Ryan Raut | Washington University in St. Louis

About

Hello! I am a computational researcher exploring the living, dynamic brain—how activity continuously unfolds across space and time, seamlessly woven into the functioning of the organism as a whole. I look to uncover the hidden rules that organize these dynamics, distilling apparent complexity into simpler underlying principles.

In practice, this means figuring out how to extract structure from complex data—placing my research at the intersection of systems neuroscience, dynamical systems, and machine learning. Now is an exciting time for this work: new experimental tools make it possible to record and control diverse aspects of brain activity and behavior across spatiotemporal scales and species.

As my interests cut across these domains, I collaborate closely with experimentalists to integrate empirical findings into holistic accounts of brain and organismal function. My goal for this work is to clarify principles of healthy dynamics that can guide strategies for restoring function when disrupted.

** I am in the process of growing a research group here at Washington University (stay tuned)—and in general, am always eager to hear from folks with similar interests—so do feel free to reach out! **

You can get a good sense of where my headspace has been lately from this work.

Bio

I am currently an Instructor at Washington University School of Medicine. Prior to St. Louis, I was a Shanahan Foundation Fellow at the Allen Institute and the University of Washington, Seattle, spending much of my time at the AI Institute in Dynamic Systems. Before that, I completed my PhD in neuroscience with Marcus Raichle at Washington University in St. Louis.

Papers

For the most up-to-date listing, please visit my Google Scholar page.

Raut, R.V., Rosenthal, Z.P., Wang, X., Miao, H., Zhang, Z., Lee, J.M., Raichle, M.E., Bauer, A.Q., Brunton, B.W., Brunton, S.L., Kutz, J.N. Arousal as a universal embedding for spatiotemporal brain dynamics. bioRxiv. [paper][code]
Colbrook, M.J., Li, Q., Raut, R.V., Townsend, A. (2024). Beyond expectations: residual dynamic mode decomposition and variance for stochastic dynamical systems. Nonlinear Dynamics, 112 (3), 2037-2061 [paper]
Jacobs, M., Brunton, B.W., Brunton, S.L., Kutz, J.N., Raut, R.V. (2023). HyperSINDy: deep generative modeling of nonlinear stochastic governing equations. arXiv preprint arXiv:2310.04832. [paper]
Luckett, P.H., Lee, J.J., Park, K.Y., Raut, R.V., Meeker, K.L., Gordon, E.M., Snyder, A.Z., Ances, B.M., Leuthardt, E.C., Shimony, J.S. (2023). Resting state network mapping in individuals using deep learning. Frontiers in Neurology, 13, p.1055437. [paper]
*Carroll, C.M., *Stanley, M., Raut, R.V., Constantino, N.J., Irmen, R.E., Mitra, A., Snipes, J.A., Raichle, M.E., Holtzman, D.M., Gould, R.W., Kishida, K.T., Macauley, S.L. (2022). Acute hyper-and hypoglycemia uncouples the metabolic cooperation between glucose and lactate to disrupt sleep. bioRxiv, pp.2022-09. [paper]
Raut, R.V., Snyder, A.Z., Mitra, A., Yellin, D.M., Fujii, N., Malach, R., Raichle, M.E. (2021). Global waves synchronize the brain’s functional systems with fluctuating arousal. Science Advances, 7 (30), eabf2709. [paper][code]
Rosenthal, Z.P., Raut, R.V., Snyder, A.Z., Culver, J.P., Raichle, M.E., Lee, J. (2021). Peripheral sensory stimulation elicits global slow waves by recruiting somatosensory cortex bilaterally. Proceedings of the National Academy of Sciences, 118 (8), e2021252118. [paper]
Raut, R.V., Snyder, A.Z., Raichle, M.E. (2020). Hierarchical dynamics as a macroscopic organizing principle of the human brain. Proceedings of the National Academy of Sciences, 117 (34), 20890-20897. [paper][code]
Gordon, E.M., Laumann, T.O., Marek, S., Raut, R.V., Gratton, C., Gilmore, A.W., Newbold, D.J., Greene, D.J., Coalson, R.S., Snyder, A.Z., Schlaggar, B.L., Petersen, S.E., Dosenbach, N.U.F., Nelson, S.M. (2020). Default mode network streams for coupling to language and control systems. Proceedings of the National Academy of Sciences, 117 (29), 17308-17319. [paper]
Newbold, D.J., Laumann, T.O., Hoyt, C.R., Hampton, J.M., Montez, D.F., Raut, R.V., Ortega, M., Mitra, A., Nielsen, A.N., Miller, D.B., Adeyemo, B., Nguyen, A.L., Scheidter, K.M., Tanenbaum, A.B., Van, A.N., Marek, S., Schlaggar, B.L., Carter, A.R., Greene, D.J., Gordon, E.M., Raichle, M.E., Petersen, S.E., Snyder, A.Z., Dosenbach, N.U.F. (2020). Plasticity and spontaneous activity pulses in disused human brain circuits. Neuron, 107, 580-589. [paper]
Sylvester, C.M., Yu, Q., Srivastava, A.B., Marek, S., Zheng, A., Alexopoulos, D., Smyser, C.D., Shimony, J.S., Ortega, M., Dierker, D.L., Patel, G.H., Nelson, S.M., Gilmore, A.W., McDermott, K.B., Berg, J.J., Drysdale, A.T., Perino, M., Snyder, A.Z., Raut, R.V., Laumann, T.O., Gordon, E., Barch, D.M., Rogers, C.E., Greene, D.J., Raichle, M.E., Dosenbach, N.U.F. (2020). Individual-specific functional connectivity of the amygdala: A substrate for precision psychiatry. Proceedings of the National Academy of Sciences, 177 (7), 3808-3818. [paper]
Rosenthal, Z.P., Raut, R.V., Yan, P., Koko, D., Kraft, A.W., Czerniewski, L., Acland, B., Mitra, A., Snyder, L.H., Bauer, A.Q., Snyder, A.Z., Culver, J.P., Raichle, M.E., Lee, J. (2020). Local perturbations of cortical excitability propagate differentially through large-scale functional networks. Cerebral Cortex, 30 (5), 3352-3369. [paper]
Seitzman, B.A., Gratton, C., Marek, S., Raut, R.V., Dosenbach, N.U.F., Schlaggar, B.L., Petersen, S.E., Greene, D.J. (2020). A set of functionally-defined brain regions with improved representation of the subcortex and cerebellum. NeuroImage, 206, 116-290. [paper]
Raut, R.V., Mitra, A., Marek, S., Ortega, M., Snyder, A.Z., Tanenbaum, A., Laumann, T.O., Dosenbach, N.U.F., Raichle, M.E. (2020). Organization of propagated intrinsic brain activity in individual humans. Cerebral Cortex, 30 (3), 1716-1734. [paper][code]
Raut, R.V., Mitra, A., Snyder, A.Z., Raichle, M.E. (2019). On time delay estimation and sampling error in resting-state fMRI. NeuroImage, 194, 211-227. [paper][code]
Raichle, M.E., Raut, R.V., Mitra, A. (2019). Brain networks: How many types are there?, in The Neocortex. Singer, W., Sejnowski, T., Rakic, P. eds. Strüngmann Forum Reports (27), Lupp, J.R. series ed. MIT Press, MA, 97-108. [paper]
Marek, S., Siegel, J.S., Gordon, E.M., Raut, R.V., Gratton, C., Newbold, D.J., Ortega, M., Laumann, T.O., Miller, D.B., Zheng, A., Lopez, K.C., Berg., J.J., Coalson, R.S., Nguyen, A.L., Dierker, D., Van., A.N., Hoyt, C.R., McDermott, K.B., Norris, S.A., Shimony, J.S., Snyder, A.Z., Nelson, S.M., Barch, D.M., Schlaggar, B.L., Raichle, M.E., Petersen, S.E., Greene, D.J., Dosenbach, N.U.F. (2018) Spatial and temporal organization of the individual human cerebellum. Neuron, 100 (4), 977-993. [paper]
Nair, V.A., Raut, R.V., Prabhakaran, V. (2017). Investigating the BOLD fMRI response to a verbal fluency task in early stroke before and after hemodynamic scaling. Frontiers in Neurology, 8-23. [paper]
Raut, R.V., Nair, V.A., Sattin, J.A., Prabhakaran, V. (2016). Hypercapnic evaluation of vascular reactivity in healthy aging and acute stroke via functional MRI. NeuroImage: Clinical, 12, 173-179. [paper]
DeYoe, E.A. & Raut, R.V. (2014). Visual mapping using blood oxygen level dependent functional magnetic resonance imaging. Neuroimag Clin N Am, 24, 573-584. [paper]