Publications

@article{SEM2024,

title = {Purkinje cell models: past, present and future},

author = {Fernandez SEM and Karim A and Warnaar P and De Zeeuw CI and Badura A and Negrello M },

doi = {10.3389/fncom.2024.1426653 },

year  = {2024},

date = {2024-07-11},

journal = {Frontiers in Computational Neuroscience},

volume = {18},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Tricking AI chips into simulating the human brain: A detailed performance analysis},

author = {Landsmeer L and Engelen M and Miedema R and Strydis C},

doi = {10.1016/j.neucom.2024.127953},

year  = {2024},

date = {2024-06-07},

journal = {Neurocomputing},

keywords = {Brain Dynamics, BrainFrame},

pubstate = {published},

tppubtype = {article}

}

@article{S2022,

title = {EDEN: A High-Performance, General-Purpose, NeuroML-Based Neural Simulator },

author = {Panagiotou S and Sidiropoulos H and Soudris D and Negrello M and Strydis C },

url = {https://neurocomputinglab.com/wp-content/uploads/2022/05/eden-frontiers-neuroinformatics-1.pdf, Download Paper},

doi = {10.3389/fninf.2022.724336},

year  = {2022},

date = {2022-05-20},

journal = {Frontiers in Neuroinformatics},

keywords = {Brain Dynamics, BrainFrame},

pubstate = {published},

tppubtype = {article}

}

@article{V2020,

title = {Functional Convergence of Autonomic and Sensorimotor Processing in the Lateral Cerebellum},

author = {Romano V and Reddington AL and Cazzanelli S and Mazza R and Ma Y and Strydis C and Negrello M and Bosman LWJ and De Zeeuw CI},

url = {https://www.cell.com/cell-reports/fulltext/S2211-1247(20)30848-2?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS2211124720308482%3Fshowall%3Dtrue, Download Paper},

doi = {10.1016/j.celrep.2020.107867},

year  = {2020},

date = {2020-07-01},

journal = {Cell Reports},

volume = {32},

number = {1},

abstract = {The cerebellum is involved in the control of voluntary and autonomic rhythmic behaviors, yet it is unclear to what extent it coordinates these in concert. We studied Purkinje cell activity during unperturbed and perturbed respiration in lobules simplex, crus 1, and crus 2. During unperturbed (eupneic) respiration, complex spike and simple spike activity encode the phase of ongoing sensorimotor processing. In contrast, when the respiratory cycle is perturbed by whisker stimulation, mice concomitantly protract their whiskers and advance their inspiration in a phase-dependent manner, preceded by increased simple spike activity. This phase advancement of respiration in response to whisker stimulation can be mimicked by optogenetic stimulation of Purkinje cells and prevented by cell-specific genetic modification of their AMPA receptors, hampering increased simple spike firing. Thus, the impact of Purkinje cell activity on respiratory control is context and phase dependent, highlighting a coordinating role for the cerebellar hemispheres in aligning autonomic and sensorimotor behaviors.},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{deA2020,

title = {NINscope, a versatile miniscope for multi-region circuit investigations},

author = {de Groot A and van den Boom B JG and van Genderen RM and Coppens J and van Veldhuijzen J and Bos J and Hoedemaker H and Negrello M and Willuhn I and De Zeeuw CI and Hoogland TM},

url = {https://elifesciences.org/articles/49987, Donwload Paper},

doi = {10.7554/eLife.49987},

year  = {2020},

date = {2020-01-14},

journal = {eLife},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{N.A.2019,

title = {Glissades Are Altered by Lesions to the Oculomotor Vermis but Not by Saccadic Adaptation},

author = { Flierman NA and Ignashchenkova A and Negrello M and Their P and De Zeeuw CI and Badura A},

doi = {10.3389/fnbeh.2019.00194},

year  = {2019},

date = {2019-08-23},

journal = {Frontiers in Behavioral Neuroscience },

volume = {13},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{M2019,

title = {Quasiperiodic rhythms of the inferior olive.},

author = { Negrello M and Warnaar P and Romano V and Owens CB and Lindeman S and Iavarone E and Spanke JK and Bosman LWJ and De Zeeuw CI	},

doi = {10.1371/journal.pcbi.1006475},

year  = {2019},

date = {2019-05-06},

journal = {PLoS computational biology 2019 },

abstract = {Inferior olivary activity causes both short-term and long-term changes in cerebellar output underlying motor performance and motor learning. Many of its neurons engage in coherent subthreshold oscillations and are extensively coupled via gap junctions. Studies in reduced preparations suggest that these properties promote rhythmic, synchronized output. However, the interaction of these properties with torrential synaptic inputs in awake behaving animals is not well understood. Here we combine electrophysiological recordings in awake mice with a realistic tissue-scale computational model of the inferior olive to study the relative impact of intrinsic and extrinsic mechanisms governing its activity. Our data and model suggest that if subthreshold oscillations are present in the awake state, the period of these oscillations will be transient and variable. Accordingly, by using different temporal patterns of sensory stimulation, we found that complex spike rhythmicity was readily evoked but limited to short intervals of no more than a few hundred milliseconds and that the periodicity of this rhythmic activity was not fixed but dynamically related to the synaptic input to the inferior olive as well as to motor output. In contrast, in the long-term, the average olivary spiking activity was not affected by the strength and duration of the sensory stimulation, while the level of gap junctional coupling determined the stiffness of the rhythmic activity in the olivary network during its dynamic response to sensory modulation. Thus, interactions between intrinsic properties and extrinsic inputs can explain the variations of spiking activity of olivary neurons, providing a temporal framework for the creation of both the short-term and long-term changes in cerebellar output.},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{N2019,

title = {Variability and directionality of inferior olive neuron dendrites revealed by detailed 3D characterization of an extensive morphological library},

author = { Vrieler N and Loyola S and Yarden-Rabinowitz Y and Hoogendorp J and Medvedev N and Hoogland TM and De Zeeuw CI and De Schutter E and Yarom Y and Negrello M and Torben-Nielsen B and Uusisaari MY },

doi = {10.1007/s00429-019-01859-z},

year  = {2019},

date = {2019-03-30},

journal = {Brain structure & function},

volume = {224},

abstract = {The inferior olive (IO) is an evolutionarily conserved brain stem structure and its output activity plays a major role in the cerebellar computation necessary for controlling the temporal accuracy of motor behavior. The precise timing and synchronization of IO network activity has been attributed to the dendro-dendritic gap junctions mediating electrical coupling within the IO nucleus. Thus, the dendritic morphology and spatial arrangement of IO neurons governs how synchronized activity emerges in this nucleus. To date, IO neuron structural properties have been characterized in few studies and with small numbers of neurons; these investigations have described IO neurons as belonging to two morphologically distinct types, “curly” and “straight”. In this work we collect a large number of individual IO neuron morphologies visualized using different labeling techniques and present a thorough examination of their morphological properties and spatial arrangement within the olivary neuropil. Our results show that the extensive heterogeneity in IO neuron dendritic morphologies occupies a continuous range between the classically described “curly” and “straight” types, and that this continuum is well represented by a relatively simple measure of “straightness”. Furthermore, we find that IO neuron dendritic trees are often directionally oriented. Combined with an examination of cell body density distributions and dendritic orientation of adjacent IO neurons, our results suggest that the IO network may be organized into groups of densely coupled neurons interspersed with areas of weaker coupling.},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{C2019,

title = {Neurons of the inferior olive respond to broad classes of sensory input while subject to homeostatic control},

author = {Ju C and Bosman LWJ and Hoogland TM and Velauthapillai A and Murugesan P and Warnaar P and van Genderen RM and Negrello M and De Zeeuw CI},

doi = {10.1101/379149},

year  = {2019},

date = {2019-03-25},

journal = {The Journal of Physiology},

volume = {597},

number = {9},

abstract = {Cerebellar Purkinje cells integrate sensory information with motor efference copies to adapt movements to behavioural and environmental requirements. They produce complex spikes that are triggered by the activity of climbing fibres originating in neurons of the inferior olive. These complex spikes can shape the onset, amplitude and direction of movements and the adaptation of such movements to sensory feedback. Clusters of nearby inferior olive neurons project to parasagittally aligned stripes of Purkinje cells, referred to as ‘microzones’. It is currently unclear to what extent individual Purkinje cells within a single microzone integrate climbing fibre inputs from multiple sources of different sensory origins, and to what extent sensory‐evoked climbing fibre responses depend on the strength and recent history of activation. Here we imaged complex spike responses in cerebellar lobule crus 1 to various types of sensory stimulation in awake mice. We find that different sensory modalities and receptive fields have a mild, but consistent, tendency to converge on individual Purkinje cells, with climbing fibres showing some degree of input‐specificity. Purkinje cells encoding the same stimulus show increased events with coherent complex spike firing and tend to lie close together. Moreover, whereas complex spike firing is only mildly affected by variations in stimulus strength, it depends strongly on the recent history of climbing fibre activity. Our data point towards a mechanism in the olivo‐cerebellar system that regulates complex spike firing during mono‐ or multi‐sensory stimulation around a relatively low set‐point, highlighting an integrative coding scheme of complex spike firing under homeostatic control.},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{Chatzikonstantis2019,

title = {Multinode implementation of an extended Hodgkin–Huxley simulator},

author = {Chatzikonstantis G and Sidiropoulos H and Strydis C and Negrello M and Smaragdos G and De Zeeuw CI and Soudris D},

url = {https://neurocomputinglab.com/wp-content/uploads/2020/06/1-s2.0-S0925231218312906-main-1.pdf, Download Paper},

year  = {2019},

date = {2019-02-15},

journal = {Elsevier Neuroscomputing},

keywords = {Brain Dynamics, BrainFrame},

pubstate = {published},

tppubtype = {article}

}

@article{SK2017,

title = {Spatiotemporal network coding of physiological mossy fiber inputs by the cerebellar granular layer},

author = {Sudhakar SK and Hong S and Raikov I and Publio R and Lang C and Close T and Guo D and Negrello M and De Schutter E},

url = {http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005754},

year  = {2017},

date = {2017-09-21},

journal = {PLOS Computational Biology},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{P2015,

title = {Duration of Purkinje cell complex spikes increases with their firing frequency},

author = {Warnaar P and Couto J and Negrello M and Junker M and Smilgin A and Ignashchenkova A and Giugliano M and Thier P and De Schutter E},

url = {http://journal.frontiersin.org/article/10.3389/fncel.2015.00122/full},

year  = {2015},

date = {2015-04-15},

journal = {Frontiers in Cellular Neuroscience},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{L2015,

title = {Cerebellar output controls generalized spike-and-wave discharge occurrence},

author = {Kros L and Rooda OE and Spanke J and Alva P and van Dongen M and Karapatis A and Tolner E and Strydis C and Davey N and Winkelman B and Negrello M and Serdijn W and Steuber V and van den Maagdenberg A and de Zeeuw CI and Hoebeek F},

url = {http://onlinelibrary.wiley.com/doi/10.1002/ana.24399/full},

year  = {2015},

date = {2015-03-11},

journal = {Annals of Neurology},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{MFV2014,

title = {Cerebellar control of gait and interlimb coordination},

author = {Veloz MFV and Zhou K and Bosman LWJ and Potters J and Negrello M and Seepers RM and Strydis C and Koekkoek SKE and De Zeeuw CI},

url = {http://link.springer.com/article/10.1007%2Fs00429-014-0870-1, Download paper},

doi = {10.1007/s00429-014-0870-1},

year  = {2014},

date = {2014-08-20},

journal = {Brain Structure & Function (BSAF)},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{JR2014,

title = {Modulation of Electrotonic Coupling in the Inferior Olive by Inhibitory and Excitatory Inputs: Integration in the Glomerulus},

author = {De Gruijl JR and Sokół PA and Negrello M and de Zeeuw CI},

url = {http://www.cell.com/neuron/abstract/S0896-6273%2814%2900203-7, Download Paper},

doi = {10.1016/j.neuron.2014.03.009},

year  = {2014},

date = {2014-03-19},

journal = {Neuron},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{N2014b,

title = {Cerebellar Potentiation and Learning a Whisker-Based Object Localization Task with a Time Response Window},

author = {Rahmati N and Owens CB and Bosman LWJ and Spanke JK and Lindeman S and Gong W and Potters JW and Romano V and Voges K and Moscato L and Koekkoek SKE and Negrello M and De Zeeuw CI},

url = {http://www.jneurosci.org/content/34/5/1949.long, Download Paper},

doi = {10.1523/JNEUROSCI.2966-13.2014 },

year  = {2014},

date = {2014-01-29},

urldate = {2014-01-29},

journal = {Journal of Neuroscience},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{M2013,

title = {Valentino Braitenberg: From neuroanatomy to behavior and back},

author = {Negrello M},

url = {https://link.springer.com/article/10.1007/s00422-012-0533-3, Download Paper},

doi = {10.1007/s00422-012-0533-3},

year  = {2013},

date = {2013-03-13},

journal = {Biological Cybernetics},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{K2011,

title = {Conditional perception under stimulus ambiguity: Polarization- and azimuth-sensitive neurons in the locust brain are inhibited by low degrees of polarization},

author = {Pfeiffer K and Negrello M and Homberg U},

url = {https://journals.physiology.org/doi/full/10.1152/jn.00480.2010, Download paper},

doi = {10.1152/jn.00480.2010},

year  = {2011},

date = {2011-01-01},

journal = {Journal of Neurophysiology},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{Y2010,

title = {Emulation and behavior understanding through shared values},

author = {Takahashi Y and Tamura Y Asada M and Negrello M},

url = {http://www.er.ams.eng.osaka-u.ac.jp/Paper/2007/Takahashi07c.pdf, Download Paper},

doi = {10.1016/j.robot.2010.03.006},

year  = {2010},

date = {2010-07-31},

journal = {Robotics and Autonomous Systems},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{M2008b,

title = {Attractor landscapes in active tracking (special issue: the mind as a complex adaptive system)},

author = {Negrello M and Paseman F},

url = {https://www.researchgate.net/publication/200744688_Attractor_Landscapes_and_Active_Tracking_The_Neurodynamics_of_Embodied_Action, Download Paper},

doi = {10.1177/1059712308090200},

year  = {2008},

date = {2008-04-01},

journal = {Journal of Adaptive Behavior},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}

@article{M2008,

title = {Attractor landscapes and modularity},

author = {Negrello M},

year  = {2008},

date = {2008-01-01},

journal = {Tri-Society Newsletters},

keywords = {Brain Dynamics},

pubstate = {published},

tppubtype = {article}

}