Publications

2026

Lauren Daley, Wen‐Ju Pan, Gopinath Kaundinya, Shella Keilholz. Longitudinal Awake Mouse fMRI During Voluntary Locomotion Using Zero TE Imaging and a Novel Treadmill Training Protocol. Magnetic Resonance in Medicine.

Theodore J LaGrow, Harrison Watters, Lauren Daley, Vaibhavi Itkyal, Dolly Seeburger, Nmachi Anumba, Abia Fazili, Michael A Kelberman, Vince Calhoun, Wen-Ju Pan, Eric H Schumacher, Shella Keilholz. Fidelity of Spatiotemporal Patterns of Brain Activity Across Sampling Rate, Scan Duration, and Frequency Content. Biorxiv

Nan Xu, Xiaodi Zhang, Wen-Ju Pan, Jeremy L Smith, Eric H Schumacher, Jason W Allen, Vince D Calhoun, Shella D Keilholz. Time-Varying Directed Interactions in Functional Brain Networks: Modeling and Validation. Biorxiv

Wen-Ju Pan, Lauren Daley, Lisa Meyer‑Baese, Shella D. Keilholz.   Connectomes across temporal scales with simultaneous wide-field optical imaging and resting-state functional MRI Biorxiv

Wen-Ju Pan, Lauren Daley, Harrison Watters, Lisa Meyer‑Baese, Kaudinya Gopinath, Dieter Jaeger, Shella D. Keilholz.  An integrated platform for simultaneous wide‑field voltage/calcium imaging and fMRI (EPI & ZTE) reveals neuronal infraslow dynamics underlying functional connectivity Biorxiv

2025

Amrit Kashyap, Eloy Geenjaar, Patrik Bey, Kiret Dhindsa, Katharina Glomb, Sergey Plis, Shella Keilholz, Petra Ritter. Using an ordinary differential equation model to separate rest and task signals in fMRI. Nature Communications

Dolly Seeburger, Jason Tsukahara, Vishwadeep Ahluwalia, Shella Keilholz, Randall Engle. Trait-level Attention Control Emerges from Dynamic Frontoparietal Control Network Interactions. OSF PsyArXiv 

Harrison Watters, Aleah Davis, Abia Fazili, Lauren Daley, Theodore J LaGrow, Eric H Schumacher, Shella Keilholz. Infraslow dynamic patterns in human cortical networks track a spectrum of external to internal attention, Human Brain Mapping

Lauren Daley, Prabhjyot Saini, Harrison Watters, Yasmine Bassil, Eric Schumacher, Lynn Marie Trotti, and Shella Keilholz. Altered functional connectivity and spatiotemporal dynamics in individuals with central disorders of hypersomnolence, Frontiers in Neuroscience

Lisa Meyer-Baese, Dieter Jaeger, and Shella Keilholz. Neurovascular coupling: a review of spontaneous neocortical dynamics linking neuronal activity to hemodynamics and what we have learned from the rodent brain, Journal of Neurophysiology 

Taylor Bolt, Shiyu Wang, Jason S Nomi, Roni Setton, Benjamin P Gold, Blaise deB. Frederick, BT Thomas Yeo, J Jean Chen, Dante Picchioni, Jeff H Duyn, R Nathan Spreng, Shella D Keilholz, Lucina Q Uddin, Catie Chang. Autonomic physiological coupling of the global fMRI signal, Nature Neuroscience

Theodore J LaGrow, Vaibhavi Itkyal, Harrison Watters, Kyle M Jensen, Ram Ballem, Wen-ju Pan, Armin Iraji, Vince D Calhoun, Shella Keilholz. Spatiotemporal Network Dynamics Reveal Alzheimer’s Disease Progression, Biorxiv

2024

Nmachi Anumba, Michael A. Kelberman, Wenju Pan, Alexia Marriott, Xiaodi Zhang, Nan Xu, David Weinshenker, and Shella Keilholz. The effects of locus coeruleus optogenetic stimulation on global spatiotemporal patterns in rats, Imaging Neuroscience 

Kimela Fongeh, Nmachi Anumba. Studying the effects of different anesthetics on quasi-periodic patterns in rat fMRI, Journal of Emerging Investigators

Lisa Meyer-Baese, Arthur E. Morrissette, Yunmiao Wang, Brune Le Chatelier, Peter Y. Borden, Shella D. Keilholz, Garrett B. Stanley and Dieter Jaeger. Cortical Networks Relating to Arousal Are Differentially Coupled to Neural Activity and Hemodynamics, JNeurosci

Dolly T Seeburger, Nan Xu, Marcus Ma, Sam Larson, Christine Godwin, Shella D Keilholz, Eric H Schumacher. Time-varying functional connectivity predicts fluctuations in sustained attention in a serial tapping task, Cognitive, Affective, & Behavioral Neuroscience

Shella Keilholz. Why I left the editorial board of the prestigious scientific journal NeuroImage — and helped start something new, Policy Commons

2023

Nmachi Anumba, Eric Maltbie, Wen-Ju Pan, Theodore J. LaGrow, Nan Xu, Shella Keilholz. Spatial and Spectral Components of the BOLD Global Signal in Rat Resting-State Functional MRI, Magnetic Resonance in Medicine

Nan Xu, Derek M Smith, George Jeno, Dolly T Seeburger, Eric H Schumacher, Shella D Keilholz. The interaction between random and systematic visual stimulation and infraslow quasiperiodic spatiotemporal patterns of whole brain activity, Imaging Neuroscience

Nan Xu, Leo Zhang, Sam Larson, Zengmin Li, Nmachi Anumba, Lauren Daley, Wen-Ju Pan, Kai-Hsiang Chuang, Shella D Keilholz. Rodent Whole-Brain fMRI Data Preprocessing Toolbox, Aperture Neuro

Amrit Kashyap, Sergey Plis, Petra Ritter, Shella Keilholz. A deep learning approach to estimating initial conditions of Brain Network Models in reference to measured fMRI data, Frontiers Neuroscience

Joanes Grandjean et al., A consensus protocol for functional connectivity analysis in the rat brain, Nature Neuroscience

2022

Lisa Meyer-Baese, Harrison Watters, Shella Keilholz. Spatiotemporal patterns of spontaneous brain activity: a mini-review, Neurophotonics

Nan Xu, Theodore J LaGrow, Nmachi Anumba, Xiaodi Zhang, Behnaz Yousefi, Azalea Lee, Yasmine Bassil, Gloria Perrin Clavijo, Vahid Khalilzad, Eric Maltbie, Lisa Meyer-Baese, Maysam Nezafati, Harry Watters, Wen-Ju Pan, Shella Keilholz. Functional Connectivity of the Brain Across Rodents and Humans, Frontiers Neuroscience

Boris C Bernhardt, Jonathan Smallwood, Shella Keilholz, Daniel S Margulies. Gradients in Brain Organization, NeuroImage

Taylor Bolt, Jason S Nomi, Danilo Bzdok, Catie Chang, BT Thomas Yeo, Lucina Q Uddin, Shella D Keilholz. A Parsimonious Description of Global Functional Brain Organization in Three Spatiotemporal Patterns, Nature Neuroscience

2021

Patricia Pais-Roldán, Celine Mateo, Wen-Ju Pan, Ben Acland, David Kleinfeld, Lawrence H Snyder, Xin Yu, Shella Keilholz. Contribution of animal models toward understanding resting state functional connectivity, NeuroImage

Xiaodi Zhang, Eric A Maltbie, Shella D Keilholz. Spatiotemporal trajectories in resting-state FMRI revealed by convolutional variational autoencoder, NeuroImage

Jacob Billings, Manish Saggar, Jaroslav Hlinka, Shella Keilholz, Giovanni Petri. Simplicial and topological descriptions of human brain dynamics, Network Neuroscience

Behnaz Yousefi, Shella Keilholz. Propagating patterns of intrinsic activity along macroscale gradients coordinate functional connections across the whole brain, NeuroImage

Michaël E Belloy, Jacob Billings, Anzar Abbas, Amrit Kashyap, Wen-Ju Pan, Rukun Hinz, Verdi Vanreusel, Johan Van Audekerke, Annemie Van der Linden, Shella D Keilholz, Marleen Verhoye, Georgios A Keliris. Resting brain fluctuations are intrinsically coupled to visual response dynamics, Cerebral Cortex

Nan Xu, Peter C Doerschuk, Shella D Keilholz, R Nathan Spreng. Spatiotemporal functional interactivity among large-scale brain networks, NeuroImage

2020

Frederic Briend William P. Armstrong Nina V. Kraguljac Shella D. Keilholz Adrienne C. Lahti (2020). Aberrant static and dynamic functional patterns of frontoparietal control network in antipsychotic‐naïve first‐episode psychosis subjects, Human Brain Mapping

Zhang, X., Pan, W. J., & Keilholz, S. D. (2020). The relationship between BOLD and neural activity arises from temporally sparse events. NeuroImage, 207, 116390

Daniel J Lurie, Daniel Kessler, Danielle S Bassett, Richard F Betzel, Michael Breakspear, Shella Kheilholz, Aaron Kucyi, Raphaël Liégeois, Martin A Lindquist, Anthony Randal McIntosh, Russell A Poldrack, James M Shine, William Hedley Thompson, Natalia Z Bielczyk, Linda Douw, Dominik Kraft, Robyn L Miller, Muthuraman Muthuraman, Lorenzo Pasquini, Adeel Razi, Diego Vidaurre, Hua Xie, Vince D Calhoun (2020). Questions and controversies in the study of time-varying functional connectivity in resting fMRI. Network Neuroscience 4 (1), 30-69

Francesca Mandino, Domenic H Cerri, Clement M Garin, Milou Straathof, Geralda AF van Tilborg, M Mallar Chakravarty, Marc Dhenain, Rick M Dijkhuizen, Alessandro Gozzi, Andreas Hess, Shella D Keilholz, Jason P Lerch, Yen-Yu Ian Shih, Joanes Grandjean (2020). Animal Functional Magnetic Resonance Imaging: Trends and Path Toward Standardization. Frontiers in Neuroinformatics 13, 78 

2019

Abbas, A., Belloy, M., Kashyap, A., Billings, J., Nezafati, M., Schumacher, E. H., & Keilholz, S. (2019). Quasi-periodic patterns contribute to functional connectivity in the brain. Neuroimage, 191, 193-204

Abbas, A., Bassil, Y., & Keilholz, S. (2019). Quasi-periodic patterns of brain activity in individuals with attention-deficit/hyperactivity disorder.  NeuroImage: Clinical, 101653

Kashyap, A., & Keilholz, S. (2019). Dynamic properties of simulated brain network models and empirical resting-state data. Network Neuroscience, 3(2), 405-426

Kashyap, A., Keilholz, S. (2019) Dynamic properties of simulated brain network models and empirical resting-state data. Netw Neurosci. 3(2):405-426. PMID: 30793089

Kashyap, A., & Keilholz, S. (2019). Brain Network Constraints and Recurrent Neural Networks reproduce unique Trajectories and State Transitions seen over the span of minutes in resting state fMRI. bioRxiv, 798520

Abbas, A., Bassil, Y., & Keilholz, S. (2019). Quasi-periodic patterns of brain activity in individuals with Attention-Deficit/Hyperactivity Disorder. NeuroImage: Clinical, 21, 101653