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- Creator:
- Kinsky, Nathaniel R
- Description:
- This research investigated how blocking protein synthesis with anisomycin disrupted hippocampal neural dynamics underlying memory consolidation. We tracked neural activity using calcium before (2 days), during, and after (1, 2, and 7 days after) memory formation and consolidation using calcium imaging. We blocked memory consolidation in a subset of mice via systemic injections of the protein synthesis inhibitor anisomycin following fear conditioning. We examined place field remapping and stability, the formation of freeze-predictive hippocampal ensemble activity, and analyzed how blocking memory consolidation influenced these two phenomena.
- Keyword:
- Hippocampus, Memory Consolidation, Calcium imaging, and Electrophysiology
- Citation to related publication:
- Erasable Hippocampal Neural Signatures Predict Memory Discrimination. Kinsky, N.R.; Orlin, D.O.; Ruesch, E. A.; Kim, B.; Coello, S.; Diba, K; Ramirez, S., Cell Reports, in press.
- Discipline:
- Science
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- Creator:
- Murray, Kendra E., Niemi, Nathan A., Clark, Marin K., and Siddoway, Christine
- Description:
- The Front Range of the Southern Rocky Mountains near Boulder, CO contains a rock record that spans nearly 1.7 billion years. Zircon U-Pb geochronology is an isotopically-based chronometer for measuring deep earth time. We apply this method to a series of small igneous intrusive bodies from the Front Range west of Boulder, CO. These instrusives are collectively known as the Colorado Mineral Belt (CMB) for the economic mineral deposits associated with the instrusives. Past geochronological methods have provided only rudimentary constraints on the geologic timing of emplacement of these bodies. We demonstrate the CMB magmatic activity in the Front Range occurred in two discrete pulses, one at ~67 Ma (million years ago) and one at ~47 Ma. Additional application of the same methodology to a sedimentary rock, the Neoproterozoic Tavakiav Quartzite, uses the zircon U-Pb ages as tracers to constrain the provenance and depositional age of this unique sand body.
- Keyword:
- zircon, Colorado, Front Range, geochronology, Tava, Colorado Mineral Belt, Eldorado stock, Bryan Mountain stock, Sugarloaf, Sunset stock, Bald Mountain, Caribou stock, North Fork, CMB, Front Range mineral belt, and Jamestown
- Citation to related publication:
- Murray, K. E., Niemi, N. A., & Clark, M. K. (2025). Evidence for the Neoproterozoic rifting of Rodinia in the Rocky Mountain Front Range. Tectonics, 44, e2023TC008216.
- Discipline:
- Science
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- Creator:
- Morgan, Rachel K, Tapaswi, Anagha, and Colacino, Justin
- Description:
- SH-SY5Y cells were differentiated into neuron-like cells in the presence of continuous and environmentally relevant levels of lead (Pb). Cells were collected every three days (beginning on day 6 of the 18 day protocol) for the purposes of RNA extraction and subsequent sequencing.
- Keyword:
- Neurotoxicology, Chemical Exposure, Benchmark Dose, Transcriptomics
- Citation to related publication:
- Rachel K. Morgan, Anagha Tapaswi, Katelyn M. Polemi, Elizabeth C. Tolrud, Kelly M. Bakulski, Laurie K. Svoboda, Dana C. Dolinoy, Justin A. Colacino bioRxiv 2024.10.29.620844; doi: https://doi.org/10.1101/2024.10.29.620844
- Discipline:
- Health Sciences
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- Creator:
- Keebler, Timothy B., Toth, Gabor, Chen, Yuxi, and Wang, Xiantong
- Description:
- The Space Weather Modeling Framework (SWMF) was run in the Michigan Geospace configuration, as well as in the MHD-AEPIC configuration, for two extreme space weather events. Output is provided in the standard SWMF format, as well as in text files for easy accessibility.
- Keyword:
- magnetosphere, MHD-AEPIC, SWMF, Geospace, PIC, geomagnetic storms, numerical simulation, computational physics
- Citation to related publication:
- Keebler, T.B., et al. (2025). Simulating extreme space weather with kinetic magnetotail reconnection. Space Weather. Forthcoming.
- Discipline:
- Science
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- Creator:
- Jones, Kaylin, Fernández Correa, Mariana I., Malherbe, Julien, and Cotel, Aline J.
- Description:
- Sea lampreys (Petromyzon marinus) are an invasive species of concern in the Laurentian Great Lakes. Their predation on native species has degraded the ecological and economic health of the region. They are thus targeted for removal through various means, including trapping. Currently, sea lamprey traps are somewhat inefficient, believed to be partially due to their “entrance flows”, or the flow patterns induced by these traps that are felt by approaching sea lampreys. This study experimentally quantifies these flows. Models of two common sea lamprey trap designs were built and installed in a water tunnel in the University of Michigan Hydraulics Lab, and attraction flows were measured using Particle Image Velocimetry (PIV) with minimal background turbulence. Velocity, velocity gradient, and vorticity distributions in the flow are evaluated from the PIV data. These same models were installed in larger-scale raceways at USGS’ Hammond Bay Biological Station, and attraction flows were again measured using PIV to explore how these patterns change in a more turbulent environment that better mimics natural conditions. and Hammond Bay Biological Station (HBBS) is a research center that aims to develop control measures for sea lampreys and conduct research to aid native fish restoration. HBBS is a field station of the USGS Great Lakes Science Center (GLSC) managed by the Great Lakes Fishery Commission (GLFC). More information on HBBS can be found here: https://www.usgs.gov/centers/great-lakes-science-center/science/hammond-bay-biological-station.
- Keyword:
- Entrance Flows, sea lamprey, Great Lakes, hydrodynamics, invasive species, particle image velocimetry, sea lamprey, sea lamprey traps, and turbulence
- Citation to related publication:
- Jones, Kaylin, et. al. 2024. Investigating entrance hydrodynamics of sea lamprey traps. Canadian Journal of Fisheries and Aquatic Sciences. XX(X): XXX-XXX. https://doi.org/XX.XXXX/cjfas-XXXX.
- Discipline:
- Engineering
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- Creator:
- Ma, Zhenyu
- Description:
- Related research overview: Airborne transmission of infectious diseases poses a great threat to public health and the global economy, making the disinfection of airborne pathogens a priority. Detection of airborne pathogens, particularly their infectivity and changes thereof, can be challenging and labor-intensive. Laser-induced fluorescence (LIF) has been used to detect and characterize aerosols of biological origin. In this study, the fluorescence of MS2 bacteriophage aerosol is studied using aWideband Integrated Bioaerosol Sensor (WIBS). Infectivity assays and fluorescence measurements of viral aerosols are taken before and after non-thermal plasma (NTP) treatment. It is found that NTP treatment induces 1) infectivity loss for MS2 aerosol, 2) a change in aerosol fluorescence, and 3) viral protein damage. Increasing NTP applied voltage and power is positively correlated with infectivity loss and reduction in mean viral aerosol fluorescence intensity. The findings in this study suggest fast detection of airborne virus infectivity and protein damage is possible via aerosol fluorescence methods. and Description of files in the dataset: 20240716 repaired WIBS MS2 - size.xlsx - this file contains the particle fluorescence and size data for aerosolized viruses 20240729 PBSbuffer size&fluor.xlsx - this file contains the particle fluorescence and size data for the buffer (i.e. control) 20240812 repairedWIBS diffVoltage.pxp - this file contains the virus particle fluorescence data when exposed to plasmas of different voltages. This file also contains the instrument background fluorescence data measurements.
- Discipline:
- Science and Engineering
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- Creator:
- Mirshams Shahshahani, Payam
- Description:
- Please see Payam Mirshams Shahshahani's University of Michigan doctoral dissertation: https://deepblue.lib.umich.edu/bitstream/handle/2027.42/155254/mirshams_1.pdf?sequence=1
- Keyword:
- unipedal balance, hip muscle strength and endurance, age, hip moment
- Citation to related publication:
- Mirshams Shahshahani, Masteling and Ashton-Miller, article under review in IISE Transactions on Occupational Ergonomics & Human Factors, Supplement, Festschrift for Professor Thomas J. Armstrong
- Discipline:
- Engineering
-
- Creator:
- Fu, Xun, Zhang, Bohao, Weber, Ceri J., Cooper, Kimberly L., Vasudevan, Ram, and Moore, Talia Y.
- Description:
- Tails used as inertial appendages induce body rotations of animals and robots---a phenomenon that is governed largely by the ratio of the body and tail moments of inertia. However, vertebrate tails have more degrees of freedom (e.g., number of joints, rotational axes) than most current theoretical models and robotic tails. To understand how morphology affects inertial appendage function, we developed an optimization-based approach that finds the maximally effective tail trajectory and measures error from a target trajectory. For tails of equal total length and mass, increasing the number of equal-length joints increased the complexity of maximally effective tail motions. When we optimized the relative lengths of tail bones while keeping the total tail length, mass, and number of joints the same, this optimization-based approach found that the lengths match the pattern found in the tail bones of mammals specialized for inertial maneuvering. In both experiments, adding joints enhanced the performance of the inertial appendage, but with diminishing returns, largely due to the total control effort constraint. This optimization-based simulation can compare the maximum performance of diverse inertial appendages that dynamically vary in moment of inertia in 3D space, predict inertial capabilities from skeletal data, and inform the design of robotic inertial appendages. and 2025-01-31: In this update, we include the code required to run the simulations and optimizations. We updated the readme file to reflect this addition
- Keyword:
- simulation, inertial maneuvering, caudal vertebrae, trajectory optimization, and reconfigurable appendages
- Citation to related publication:
- Xun Fu, Bohao Zhang, Ceri J. Weber, Kimberly L. Cooper, Ram Vasudevan, Talia Y. Moore. (in review) Jointed tails enhance control of three-dimensional body rotation.
- Discipline:
- Engineering and Science
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- Creator:
- Smolenski, Shane, Wen, Ming, Li, Qiuyang, Downey, Eoghan, Alfrey, Adam, Liu, Wenhao, Kondusamy, Aswin L. N., Bostwick, Aaron, Jozwiak, Chris, Rotenberg, Eli, Zhao, Liuyan, Deng, Hui, Lv, Bing, Zgid, Dominika, Gull, Emanuel, and Jo, Na Hyun
- Description:
- The optical properties of the 2D magnet CrSBr were explored through photoluminescence/reflectance, angle-resolved photoemission spectroscopy, and self-consistent GW calculations. These data reveal a large exciton binding energy in bulk CrSBr that is attributed to localization arising from the quasi-1D electronic structure.
- Keyword:
- Magnetism, Exciton, and ARPES
- Citation to related publication:
- Smolenski, S. et al., Large Exciton Binding Energy in the Bulk van der Waals Magnet CrSBr. arXiv:2403.13897 (2024) and Smolenski, S., Wen, M., Li, Q. et al. Large exciton binding energy in a bulk van der Waals magnet from quasi-1D electronic localization. Nat Commun 16, 1134 (2025). https://doi.org/10.1038/s41467-025-56457-x
- Discipline:
- Science
-
- Creator:
- An, Yifu
- Description:
- We have ported our MHD code, BATSRUS ( https://github.com/SWMFsoftware/BATSRUS), to the GPU. This dataset contains the input parameters and raw timing results for the Paper. To reproduce the results, please follow the instructions and use the software specifications contained in readme.txt. and Abstract: BATSRUS, our state-of-the-art extended magnetohydrodynamic code, is the most used and one of the most resource-consuming models in the Space Weather Modeling Framework. It has always been our objective to improve its efficiency and speed with emerging techniques, such as GPU acceleration. To utilize the GPU nodes on modern supercomputers, we port BATSRUS to GPUs with the OpenACC API. Porting the code to a single GPU requires rewriting and optimizing the most used functionalities of the original code into a new solver, which accounts for around 1% of the entire program in length. To port it to multiple GPUs, we implement a new message passing algorithm to support its unique block-adaptive grid feature. We conduct weak scaling tests on as many as 256 GPUs and find good performance. The program has 50-60% parallel efficiency on up to 256 GPUs, and up to 95% efficiency within a single node (4 GPUs). Running large problems on more than one node has reduced efficiency due to hardware bottlenecks. We also demonstrate our ability to run representative magnetospheric simulations on GPUs. The performance for a single A100 GPU is about the same as 270 AMD "Rome" CPU cores, and it runs 3.6 times faster than real time. The simulation can run 6.9 times faster than real time on four A100 GPUs.
- Keyword:
- BATSRUS, GPU, and MHD simulation
- Citation to related publication:
- An, Y., Chen, Y., Zhou, H., Gaenko, A. and Toth, G. (2024). BATSRUS GPU: Faster than Real Time Magnetospheric Simulations with a Block Adaptive Grid Code. Being revised. A preprint is available at http://arxiv.org/abs/2501.06717.
- Discipline:
- Engineering