METHODS NetPlotBrain: A Python package for visualizing networks and brains Silvia Fanton1 and William Hedley Thompson1,2 1Department of Clinical Neuroscience, Karolinska Institutet, Stockholm, Sweden 2Department of Applied Information Technology, University of Gothenburg, Gothenburg, Sweden Keywords: Network visualizations, Python, Network neuroscience, Research software ABSTRACT Visualizations of networks are complex since they are multidimensional and generally convey large amounts of information. The layout of the visualization can

RESEARCH A parcellation scheme of mouse isocortex based on reversals in connectivity gradients Timothé Guyonnet-Hencke and Michael W. Reimann Blue Brain Project, École polytechnique fédérale de Lausanne (EPFL), Campus Biotech, Genf, Switzerland Keywords: Isocortex, Parcellation, Connectome ABSTRACT The brain is composed of several anatomically clearly separated structures. This parcellation is often extended into the isocortex, based on anatomical, physiological, or functional differences. Hier, we derive

RESEARCH Sleep spindles in primates: Modeling the effects of distinct laminar thalamocortical connectivity in core, Matrix, and reticular thalamic circuits Arash Yazdanbakhsh1,2,3 , Helen Barbas2,3,4,5, and Basilis Zikopoulos2,3,5,6 1Computational Neuroscience and Vision Lab, Department of Psychological and Brain Sciences, Boston University, Boston, MA, USA 2Graduate Program for Neuroscience, Boston University, Boston, MA, USA 3Center for Systems Neuroscience, Boston, MA, USA 4Neural Systems Laboratory, Program in

RESEARCH Parkinson’s disease speech production network as determined by graph-theoretical network analysis Jana Schill1 , Kristina Simonyan2,3 , Simon Lang1, Christian Mathys4,5,6, Christiane Thiel5,7, and Karsten Witt1,5 1Department of Neurology, School of Medicine and Health Sciences, University of Oldenburg, Oldenburg, Germany 2Department of Otolaryngology, Head and Neck Surgery, Harvard Medical School, Boston, MA, USA 3Department of Otolaryngology, Head and Neck Surgery, Massachusetts Eye and Ear,

RESEARCH Fast-local and slow-global neural ensembles in the mouse brain Thomas J. Delaney1 and Cian O’Donnell1,2 1School of Computer Science, Electrical and Electronic Engineering, and Engineering Mathematics, University of Bristol, Bristol, UK 2School of Computing, Engineering and Intelligent Systems, Ulster University, Derry/ Londonderry, UK Keywords: Neural ensembles, Neural correlations, Whole-brain computation, Multi-timescale, Electrophysiology a n o p e n a c c e s s

RESEARCH Parallel processing relies on a distributed, low-dimensional cortico-cerebellar architecture Eli J. Müller1,2, Fulvia Palesi3,4, Kevin Y. Hou1,2, Joshua Tan1,2, Thomas Close5,6,7, Claudia A. M. Gandini Wheeler-Kingschott3,4,8, Egidio D’Angelo3,4, Fernando Calamante2,6,8, and James M. Shine1,2 1Complex Systems Research Group, The University of Sydney, Sydney, NSW, Australia 2Brain and Mind Centre, The University of Sydney, Sydney, NSW, Australia 3Brain Connectivity Research Center, IRCCS Mondino Foundation, Pavia,

RESEARCH High-amplitude network co-fluctuations linked to variation in hormone concentrations over the menstrual cycle Sarah Greenwell1, Joshua Faskowitz1,2, Laura Pritschet3, Tyler Santander3, Emily G. Jacobs3,4, and Richard F. Betzel1,2,5,6 1Department of Psychological and Brain Sciences, Indiana University, Bloomington, IN, USA 2Program in Neurosciences, Indiana University, Bloomington, IN, USA 3Department of Psychological and Brain Sciences, Universität von Kalifornien, Santa Barbara, Santa Barbara, CA, USA 4Neuroscience Research

RESEARCH Characterizing heterogeneity in early adolescent reward networks and individualized associations with behavioral and clinical outcomes Matthew Mattoni , David V. Schmied, and Thomas M. Olino Department of Psychology and Neuroscience, Temple University, Philadelphia, PA, USA Keywords: Effective connectivity, Heterogeneity, Adolescence, Reward, Depression, Substance use a n o p e n a c c e s s j o u r n a l ABSTRACT

RESEARCH The role of epidemic spreading in seizure dynamics and epilepsy surgery Ana P. Millán1 Sander Idema2,4,6, Johannes C. Baayen2,4,6,7, Piet Van Mieghem8, and Arjan Hillebrand1,3,4 , Elisabeth C. W. van Straaten1,4,5, Cornelis J. Stam1,3,5, Ida A. Nissen1, 1Amsterdam UMC, Vrije Universiteit Amsterdam, Department of Clinical Neurophysiology and MEG Center, Amsterdam, The Netherlands 2Amsterdam UMC, Vrije Universiteit Amsterdam, Department of Neurosurgery, Amsterdam, The Netherlands 3Amsterdam

PERSPECTIVE Expanding connectomics to the laminar level: A perspective Ittai Shamir1 and Yaniv Assaf1,2 1Department of Neurobiology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel 2Sagol School of Neuroscience, Tel Aviv University, Tel Aviv, Israel Keywords: Connectomics, Cortical layers, Computational models, Neuronal structures, Anatomical mapping, Brain network analysis a n o p e n a c c e s s j o u

RESEARCH Comparing individual and group-level simulated neurophysiological brain connectivity using the Jansen and Rit neural mass model S. D. Kulik1,3,4 , L. Douw1,3, E. van Dellen5, M. D. Steenwijk1,4, J. J. G. Geurts1,4, C. J. Stam2, A. Hillebrand2, M. M. Schoonheim1,4, and P. Tewarie2 1Amsterdam UMC, Vrije Universiteit Amsterdam, Department of Anatomy & Neurowissenschaften, Amsterdam Neuroscience, Amsterdam The Netherlands 2Amsterdam UMC, Vrije Universiteit Amsterdam, Department

RESEARCH An information-theoretic analysis of resting-state versus task fMRI Julia Tuominen1,2 , Karsten Specht1,3,4 , Liucija Vaisvilaite1,3 , and Peter Zeidman5 1Department of Biological and Medical Psychology, University of Bergen, Bergen, Norway 2Department of Global Public Health and Primary Care, University of Bergen, Bergen, Norway 3Mohn Medical Imaging and Visualization Centre, Haukeland University Hospital, Bergen, Norway 4Department of Education, The Arctic University of Norway UiT,

METHODS Temporal Mapper: Transition networks in simulated and real neural dynamics Mengsen Zhang1,2*, Samir Chowdhury1*, and Manish Saggar1 1Department of Psychiatry and Behavioral Sciences, Universität in Stanford, Stanford, CA, USA 2Department of Psychiatry, University of North Carolina at Chapel Hill, NC, USA *These authors contributed equally to this work. Schlüsselwörter: TDA, Mapper, Dynamical systems, Attractors, Netzwerke, Nonlinear dynamics, Multistability, Optimal transport a n o p e

RESEARCH The arrow of time of brain signals in cognition: Potential intriguing role of parts of the default mode network Gustavo Deco1,2,3,4, Yonatan Sanz Perl1,5, Laura de la Fuente5, Jacobo D. Sitt6, B. T. Thomas Yeo7, Enzo Tagliazucchi5,8, and Morten L. Kringelbach9,10,11 1Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Communication Technologies, Universität Pompeu Fabra, Barcelona, Spain 2Institució Catalana de la

RESEARCH Dynamic structure of motor cortical neuron coactivity carries behaviorally relevant information Marina Sundiang1 , Nicholas G. Hatsopoulos1,2,3* , und Jason N. MacLean1,2,4* 1Committee on Computational Neuroscience, Universität von Chicago, Chicago, IL, USA 2University of Chicago Neuroscience Institute, Chicago, IL, USA 3Department of Organismal Biology and Anatomy, Universität von Chicago, Chicago, IL, USA 4Department of Neurobiology, Universität von Chicago, Chicago, IL, USA *Co–senior authors. A

RESEARCH Modulation of limbic resting-state networks by subthalamic nucleus deep brain stimulation John Eraifej1, Joana Cabral2,3,4, Henrique M. Fernandes4, Joshua Kahan5, Shenghong He6, Laura Mancini7,8, John Thornton7,8, Mark White7,8, Tarek Yousry7,8, Ludvic Zrinzo5, Harith Akram5, Patricia Limousin5, Tom Foltynie5, Tipu Z. Aziz1, Gustavo Deco9,10,11, Morten Kringelbach3,4,12, und Alexander L. Green1 1Oxford Functional Neurosurgery Group, Nuffield Department of Surgical Sciences, Universität Oxford, Oxford, Großbritannien

RESEARCH Predicting longitudinal brain atrophy in Parkinson’s disease using a Susceptible-Infected-Removed agent-based model Alaa Abdelgawad1*, Shady Rahayel1,2*, Ying-Qiu Zheng3, Christina Tremblay1, Andrew Vo1, Bratislav Misic1† , and Alain Dagher1† a n o p e n a c c e s s j o u r n a l *Equal contribution. †Equal contribution. 1The Neuro (Montreal Neurological Institute-Hospital), McGill-Universität, Montreal, Canada 2Centre for Advanced Research

RESEARCH Dynamic interactions between anterior insula and anterior cingulate cortex link perceptual features and heart rate variability during movie viewing Saurabh Sonkusare1,2 , Katharina Wegner3, Catie Chang4, Sasha Dionisio5,6, Michael Breakspear2,7, and Luca Cocchi2 1Department of Psychiatry, University of Cambridge, Cambridge, United Kingdom 2QIMR Berghofer Medical Research Institute, Brisbane, Australia 3Ghent University, Ghent, Belgium 4Vanderbilt University, USA 5The University of Queensland, Brisbane, Australia 6Advanced Epilepsy