YangY, GrittonH, SarterM, AtonSJ, BoothV,ZochowskiM (2021) Theta-gamma coupling emerges from spatially heterogeneous cholinergic neuromodulation. PLoS Comp Biol (accepted)

Budak M, Grosh K, Sasmal A, Corfas G, Zochowski M, Booth V (2021) Contrasting mechanisms for hidden hearing loss: synaptopathy vs myelin defects. PLoS Comp Biol. 17:e1008499

[2020]Lu Y, Sarter M, Zochowski M, Booth V (2020) Phasic cholinergic signaling promotes emergence of local gamma rhythms in excitatory-inhibitory networks. Euro J Neurosci 52,3545-3560.

Wu J, Aton S, Booth V, Zochowski M (2020) Network and cellular mechanisms underlying heterogeneous excitatory/inhibitory balanced states. Euro J Neurosci 51, 1624-1641

[2019]Roach JP, Eniwaye B, Booth V, Sander LM, Zochowski M (2019) Acetylcholine mediates dynamic switching between information coding schemes in neuronal networks. Frontiers Systems Neuroscience 13, 64.

Skilling QM, Ognjanovski N, Aton SJ, Zochowski M. (2019) Critical Dynamics Mediate Learning of New Distributed Memory Representations in Neuronal Networks. Entropy 21(11), 1043.

Puentes-Mestril C, Roach JP, Niethard N, Zochowski M, Aton SJ, (2019), How rhythms of the sleeping brain tune memory and synaptic plasticity, Sleep 42,

Budak M, Zochowski M (2019) Synaptic failure differentially affects pattern formation in heterogenous networks. Frontiers Neural Circuits Front Neural Circuits. 13:31

[2018]Ognjanovski N, Broussard C, Zochowski M, Aton SJ (2018) Hippocampal network oscillations drive memory consolidation in the absence of sleep. Cerebral Cortex 28, 3711–3723

Roach JP, A Pidde, E Katz, J Wu, N Ognjanovski , SJ Aton,M Zochowski (2018) Resonance with subthreshold oscillatory drive organizes activity and optimizes learning in neural networks. PNAS 115, E3017-E3025

[2017]Rich S, Zochowski M, Booth V (2017) Effects of neuromodulation on excitatory-inhibitory neural network dynamics depends on network connectivity structure. J. Nonlinear Science 10.1007/s00332-017-9438-6

Wu J, Skilling QM, Maruyama D, LiC, Ognjanovski N, Aton SJ, Zochowski M (2017) Functional Network Stability and Average Minimal Distance – A framework to rapidly assess dynamics of functional network representations. J. Neurosci. Meth. 296, 69-83

Rich S, Zochowski M, Booth V (2017) Dichotomous Dynamics in E-I Networks with Strongly and Weakly Intra-connected Inhibitory Neurons. Front. Neu. Circ 11:104

Durkin J, AK Suresh,J Colbath, C Broussard, J. Wu, M Zochowski, Aton Cortically coordinated NREM thalamocortical oscillations play an essential, instructive role in visual system plasticity (2017), PNAS 114, 10485–10490

Ognjanovski N, S Schaeffer, J Wu, S Mofakham, D Maruyama, M Zochowski, S Aton (2017) Parvalbumin-expressing interneurons drive hippocampal oscillations and stabilize neuronal ensembles to promote memory consolidation. Nature Comm. 8, 105039

Nowak A, RR Vallacher, M Zochowski, A Rychwalska Functional Synchronization: The Emergence of Coordinated Activity in Human Systems. Front. Psychology 8, 00945

Shtrahman E, D Maruyama, E Olariu, CG Fink, M. Zochowski (2017) Spatial and Temporal Patterning of Astrocyte Calcium Transients Explained by Network Transport and Extracellular Diffusion in a Simple Network Model. Physical Biology, * Biol. ***14, **016001

Mofakham S, CG Fink, V Booth, M Zochowski (2016) Interplay between excitability type and distributions of neuronal connectivity determine neuronal network synchronization. Phys Rev E 94, 042427.

Rich S, V Booth, M Zochowski (2016) Intrinsic Cellular Properties Determine Variable Clustering Patterns in Inhibitory Neural Networks. Frontiers in Neural Circuits 10, 82.

Roach J, L Sander, M Zochowski (2016) Memory recall and spike frequency adaptation. Phys. Rev. E 93, 052307.

Knudstrup S, M Zochowski, V Booth, (2016) Network burst dynamics under heterogeneous cholinergic modulation of neural firing properties and heterogeneous synaptic connectivity. Euro. J. Neurosci 43, 1321-39.

[2015]Roach J, E Ben-Jacob, L Sander, M Zochowski (2015) Modeling cholinergic modulation of cortical activity: traveling and localized patterns. PLoS Comp Biol 11(8): e1004449.

Leone M, B Schurter, B Letson, V Booth, M Zochowski, CG Fink (2015) Synchronization properties of heterogeneous neuronal networks with mixed excitability type. Phys Rev E 91(3):032813

Knudstrup S, M Zochowski, V Booth, (2015) Synaptic loss and synaptic plasticity in heterogenous Neural Networks. Journal of Complex Networks *4, *115-126.

Mofakham S, M. Zochowski (2015) Measuring predictability of autonomous network transitions into bursting dynamics. PLoS One 10(4): e0122225.

Shtrahman L, M Zochowski (2015) Pattern segmentation with activity dependent natural frequency shift and sub- threshold resonance. Scientific Reports (Nature) 8, 8851.

[2014]Maruyama D, M Zochowski (2014) Competition and cooperation between active network processes and passive ones defined in the physical space. Scientific Reports (Nature) 4, 5269.

Ognjanovski NN, M Maruyama, N Lashner, M Zochowski, SJ Aton (2014) CA1 hippocampal network activity changes during sleep-dependent memory consolidation. Syst. Neurosci. 8, 61

[2013]Fink CG, M Zochowski, V Booth (2013) Neural network modulation, dynamics and plasticity. IEEE Global Conference on Signal and Information Processing (GlobalSIP), 843-846 (doi: 10.1109/GlobalSIP.2013.6737023).

Fink C, G Murphy, M Zochowski, V Booth (2013) Acetylcholine, Network Dynamics, and Synaptic Renormalization. PLoS Computational Biol 9, e1002939.

[2012]Wang J, M Zochowski (2012) Interactions of Excitatory and Inhibitory Feedback Topologies During Memory Reactivation and Recall. Neural Computation 24, 32-59.

[2011]Lau T, M Zochowski (2011) The resonance frequency shift, pattern formation, and enhanced network reorganization via sub-threshold input. PLoS One 6, e18983.

Fink C, V Booth, M Zochowski (2011) Cellularly-driven differences in network synchronization propensity are differentially modulated by firing frequency. PLoS Comp. Biol 7, e1002062.

Lau T, M Zochowski (2011) Interaction between connectivity and oscillatory currents in a heterogeneous neuronal network. Phys Rev E **83**, 051908.

Fink C, V Booth, M Zochowski (2011) Effects of the frequency dependence of phase response curves on network synchronization. Chapter in: Phase Response Curves in Neuroscience; Theory, Experiment & Analysis.

[2010]Schneider-Mizell CM, JM Parent, E Ben-Jacob, M Zochowski, LM. Sander (2010) From network structure to network reorganization: implications for adult neurogenesis. Phys Biol 7, 046008.

Feldt S, JX Wang, E Shtrahman, R Dzakpasu, E Olariu, and M Zochowski (2010) Functional clustering in hippocampal cultures: relating network structure and dynamics. Phys Biol 7, 046004.

Lau T, GJ Gage, JD Berke, M Zochowski (2010) Local dynamics of gap-junction-coupled interneuron networks. Physical Biology 7, 16015.

25. Feldt S, J Wang, VL Hetrick, JD Berke, M Zochowski (2010) Memory formation: from network structure to neural dynamics. Philosophical Transactions of Royal Society A 368, 2251-2267.

[2009]Feldt S, J Waddel, VL Hetrick, J Berke, M Zochowski (2009) A functional clustering algorithm for the analysis of neural relationships. Phys Rev E 79, 056104.

Bogaard A, JM Parent, M Zochowski, V Booth (2009) Interaction of cellular and network mechanisms in spatio-temporal pattern formation in neuronal networks. J. Neuroscience 29(6), 1677-1687.

[2008]Wang J, GR Poe, M Zochowski (2008) From network heterogeneities to familiarity detection and hippocampal memory management. Phys Rev E 78, 041905.

[2007]Waddell J, M Zochowski (2007) Intraburst versus interburst locking in networks of driven nonidentical oscillators. Phys Rev E 76, 056216.

Feldt S, H Osterhage, F Mormann, K Lehnertz, M Zochowski (2007) Inter- and intra- network communications during bursting dynamics: applications to seizure prediction. Phys Rev E 76, 021920.

Waddell J, R Dzakpasu, V Booth, BT Riley, JD Reasor, GR Poe, M Zochowski (2007) Causal Entropies – a measure for determining changes in the temporal organization of neural systems. J. Neurosci. Meth. 162, 320-332.

Jablonski P, GR Poe, M Zochowski (2007) Simple dynamical process may underlie memory reactivation during sleep. Phys Rev E 75, 011912.

Singer BH, S Kim, M Zochowski (2007) Binaral interaction modulates olfactory bulb response to odorant history. Euro. J. Neurosci 25, 576.

[2006]Dzakpasu R, K Patel, N Robinson, M Harrington, M Zochowski (2006) Measuring properties of phase synchronization in a network of coupled oscillators, Chaos 16, 043121.

Waddell J, M Zochowski (2006) Network reorganization driven by temporal interdependence of its elements. Chaos 16, 023106.

Singer B, M Derchansky, P Carlen, M Zochowski (2006) Local driving and global interactions in the progression of seizure dynamics. Phys Rev E 73, 021910.

Kim S, B Singer, M Zochowski (2006) The formation of temporal representation based on resolved sequences of selective feature binding. Neural Comp. 18, 794-816.

Wuskell JP, D Boudreau, MD Wei, L Jin, R Engl, R Chebolu, A Bullen, KD Hoffacker, J Kerimo, LB Cohen, M Zochowski, LM Loew (2006) Synthesis, spectra, delivery and potentiometric responses of new styryl dyes with extended spectral ranges. J Neurosci Methods 151, 200-15.

[2005]Percha B, R Dzakpasu, J Parent, M Zochowski (2005) Transition from local to global phase synchrony in small world neural network and its possible implications for epilepsy, Phys Rev E 72, 031909.

Zochowski M, LB Cohen (2005) Odorant presentation history dependent oscillations in the olfactory bulb, J. Neurophysiol. 94, 2667-2675.

Dzakpasu R, M Zochowski (2005) Changes in synchrony and phase synchrony between individual neurons in normal and epileptic brain. Physica D 208 : 115-122.

Nowak A, R Vallacher, M Zochowski (2005) The emergence of personality: Dynamic foundations of individual variation. Developmental Review 25, 351-385.

Rychwalska A, P Jablonski, M Zochowski, Nowak A. (2005) Novelty based feedback regulation in artificial neural networks. Acta Neurobiol Exp (Wars). 65, 453-463.

[2004]Dzakpasu R, M Zochowski (2004) Adaptation through minimization of the phase lag in coupled non-identical systems, Chaos 14, 583-591.

Kim S, M Zochowski (2004) Relative spatio-temporal properties of odor evoked oscillations in turtle olfactory bulb. Acta Neurobiol. Exp. 64, 291-294.

Zochowski M, R Dzakpasu (2004) Conditional entropies; phase synchronization and changes in the directionality of information flow in neural systems, J. Phys A 37, 3823-3834.

Zochowski M, R Dzakpasu (2004) Adaptation of nonlinear systems through dynamic entropy estimation, J. Phys A 37, 2223-2237.

[2003]Lam Y-W, LB Cohen, M Zochowski (2003) Effect of odorant quality on the three oscillations and the DC signal in the turtle olfactory bulb. Euro J Neurosci 17, 436-446.

Djurisic MR, M Zochowski, M Wachowiak, CX Falk, LB Cohen, D Zecevic (2003) Optical Monitoring of Neural Activity Using Voltage-Sensitive Dyes. In: eds: G. Marriott and I. Parker, Methods in Enzymology 361, 423-451.

[2002]Zochowski M, R Dzakpasu (2002) Adaptation and synchronization as a way to control spatio-temporal pattern formation in the system of coupled logistic maps. Frontiers of Artificial Intelligence and Applications 82, 927-932.

Johenning FW, M Zochowski, SJ Conway, AB Holmes, P Koulen, and BE Ehrlich (2002) Distinct intracellular calcium transients in neurites and somata integrate neuronal signals. J. Neurosci. 22, 5344-5353.

Nowak A, R Vallacher, M Zochowski (2002) The Emergence of Personality: Personal Stability through Interpersonal Synchronization, in Advances in personality science, D. Cervone & W. Mischel (Eds.), New York: Guilford Publications.

Wachowiak M, LB Cohen, and M Zochowski (2002) Distributed and concentration invariant spatial representations of odorants by receptor neuron input to the turtle olfactory bulb. J. Neurophysiology 87, 1035-1045.

Wachowiak M, Y-W Lam, LB Cohen, M Zochowski, (2002) Voltage-sensitive and calcium sensitive dye imaging of activity in the olfactory bulb: presynaptic inhibition, maps of receptor input, and oscillations. In: eds. S. A. Simon and M. Nicolelis, Methods in Chemosensory Research, 91, CRC Press, Boca Raton, FL.

Wachowiak M, CX Falk, LB Cohen, M Zochowski (2002) Voltage and calcium imaging of the brain activity: examples from turtle and the mouse. In: eds. A. W. Toga and J. C. Mazziotta, Brain Mapping: The Methods, Second Ed., 77-95, Academic Press, San Diego.

[2001 and earlier]Zochowski M, LB Cohen, CX Falk, M Wachowiak (2001) The olfactory bulb: Maps of receptor input and oscillations. In: ed. Ron Frostig In vivo optical imaging of brain function, 1, CRC Press, Boca Raton.

Zecevic D, CX Falk, M Djurisic, L B Cohen, M Zochowski, S Antic, M Wachowiak (2001) Imaging Nervous System Activity with Voltage-Sensitive Dyes. In: ed. by Dr. M. Rogawski, Current Protocols in Neuroscience. John Wiley & Sons, New York.

Andjelkovic AV, M Zochowski, F Morgan, JS Pachter (2001) Qualitative and quantitative analysis of monocyte transendothelial migration by confocal microscopy and three-dimensional image reconstruction. In Vitro Cell Dev Biol Animal 37, 111-120.

Liebovitch LS, D Scheurle, M Rusek, M Zochowski (2001) Fractal Methods to Analyze Ion Channel Kinetics, Methods 24, 359-375.

Zochowski M (2000) Intermittent dynamical control, Physica D 145, 181-190.

Zochowski M, LB Cohen, G Furhmann, D Kleinfeld (2000) Distributed and largely separate pools of neurons are correlated with two different components of the gill withdrawal reflex in Aplysia, J. Neurosci., 20(22), 8485-8492.

Wachowiak M, M Zochowski, LB Cohen, CX Falk (2000) The spatial representation of odors by olfactory receptor neuron input to the Olfactory bulb is concentration invariant. Biol Bull, 199, 162-163.

Zochowski M, M Wachowiak, CX Falk, LB Cohen, Y-W Lam, S Antic, D Zecevic (2000) Imaging membrane potential with voltage-sensitive dyes, Biol. Bull. 198, 1-21.

Lam Y-W, LB Cohen, M Wachowiak, M Zochowski, (2000) Odors elicit three different oscillations in the turtle olfactory bulb, J. Neurosci. 20, 749.

Zochowski M, LS Liebovitch (1999) Self organizing dynamics of coupled map system, Phys Rev E 59, 2830.

Liebovitch LS, A Todorov, M Zochowski, D Scheurle, L Colgin, M. Wood, K. Ellenbogen, J Herre, C. Bernstein (1999) Fractal properties of Cardiac Rhythm Abnormalities, Phys Rev. E 59, 3312.

Antic H, LB Cohen, Y-W Lam, M Wachowiak, D Zecevic, M Zochowski (1999) Fast multisite optical measurement of membraine potential. Three examples. FASEB 13, S271.

Wu J, LB Cohen, Y Tsau, M Zochowski and CX Falk (1998) Imagining with Voltage-Sensitive Dyes: Spike Signals, Population Signals, and Retrograde Transport, in Imaging Living Cells, R. Yuste, F. Lanni, and A. Konnerth, Cold Spring Harbor Press.

Liebovitch LS, M Zochowski (1998) Significance of Updating Schemes in Computational Models: Dynamics of Neural Networks, J. Stat. Phys. 90, 253.

Zochowski M, LS Liebovitch (1997) Synchronization of the trajectory as a way to control the dynamics of the coupled system, Phys Rev. E 56, 3701.

Liebovitch LS, M Zochowski (1997) Dynamics of neural networks and their application to protein dynamics, Cell. Molec. Biol. Lett. 2, 166.

Liebovitch LS, M Zochowski (1997) Dynamics of neural networks relevant to properties of proteins, Phys. Rev. E 56.

Zochowski M, K Winkowska‑Nowak, A Nowak, G Karpinski, A Budaj (1997) Autocorrelations of r‑r distributions as a measure of heart variability, Phys. Rev E 56, 3725.

74. Nowak A, M Zochowski (1997) Afekt w modelach sieci neuronowych (in Polish), Kosmos 46.

Zochowski M, M Lewenstein, A Nowak (1995) SMARTNET – A Neural Net with Self-Controlled Learning, Network 6, 93.

Zochowski M, M Lewenstein, A Nowak (1994) Local Noise in Neural Network Models with Self-Control, Int. J. of Neu. Sys. 5, 287-298.

Zochowski M, M Lewenstein, A Nowak (1993) A Memory which tentatively forgets, J. Phys A 26, 2099-2112.

__Book chapters:__

Quinton Skilling, James Roach, Alison L. Althaus, Geoffrey G. Murphy, Leonard Sander, Michal Zochowski (2017). Modifications in network structure and excitability may drive differential activity dependent integration of granule cells into Dentate Gyrus circuits during normal and pathological adult neurogenesis. In “The Rewiring Brain: A Computational Approach to Structural Plasticity in the Adult Brain”‘, Arjen van Ooyen and Markus Butz, Elsevier.

__Books:__

Nowak A, RR Vallacher, R Praszkier, A Rychwalska, M Zochowski (2020) In Sync: the emergence of function in Minds, Groups and Societies. Springer.

Zochowski M (2000) Synchrony in Biological and Physical Systems: An experimental and theoretical study, Series of the Institute of Biocybernetics and Biomedical Engineering PAS, Warsaw.