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- Creator:
- Zetterberg, Daniel S., Huang, Xianglei, Hörner, Johannes, and Voigt, Aiko
- Description:
- The data and code stored in this repository present the results of the paper "Instantaneous radiative effect of surface long wave spectral emissivity in a Snowball Earth simulation." In this paper, we calculate the instantaneous radiative effects of surface spectral emissivity for a Snowball Earth simulation, and find that including surface spectral emissivity has a large effect on the radiation budget. For clear-sky conditions, using ice or spectral emissivity can decrease outgoing long wave radiation by 3.4 or 1.1 W/m^2, respectively, globally averaged. This large effect could impact the simulated climate state of a Snowball Earth and potentially strengthen the Jormungand mechanism. Additionally, the large difference between ice and snow highlights the importance of precipitation processes in Snowball modeling. and This repository contains the results of the calculations and the data and code needed to recreate the manuscript figures. It contains atmospheric conditions from the simulations run by JH and AV that were processed by DSZ. It also contains emissivity datasets that were compiled by Huang et al. 2016 ("A global data set of surface spectral emissivity for GCM and NWP use") that were processed by DSZ and XLH. The results of the study are contained in netcdf files. The README file offers a description, and the Jupyter notebook contained demonstrates how to access, use, and plot the calculations.
- Keyword:
- Spectral surface emissivity, Snowball Earth, paleoclimate modeling
- Citation to related publication:
- Zetterberg, D.S., Huang, X.L., Hörner, J., & Voigt, A. Instantaneous radiative effect of surface long wave spectral emissivity in a Snowball Earth simulation. Submitted to Journal of Geophysical Research: Atmospheres, February 2025
- Discipline:
- Science
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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:
- 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
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- Creator:
- Alofs, Karen, Schell, Justin, King, Katelyn, Thomer, Andrea, Wehrly, Kevin, and Lopez-Fernandez, Hernan
- Description:
- Archives at the Institute for Fisheries Research (IFR) hold records of thousands of lake surveys from the University of Michigan and Michigan Department of Natural Resources. The records contained in this dataset are jpeg images of the index card records from the IFR surveys. Images include the front of the card and when available, the back of a card. and Treatment Report Chemical Rehabilitation cards detail the rehabilitation project that occurred in a lake. This includes the date treated, chemical used, objective of the treatment, and treatment methods. In addition, notes on the pre-treatment condition (e.g. air and water temperature) and post-treatment condition are included. These cards complement the CJUS and CEVA cards.
- Keyword:
- Lake, fish, management, and chemical treatment
- Citation to related publication:
- Erickson, Jim. "New crowdsourced project to digitize Michigan lake and fish records, looking for climate trends." University of Michigan School of Environment and Sustainability News. March 17, 2021. URL: https://seas.umich.edu/news/new-crowdsourced-project-digitize-michigan-lake-and-fish-records-looking-climate-trends
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Right dentary of Tritemnodon (University of Michigan Museum of Paleontology catalog number UMMP VP 21186) as a series of TIFF images. Raw projections are not included in this dataset. The reconstructed slice data from the scan are offered here as a series of unsigned 16-bit integer TIFF images. The upper left corner of the first image (*_0000.tif) is the XYZ origin.
- Keyword:
- Paleontology, Fossil, CT, Hyaenodonta, UMMP, University of Michigan Museum of Paleontology, Eocene, and dc015725-d9cb-cc52-2868-666c63140c06
- Discipline:
- Science
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- Creator:
- Giri, Bapun, Kinsky, Nathaniel, and Diba, Kamran
- Description:
- The research that produced this data tested how sleep loss impacted the phenomena of reactivation and replay, which occurs when recently-learned information is reactivated/replayed during post-learning sleep/rest.
- Keyword:
- Hippocampus, Memory, Sleep, Sleep Deprivation, and Electrophysiology
- Citation to related publication:
- Giri, B., Kinsky, N.R., Kaya, U., Maboudi, K., Abel, T., Diba, K. (2024). Sleep loss diminishes hippocampal reactivation and replay. Nature, (2024). https://doi.org/10.1038/s41586-024-07538-2
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Please see https://deepblue.lib.umich.edu/data/collections/gx41mj91r?locale=en for these data. Data consist of two batch scans (one batch of three scans followed by one batch of two scans, totaling five CT scans) containing slabs from the Marshall Sandstone; and edited data corresponding to figured specimens (UMMP VP 119343, 119345, 119346, and 118281). Reconstructed CT slices for Slabs of Vertebrate (University of Michigan Museum of Paleontology catalog number UMMP VP 119342etseq) as a series of TIFF images. Raw projections are not included in this dataset. The reconstructed slice data from the scan are offered here as a series of unsigned 16-bit integer TIFF images. The upper left corner of the first image (*_0000.tif) is the XYZ origin. Cropped and adjusted volumes are included for figured specimens UMMP VP 118281, 119343, 119345, and 119346 as-is, with scan parameter notes in respective zip folders. Data include: UMMP VP 119342, 119343, 119344, 119345, 119346, 119347, 119348, 119349, 119350, 119351, 119501 corresponding with the following UUIDs: 882a6fa3-b7cc-62fa-e117-694b0d14dde1 fc227a73-300f-af25-aba8-5360f843aa14 57af0b20-3e98-3bd9-3560-e16ac8a528ac 0c936931-8cb0-57e7-5847-fa37c2066d72 c6f93408-47d1-6238-c093-902b976d021b 95f8fc96-7331-4142-b6a2-09339e8a4d15 e520d6c4-1de1-999e-7a02-c55056c76d33 74d33ea5-f147-13c2-3e44-6968df7ac7bf 82ca3e68-d05a-971d-5704-293d4601b62e afb2c66a-5b73-a99b-1dac-8f8efe29d90a 4b5ba3c4-99ba-cd2c-d2e6-6d6f5501a526
- Keyword:
- Paleontology, Fossil, CT, Vertebrate, Actinopterygii, Sarcopterygii, Chondrichthyes, UMMP, University of Michigan Museum of Paleontology, Carboniferous, Marshall Sandstone, Mississippian, CTEES, and 119342 119343 119344 119345 119346 119347 119348 119349 119350 119351 119501 882a6fa3-b7cc-62fa-e117-694b0d14dde1 fc227a73-300f-af25-aba8-5360f843aa14 57af0b20-3e98-3bd9-3560-e16ac8a528ac 0c936931-8cb0-57e7-5847-fa37c2066d72 c6f93408-47d1-6238-c093-902b976d021b 95f8fc96-7331-4142-b6a2-09339e8a4d15 e520d6c4-1de1-999e-7a02-c55056c76d33 74d33ea5-f147-13c2-3e44-6968df7ac7bf 82ca3e68-d05a-971d-5704-293d4601b62e afb2c66a-5b73-a99b-1dac-8f8efe29d90a 4b5ba3c4-99ba-cd2c-d2e6-6d6f5501a526
- Citation to related publication:
- JAMES V. ANDREWS, ETHAN A. SHIRLEY, AND RODRIGO T. FIGUEROA. VERTEBRATES OF THE BLUE RIDGE ESKER (MISSISSIPPIAN, MARSHALL SANDSTONE) OF MICHIGAN. Contributions from the Museum of Paleontology, University of Michigan, Vol. 36, no. 3, pp. 1–16, 2024
- Discipline:
- Science
-
- Creator:
- Stringer, Kathleen
- Description:
- Organ-specific metabolic pathways, including those related to mitochondrial metabolism, could provide insight to mechanisms underlying sepsis-induced organ dysfunction. However, it remains unclear if metabolic changes precede or if they result from organ dysfunction. We determined if blood levels of the mitochondrial metabolites acetylcarnitine and L-carnitine correlate with organ-specific signals of sepsis-induced dysfunction. To achieve this goal, we performed a series of translational analyses of two cohorts of human sepsis and experiments using a murine model of polymicrobial sepsis. We evaluated the association between mitochondrial metabolites and clinical indices of organ function. We found that in the blood of patients with sepsis or septic shock, metabolic indices of dysfunctional mitochondrial beta-oxidation that were correlated with clinical measures of renal and liver dysfunction. The relevance of these findings was corroborated in an experimental model that showed distinct patterns of change in organ metabolism that correlated with the blood acetylcarnitine to L-carnitine ratio. In addition, sepsis-induced changes in organ metabolism were distinct in the liver and kidney highlighting the unique energy economies of each organ. Importantly, these metabolic changes preceded histological evidence of cellular apoptosis. In conclusion, sepsis-induced disruption in blood levels of specific metabolites could serve as more reliable indicators of early organ dysfunction than those we presently use. These early metabolite signals provide mechanistic insights to altered metabolism that may hold the key to timely identification of impending organ dysfunction. This could lead to strategies directed at the prevention of sepsis-induced organ failure.
- Keyword:
- sepsis, organ dysfunction, and biomarker discovery
- Citation to related publication:
- pending
- Discipline:
- Science
-
- Creator:
- Ludlow, Andrew
- Description:
- Single molecule long read RNA/cDNA sequencing of TERT revealed 45 TERT mRNA variants including 13 known and 32 novel variants. Among the variants, TERT Delta 2-4, which lacks exons 2-4 but retains the original open reading frame, was selected for further study. Induced pluripotent stem cells and cancer cells express higher levels of TERT Delta 2-4 compared to primary human bronchial epithelial cells. Overexpression of TERT Delta 2-4 enhanced clonogenicity and resistance to cisplatin-induced apoptosis. Knockdown of endogenous TERT Delta 2-4 in Calu-6 cells reduced clonogenicity and resistance to cisplatin. Our results suggest that TERT Delta 2-4 enhances cancer cells’ resistance to intrinsic apoptosis. RNA sequencing following knockdown of Delta 2-4 TERT indicates that translation is downregulated and that mitochondrial related proteins are upregulated compared to controls.
- Keyword:
- TERT, Alternative splicing, Telomere, and Telomerase
- Discipline:
- Science