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- Creator:
- Mukhopadhyay, Agnit, Daniel T Welling, Michael W Liemohn, Aaron J Ridley, Shibaji Chakrabarty, and Brian J Anderson
- Description:
- An updated auroral conductance module is built for global models, using nonlinear regression & empirical adjustments to span extreme events., Expanded dataset raises the ceiling of conductance values, impacting the ionospheric potential dB/dt & dB predictions during extreme events., and Application of the expanded model with empirical adjustments refines the conductance pattern, and improves dB/dt predictions significantly.
- Keyword:
- Space Weather Forecasting, Extreme Weather, Ionosphere, Magnetosphere, MI Coupling, Ionospheric Conductance, Auroral Conductance, Aurora, SWMF, SWPC, Nonlinear Regression, and dB/dt
- Citation to related publication:
- Mukhopadhyay, A., Welling, D. T., Liemohn, M. W., Ridley, A. J., Chakraborty, S., & Anderson, B. J. (2020). Conductance Model for Extreme Events: Impact of Auroral Conductance on Space Weather Forecasts. Space Weather, 18(11), e2020SW002551. https://doi.org/10.1029/2020SW002551
- Discipline:
- Engineering and Science
-
- Creator:
- Zhou, Hongyang
- Description:
- The largest moon in the solar system, Ganymede, is the only moon known to possess a strong intrinsic magnetic field and a corresponding magnetosphere. Using the latest version of Space Weather Modeling Framework (SWMF), we study the upstream plasma interactions and dynamics in this sub-Alfvenic system. Results from the Hall MHD and the coupled MHD with embedded Particle-in-Cell (MHD-EPIC) models are compared. We find that under steady upstream conditions, magnetopause reconnection occurs in a non-steady manner. Flux ropes of Ganymede's radius in length form on the magnetopause at a rate about 2/minute and create spatiotemporal variations in plasma and field properties. Upon reaching proper grid resolutions, the MHD-EPIC model can resolve both electron and ion kinetics at the magnetopause and show localized non-gyrotropic behavior inside the diffusion region. The estimated global reconnection rate from the models is about 80 kV with 60% efficiency, and there is weak evidence of about 1 minute periodicity in the temporal variations due to the dynamic reconnection process.
- Keyword:
- MHD, PIC, Ganymede, and magnetosphere
- Citation to related publication:
- Zhou, H., Tóth, G., Jia, X., & Chen, Y. (2020). Reconnection-Driven Dynamics at Ganymede’s Upstream Magnetosphere: 3-D Global Hall MHD and MHD-EPIC Simulations. Journal of Geophysical Research: Space Physics, 125(8), e2020JA028162. https://doi.org/10.1029/2020JA028162
- Discipline:
- Science
-
- Creator:
- Malhotra, Garima and Ridley, Aaron
- Description:
- This research aims to understand the importance of lower thermospheric atomic oxygen on the upper thermosphere. O number densities between 95-100 km from WACCM-X are much closer to the observations from SABER instrument on TIMED satellite as compared to those from MSIS. We show in this study that the correction of the lower boundary atomic oxygen yields better agreement between GITM and GUVI O/N2 in the upper thermosphere .
- Keyword:
- Lower Thermosphere Atomic Oxygen, Thermospheric Dynamics, Thermospheric composition and mixing, Lower-Upper Thermosphere Vertical Coupling, GITM - WACCMX coupling, and Global Ionosphere Thermosphere Model
- Citation to related publication:
- Malhotra, G., Ridley, A. J., Marsh, D. R., Wu, C., Paxton, L. J., & Mlynczak, M. G. (2020). Impacts of Lower Thermospheric Atomic Oxygen on Thermospheric Dynamics and Composition Using the Global Ionosphere Thermosphere Model. Journal of Geophysical Research: Space Physics, e2020JA027877. https://doi.org/10.1029/2020JA027877
- Discipline:
- Science
-
- Creator:
- Vo, Thi and Glotzer, Sharon C.
- Description:
- The goal of this project is to develop a first principle driven approach for predicting the self-assembly behavior of entropically driven crystallization. We first developed a set of mean-field theoretical framework that captures the relevant energetic contributions to the assembly process and then evaluate relevant terms within our framework to determine the excess free energy of formation for each lattice (matlab/octave codes). We then validate theoretical predictions of relevant features like shape and bonding orbitals using standard MD simulations using HOOMD-Blue (simulation scripts). and This research was supported by the Office of the Undersecretary of Defense for Research and Engineering (OUSD(R&E)), Newton Award for Transformative Ideas during the COVID-19 Pandemic, Award number HQ00342010030.
- Keyword:
- Self-Assembly, Entropy, Thermodynamics, Simulations, and Theory
- Citation to related publication:
- Vo, T., & Glotzer, S. C. (2021). Microscopic Theory of Entropic Bonding for Colloidal Crystal Prediction. ArXiv:2107.02081 [Cond-Mat]. http://arxiv.org/abs/2107.02081
- Discipline:
- Science
-
- Creator:
- Al Shidi, Q. and Pulkkinen, T.
- Description:
- Provided are the resultant and processed data.
- Keyword:
- space physics, ground magnetometers, magnetosphere, numerical space physics, solar wind, numerical space physics, and ionosphere
- Discipline:
- Science
-
- Creator:
- Iong, Daniel, Chen, Yang, Toth, Gabor, Zou, Shasha, Pulkkinen, Tuija I., Ren, Jiaen, Camporeale, Enrico, and Gombosi, Tamas I. I.
- Description:
- In this work, we trained gradient boosted trees using XGBoost to predict the SYM-H forecasting using different combinations of solar wind and interplanetary magnetic field (IMF) parameters. Data are in csv and Python pickle formats.
- Keyword:
- SYM-H forecasting
- Citation to related publication:
- Iong, D., Y. Chen, G. Toth, S. Zou, T. I. Pulkkinen, J. Ren, E. Camporeale, and T. I. Gombosi, New Findings from Explainable SYM-H Forecasting using Gradient Boosting Machines, Space Weather,11, accepted, 2022. https://doi.org/10.1002/essoar.10508063.3
- Discipline:
- Science
-
- Creator:
- Dulka, Eden A
- Description:
- This data is a subset of that originally produced as part of an effort to characterize GnRH neuron activity during prepubertal development in control and PNA mice and investigate the potential influences of sex and PNA treatment on this process (1). It was later used in (2) to further investigate the firing patterns of GnRH neurons in these categories of mice and determine how these patterns might differ based on age and treatment condition. The data files can be opened and examined using Wavemetric's Igor Pro software. Code used to further examine and visualize the data can be found at https://gitlab.com/um-mip/mc-project-code. This research was supported by National Institute of Health/Eunice Kennedy Shriver National Institute of Child Health and Human Development R01 HD34860 and P50 HD28934. (1) Dulka EA, Moenter SM. Prepubertal development of gonadotropin-releasing hormone (GnRH) neuron activity is altered by sex, age and prenatal androgen exposure. Endocrinology 2017; 158:3941-3953 (2) Penix JJ, DeFazio RA, Dulka EA, Schnell S, Moenter SM. Firing patterns of gonadotropin-releasing hormone (GnRH) neurons are sculpted by their biology. Pending.
- Keyword:
- action potential, Monte Carlo, polycystic ovary syndrome, puberty, and androgen
- Citation to related publication:
- Dulka EA, Moenter SM. Prepubertal development of gonadotropin-releasing hormone neuron activity is altered by sex, age and prenatal androgen exposure. Endocrinology 2017; 158:3943-3953. https://dx.doi.org/10.1210%2Fen.2017-00768 and Penix JJ, DeFazio RA, Dulka EA, Schnell S, Moenter SM. Firing patterns of gonadotropin-releasing hormone (GnRH) neurons are sculpted by their biology. Pending.
- Discipline:
- Health Sciences
-
- Creator:
- Arthurs, Christopher J., Khlebnikov, Rostislav, Melville, Alexander, Marčan, Marija, Gomez, Alberto, Dillon-Murphy, Desmond, Cuomo, Federica, Vieira, Miguel, Schollenberger, Jonas, Lynch, Sabrina, Tossas-Betancourt, Christopher, Iyer, Kritika, Hopper, Sara, Livingston, Elizabeth, Youssefi, Pouya, Noorani, Alia, Ben Ahmed, Sabrina, Nauta, Foeke J.N., van Bakel, Theodorus M.J., Ahmed, Yunus, van Bakel, Petrus A.J., Mynard, Jonathan, Di Achille, Paolo, Gharahi, Hamid, Lau, Kevin D., Filonova, Vasilina, Aguirre, Miquel, Nama, Nitesh, Xiao, Nan, Baek, Seungik, Garikipati, Krishna, Sahni, Onkar, Nordsletten, David, and Figueroa, Carlos A.
- Description:
- This repository contains the source code for the CRIMSON Flow Solver as required in the PLOS Computational Biology publication: CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation by the same authors., This is a snapshot of the software. Please visit https://github.com/carthurs/CRIMSONFlowsolver/releases/tag/PLOS_Comp_Bio & www.crimson.software for more general information and the most up to date version of the software. , and Software can be compiled in Cygwin and Linux.
- Keyword:
- Blood Flow Simulation, Patient-specific, Open-source Software, Image-based simulation, Cardiovascular Medical Image, Segmentation, and Finite Element Simulation
- Citation to related publication:
- CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation C.J. Arthurs, R. Khlebnikov, A. Melville, M. Marčan, A. Gomez, D. Dillon-Murphy, F. Cuomo, M.S. Vieira, J. Schollenberger, S.R. Lynch, C. Tossas-Betancourt, K. Iyer, S. Hopper, E. Livingston, P. Youssefi, A. Noorani, S. Ben Ahmed, F.J.H. Nauta, T.M.J. van Bakel, Y. Ahmed, P.A.J. van Bakel, J. Mynard, P. Di Achille, H. Gharahi, K. D. Lau, V. Filonova, M. Aguirre, N. Nama, N. Xiao, S. Baek, K. Garikipati, O. Sahni, D. Nordsletten, C.A. Figueroa bioRxiv 2020.10.14.339960; doi: https://doi.org/10.1101/2020.10.14.339960 and Arthurs, C., Khlebnikov, R., Melville, A., Marčan, M., Gomez, A., Dillon-Murphy, D., Cuomo, F., Vieira, M., Schollenberger, J., Lynch, S., Tossas-Betancourt, C., Iyer, K., Hopper, S., Livingston, E., Youssefi, P., Noorani, A., Ben Ahmed, S., Nauta, F., van Bakel, T., Ahmed, Y., van Bakel, P., Mynard, J., Di Achille, P., Gharahi, H., Lau, K., Filonova, V., Aguirre, M., Nama, N., Xiao, N., Baek, S., Garikipati, K., Sahni, O., Nordsletten, D., Figueroa, C. (2021). CRIMSON open source project - Graphical User Interface (GUI) Source Code for PLOS Computational Biology [Data set]. University of Michigan - Deep Blue. https://doi.org/10.7302/679b-dw96
- Discipline:
- Engineering and Health Sciences
-
- Creator:
- Agnit Mukhopadhyay
- Description:
- Conducting quantitative metrics-based performance analysis of first-principles-based global magnetosphere models is an essential step in understanding their capabilities and limitations, and providing scope for improvements in order to enhance their space weather prediction capabilities for a range of solar conditions. In this study, a detailed comparison of the performance of three global magnetohydrodynamic (MHD) models in predicting the Earth’s magnetopause location and ionospheric cross polar cap potential (CPCP) has been presented. Using the Community Coordinated Modeling Center’s Run-on-Request system and extensive database on results from various magnetospheric scenarios simulated for a variety of solar wind conditions, the aforementioned model predictions have been compared for magnetopause standoff distance estimations obtained from six empirical models, and with cross polar cap potential estimations obtained from the Assimmilative Mapping of Ionospheric Electrodynamics (AMIE) Model and the Super Dual Auroral Radar Network (SuperDARN) observations. We have considered a range of events spanning different space weather activity to analyze the performance of these models. Using a fit performance metric analysis for each event, we have quantified the models’ reproducibility of magnetopause standoff distances and CPCP against empirically-predicted observations, and identified salient features that govern the performance characteristics of the modeled magnetospheric and ionospheric quantities.
- Citation to related publication:
- Mukhopadhyay, A., Jia, X., Welling, D. T., & Liemohn, M. W. (2021). Global Magnetohydrodynamic Simulations: Performance Quantification of Magnetopause Distances and Convection Potential Predictions. Frontiers in Astronomy and Space Sciences, 8. https://doi.org/10.3389/fspas.2021.637197
- Discipline:
- Engineering and Science
-
- Creator:
- Nason, Samuel R., Vaskov, Alex K., Willsey, Matthew S., Welle, Elissa J., An, Hyochan, Vu, Philip P., Bullard, Autumn J., Nu, Chrono S., Kao, Jonathan C., Shenoy, Krishna V., Jang, Taekwang, Kim, Hun-Seok, Blaauw, David, Patil, Parag G., and Chestek, Cynthia A.
- Description:
- This data is a subset of the data used to generate figures similar to figures 1, 2, 3, and 4 in Nason et al., 2020, Nature Biomedical Engineering. The purpose of the study was to demonstrate the benefits of using spiking band power, a low-power but single unit specific recording signal, for brain-machine interfaces with nonhuman primates with the potential to impact low-power brain-machine interfaces with humans. All of the data is contained in .mat files, which can be commonly opened by Matlab and the Python scipy library.
- Keyword:
- Brain-machine interface, Prosthesis, and Neural recording
- Citation to related publication:
- Nason, S.R., Vaskov, A.K., Willsey, M.S., Welle, E.J., An, H., Vu, P.P., Bullard, A.J., Nu, C.S., Kao, J.C., Shenoy, K.V., Jang, T., Kim, H.-S., Blaauw, D., Patil, P.G., and Chestek, C.A. (2020). A low-power band of neuronal spiking activity dominated by local single units improves the performance of brain–machine interfaces. Nat. Biomed. Eng. 4, 973–983. https://doi.org/10.1038/s41551-020-0591-0
- Discipline:
- Engineering
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