16*:106009.

59.      Viaene AN, Petrof I, Sherman SM: *Synaptic Properties of Thalamic Input to the Subgranular Layers of Primary Somatosensory and Auditory Cortices in the Mouse*. _Journal of Neuroscience_ 2011, *31*:12738-12747.

60.      Viaene AN, Petrof I, Sherman SM: *Properties of the thalamic projection from the posterior medial nucleus to primary and secondary somatosensory cortices in the mouse.* _Proceedings of the National Academy of Sciences_ 2011, *108*:18156-61.

61.      Viaene AN, Petrof I, Sherman SM: *Synaptic properties of thalamic input to layers 2/3 and 4 of primary somatosensory and auditory cortices.* _Journal of neurophysiology_ 2011, *105*:279-92.

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108.    Dombeck DA, Graziano MS, Tank DW: *Functional clustering of neurons in motor cortex determined by cellular resolution imaging in awake behaving mice.* _Journal of Neuroscience_ 2009, *29*:13751-60.

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111.    Higley MJM, Soler-Llavina GJ, Sabatini BL: *Cholinergic modulation of multivesicular release regulates striatal synaptic potency and integration*. _Nature neuroscience_ 2009, *12*:1121-8.

112.    Holbro N, Grunditz Å, Oertner TG: *Differential distribution of endoplasmic reticulum controls metabotropic signaling and plasticity at hippocampal synapses*. _Proceedings of the National Academy of Sciences_ 2009, *106*:15055.

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117.    Lee CC, Sherman SM: *Glutamatergic inhibition in sensory neocortex.* _Cerebral cortex_ 2009, *19*:2281-9.

118.    Lewis TL, Mao T, Svoboda K, Arnold DB: *Myosin-dependent targeting of transmembrane proteins to neuronal dendrites.* _Nature neuroscience_ 2009, *12*:568-76.

119.    Liu B-hua, Li P, Li Y-tang, Sun YJ, Yanagawa Y, Obata K, Zhang LI, Tao HW: *Visual receptive field structure of cortical inhibitory neurons revealed by two-photon imaging guided recording.* _Journal of Neuroscience_ 2009, *29*:10520-32.

120.    Llano DA, Sherman SM: *Differences in intrinsic properties and local network connectivity of identified layer 5 and layer 6 adult mouse auditory corticothalamic neurons support a dual corticothalamic projection hypothesis.* _Cerebral cortex_ 2009, *19*:2810-26.

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195.    Sobczyk A, Scheuss V, Svoboda K: *NMDA receptor subunit-dependent \[Ca2+\] signaling in individual hippocampal dendritic spines*. _Journal of Neuroscience_ 2005, *25*:6037.

196.    Song S, Sjöström PJ, Reigl M, Nelson S, Chklovskii DB: *Highly nonrandom features of synaptic connectivity in local cortical circuits.* _PLoS biology_ 2005, *3*:e68.

197.    Sternson SM, Shepherd GMG, Friedman JM: *Topographic mapping of VMH \--> arcuate nucleus microcircuits and their reorganization by fasting.* _Nature neuroscience_ 2005, *8*:1356-63.

198.    Brünig I, Kaech S, Brinkhaus H, Oertner TG, Matus A: *Influx of extracellular calcium regulates actin-dependent morphological plasticity in dendritic spines*. _Neuropharmacology_ 2004, *47*:669--676.

199.    Bureau I, Shepherd GMG, Svoboda K: *Precise development of functional and anatomical columns in the neocortex.* _Neuron_ 2004, *42*:789-801.

200.    Carter AG, Sabatini BL: *State-dependent calcium signaling in dendritic spines of striatal medium spiny neurons.* _Neuron_ 2004, *44*:483-93.

201.    Nimchinsky EA, Yasuda R, Oertner TG, Svoboda K: *The number of glutamate receptors opened by synaptic stimulation in single hippocampal spines*. _Journal of Neuroscience_ 2004, *24*:2054.

202.    Pologruto TA, Yasuda R, Svoboda K: *Monitoring neural activity and \[Ca2+\] with genetically encoded Ca2\+ indicators*. _Journal of Neuroscience_ 2004, *24*:9572.

203.    Wang Y, Guo HF, Pologruto TA, Hannan F, Hakker I, Svoboda K, Zhong Y: *Stereotyped odor-evoked activity in the mushroom body of Drosophila revealed by green fluorescent protein-based Ca2\+ imaging*. _Journal of Neuroscience_ 2004, *24*:6507.

204.    Zito K, Knott G, Shepherd GMG, Shenolikar S, Svoboda K: *Induction of spine growth and synapse formation by regulation of the spine actin cytoskeleton.* _Neuron_ 2004, *44*:321-34.

205.    Egger V, Svoboda K, Mainen ZF: *Mechanisms of Lateral Inhibition in the Olfactory Bulb: Efficiency and Modulation of Spike-Evoked Calcium Influx into Granule Cells*. _Journal of Neuroscience_ 2003, *23*:7551-7558.

206.    Shepherd GMG, Pologruto TA, Svoboda K: *Circuit analysis of experience-dependent plasticity in the developing rat barrel cortex.* _Neuron_ 2003, *38*:277-89.

207.    Trachtenberg JT, Chen BE, Knott GW, Feng G, Sanes JR, Welker E, Svoboda K: *Long-term in vivo imaging of experience-dependent synaptic plasticity in adult cortex.* _Nature_ 2002, *420*:788-94.