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- Creator:
- Sergio E. Vidal-Luengo
- Description:
- This database contains spacecraft and ground-based magnetic field observations made to study the propagation of the preliminary impulse triggered by interplanetary shocks with different inclinations in the XZ plane.
- Keyword:
- Cluster, Dynamic pressure pulse, THEMIS, SuperMag, Magnetosphere, MMS, and Intermagnet
- Citation to related publication:
- (to be submitted) Vidal-Luengo, S. E., Moldwin, M. B. (2021). Shock Inclination Effects in Preliminary Impulse Propagation Observed by Ground-Based Magnetometers and the Heliophysics System Observatory
- Discipline:
- Science
-
- Creator:
- Shi, Xuetao, Elvati, Paolo, and Violi, Angela
- Description:
- Non-thermal plasma systems offer unique opportunities in the fields of bio-imaging, drug delivery, photovoltaics, microelectronics manufacturing. Such interests are largely inspired by the fact that hot plasma electrons coexist with neutral species and ions close to room-temperature under non-thermal plasma conditions. Modeling of these systems requires a deep understanding of the atomistic processes underlying the rich chemistry of the various radicals and ions with the nascent nanoparticle surface. A key parameter for determining the contribution of a certain radical/ion species to the nanoparticle surface growth, called sticking coefficient, is computed as a weighted sum from the simulated sticking outcomes with different collision velocities drawn from a Maxwell-Boltzmann distribution at certain temperatures. In this work, the collisions of SiHx (x=1-4) fragments and silicon cluster (Si4, Si2H6, and Si29H36) surfaces, responsible for the sticking coefficients, are simulated by molecular dynamics (MD) with a reactive force field. The dependence of sticking coefficients on temperature, H coverage of both silane fragments and cluster surfaces, and the size of the cluster, are systematically examined. And the mechanism underlying the sticking events, specifically the conversion of physical aggregation to chemisorption is investigated to better understand the complex interplay between factors influencing the surface growth. The detailed and multi-parameter model of sticking coefficients, accompanied by the mechanism study of physisorption to chemisorption conversion, provides a more accurate and robust approximation of surface growth rate using sticking coefficients, and a deeper understanding of surface growth processes, for the wider non-thermal plasma simulation community.
- Keyword:
- Sticking coefficients, Silanes, Molecular Dynamics, Non-equilibrium, and Aggregation mechanisms
- Citation to related publication:
- Shi, X., Elvati, P., Violi, A. (2021). On the growth of Si nanoparticles in non-thermal plasma: physisorption to chemisorption conversion. J. Phys. D. Submitted.
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for vertebrae of Phenacolemur (University of Michigan Museum of Paleontology catalog number UMMP VP 94723) 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, Paromomyidae, UMMP, University of Michigan Museum of Paleontology, Eocene, CTEES, and 31cf6e4a-86dd-9452-49f4-c5ce0d946613
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for a right medial cuneiform (entocuneiform) of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP VP 81820), as a series of TIFF images. Raw projections are not included in this dataset.
- Keyword:
- Paleontology, Fossil, CT, Primates, Notharctidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and CTEES
- Discipline:
- Science
-
- Creator:
- Liemohn, Michael W and Wooden, Paige
- Description:
- Journals sometimes focus the attention of the research community by having a special collection, sometimes an entire special issue, devoted to a single topic. A reasonable question to ask is whether the extra effort of organizing, promoting, and maintaining the special collection is worthwhile. The paper that this data set accompanies examines paper impact in the Journal of Geophysical Research Space Physics, separating the special collection papers from the non-special-collection submissions. The conclusion is that special collections are worth the extra work.
- Keyword:
- journal special collections, bibliometrics, citations, and downloads
- Citation to related publication:
- Liemohn, M. W., & Wooden, P. (2019). Editorial: Impact of special collections in JGR Space Physics. Journal of Geophysical Research Space Physics. https://doi.org/10.1002/essoar.10501036.2
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for a right navicular of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP VP 81831), as a series of TIFF images. Raw projections are not included in this dataset.
- Keyword:
- Paleontology, Fossil, CT, Primates, Notharctidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and CTEES
- Discipline:
- Science
-
- Creator:
- Zalmout, Iyad S, Sanders, William J, MacLatchy, Laura M, Gunnell, Gregg F, Al-Mufarreh, Yahya A, Ali, Mohammad A, Nasser, Abdul-Azziz H, Al-Masari, Abdu M, Al-Sobhi, Salih A, Nadhra, Ayman O, Matari, Adel H, Wilson, Jeffrey A, and Gingerich, Philip D
- Description:
- Reconstructed CT slices for the partial cranium of the holotype specimen of Saadanius hijazensis in DICOM format. Data supporting the publication: New Oligocene primate from Saudi Arabia and the divergence of apes and Old World monkeys, https://doi.org/10.1038/nature09094 Raw projections are not included in this dataset.
- Keyword:
- Paleontology, Fossil, Saudi Arabia, CT, Primate, Oligocene, Hominoidea, Cercopithecoidea, University of Michigan Museum of Paleontology, and UMMP
- Citation to related publication:
- Zalmout, I., Sanders, W., MacLatchy, L. et al. New Oligocene primate from Saudi Arabia and the divergence of apes and Old World monkeys. Nature 466, 360–364 (2010). https://doi.org/10.1038/nature09094, A cast of this specimen is held by the University of Michigan Museum of Paleontology (UMMP) under catalog number 14200., and 3D surface model viewable on UMORF site : https://umorf.ummp.lsa.umich.edu/wp/specimen-data/?Model_ID=1408
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for a right cuboid of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP VP 81823), as a series of TIFF images. Raw projections are not included in this dataset.
- Keyword:
- Paleontology, Fossil, CT, Primates, Notharctidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and CTEES
- Discipline:
- Science
-
- Creator:
- Moore, Talia Y, Villacis Nunez, C Nathaly, Ray, Andrew P, and Cooper, Kimberly L
- Description:
- Hind limbs can undergo dramatic changes in loading conditions during the transition from quadrupedal to bipedal locomotion. For example, the most early diverging bipedal jerboas (Rodentia: Dipodidae) are some of the smallest mammals in the world, with body masses that range 2-4 grams. The larger jerboa species exhibit developmental and evolutionary fusion of the central three metatarsals into a single cannon bone. We hypothesize that body size reduction and metatarsal fusion are mechanisms to maintain the safety factor of the hind limb bones despite the higher ground reaction forces associated with bipedal locomotion. Using finite element analysis to model collisions between the substrate and the metatarsals, we found that body size reduction was insufficient to reduce bone stress on unfused metatarsals, based on the scaled dynamics of larger jerboas, and that fused bones developed lower stresses than unfused bones when all metatarsals are scaled to the same size and loading conditions. Based on these results, we conclude that fusion reinforces larger jerboa metatarsals against high ground reaction forces. Because smaller jerboas with unfused metatarsals develop higher peak stresses in response to loading conditions scaled from larger jerboas, we hypothesize that smaller jerboas use alternative dynamics of bipedal locomotion that reduces the impact of collisions between the foot and substrate.
- Keyword:
- finite element, functional morphology, bipedal, jerboa, metatarsus, and bone fusion
- Citation to related publication:
- Villacis Nunez, Ray, Cooper, Moore (submitted). Body size reduction and metatarsal fusion were distinct mechanisms to resist bending as jerboas (Dipodidae) transitioned from quadrupedal to bipedal.
- Discipline:
- Science and Engineering
-
- Creator:
- Tye, Alexander R, Niemi, Nathan A, Safarov, Rafig T, Kadirov, Fakhraddin A, Babayev, Gulam R
- Description:
- Apatite fission track thermochronometry data were collected from the Eastern Greater Caucasus orogen, Azerbaijan. Thermochronometry data constrain the history of exhumation and deformation of rocks within the orogen, which is an active accretionary prism. Thermochronometry data record the timing of cooling of a rock sample beneath a given closure temperature. Given an assumed or inferred geothermal gradient, thermochronometric ages can be used to infer exhumation rates and make interpretations about rates of deformation in orogens. The apatite fission track data presented here are analyzed in concert with apatite (U-Th)/He and zircon (U-Th)/He ages reported in Tye et al., in prep., to characterize the exhumation history of the Eastern Greater Caucasus.
- Keyword:
- thermochronometry, apatite fission track, Caucasus
- Citation to related publication:
- Tye, A. R., Niemi, N. A., Safarov, R. T., Kadirov, F. A., & Babayev, G. R. (2021). Sedimentary response to a collision orogeny recorded in detrital zircon provenance of Greater Caucasus foreland basin sediments. Basin Research, 33(2), 933–967. https://doi.org/10.1111/bre.12499
- Discipline:
- Science
-
- Creator:
- Umaña, María Natalia and Arellano, Gabriel
- Description:
- The objective of this study was to examine the existence of congruent tree growth responses to different extreme climatic events –hurricanes and drought–affecting tropical wet forests.
- Keyword:
- Dendrometers , El Niño Southern Oscillation (ENSO), Hurricane Maria, Puerto Rico, and Tropical Forests
- Citation to related publication:
- Umaña, M.N.and Arellano G. In press. Legacy effects of drought on tree growth responses to hurricanes. Ecography. https://doi.org/10.1111/ecog.05803
- Discipline:
- Science
-
- Creator:
- Lee, Dahee, Panicker, Veena, and Landis-Lewis, Zach
- Description:
- We use the term “performance summary display” (PSD) to mean a kind of visualization that relates performance levels to other types of information. In the context of healthcare organizations, PSDs are intended to be communicated to a healthcare professional, team, or organization. and Displays were identified, classified, and elements counted and coded. The performance summary display ontology provides a set of descriptions of components of displays that have been used to annotate performance feedback visualizations.
- Keyword:
- Performance
- Citation to related publication:
- Lee, D., Panicker, V., Gross, C., Zhang, J., & Landis-Lewis, Z. (2020). What was visualized? A method for describing content of performance summary displays in feedback interventions. BMC medical research methodology, 20(1), 90. https://doi.org/10.1186/s12874-020-00951-x
- Discipline:
- Health Sciences and Science
-
- Creator:
- Curlis, JD, Renney, TJ, Davis Rabosky, AR, and Moore, TY
- Description:
- Efficient comparisons of biological color patterns are critical for understanding the mechanisms by which organisms evolve in ecosystems, including sexual selection, predator-prey interactions, and thermoregulation. However, elongate or spiral-shaped organisms do not conform to the standard orientation and photographic techniques required for automated analysis. Currently, large-scale color analysis of elongate animals requires time-consuming manual landmarking, which reduces their representation in coloration research despite their ecological importance. We present Batch-Mask: an automated and customizable workflow to facilitate the analysis of large photographic data sets of non-standard biological subjects. First, we present a user guide to run an open-source region-based convolutional neural network with fine-tuned weights for identifying and isolating a biological subject from a background (masking). Then, we demonstrate how to combine masking with existing manual visual analysis tools into a single streamlined, automated workflow for comparing color patterns across images. Batch-Mask was 60x faster than manual landmarking, produced masks that correctly identified 96% of all snake pixels, and produced pattern energy results that were not significantly different from the manually landmarked data set. The fine-tuned weights for the masking neural network, user guide, and automated workflow substantially decrease the amount of time and attention required to quantitatively analyze non-standard biological subjects. By using these tools, biologists will be able to compare color, pattern, and shape differences in large data sets that include significant morphological variation in elongate body forms. This advance will be especially valuable for comparative analyses of natural history collections, and through automation can greatly expand the scale of space, time, or taxonomic breadth across which color variation can be quantitatively examined.
- Keyword:
- convolutional neural network, photography, sensory ecology, color evolution, vision, and image segmentation
- Citation to related publication:
- Curlis, Renney, Davis Rabosky, Moore (submitted) Batch-Mask: An automated Mask R-CNN workflow to isolate non-standard biological specimens for color pattern analysis.
- Discipline:
- Engineering and Science
-
- Creator:
- Malhotra, Garima and Ridley, Aaron
- Description:
- This research aims to understand the influence of lower thermospheric atomic oxygen ([O]) and dynamics on the thermospheric Semi Annual Oscillation (SAO). [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 compare the phase and amplitude of SAO from different simulations with empirical models and observational datasets, and explore different mechanisms that can improve the SAO in IT models.
- Keyword:
- Semi Annual Oscillation, SAO, T-I SAO, Thermospheric Dynamics, Thermospheric Semi Annual Oscillation, WACCM-X coupling with GITM, Global Ionosphere Thermosphere Model, WACCM-X, Whole Atmosphere Model, Vertical coupling, Meridional Circulation, Annual Oscillation, Thermospheric Intra-Annual Variations, and Semiannual Oscillation
- Citation to related publication:
- Malhotra, G., Ridley, A., Jones, M., (2021) Impacts of Lower Thermospheric Atomic Oxygen and Dynamics on Thermospheric Semiannual Oscillation using GITM and WACCM-X, Journal of Geophysical Research: Space Physics
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for HOLOTYPE jaw frag. of Trilophosaurus buettneri (University of Michigan Museum of Paleontology catalog number UMMP_VP_2338) 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, Trilophosauridae, UMMP, University of Michigan Museum of Paleontology, L. Triassic, CTEES, and 80ea727c-798c-5382-2ae7-eff7f13b66af
- Citation to related publication:
- Case, E.C. (1928) Indications of a Cotylosaur and of a New Form of Fish from the Triassic Beds of Texas, with Remarks on the Shinarump Conglomerate. Contributions from the Museum of Paleontology, University of Michigan Vol. 3(1):1-14. https://hdl.handle.net/2027.42/48181
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for postcrania (cervical vertebrae, L+R humerus, R scapula, R coracoid, L femur) of Stylemys nebrascensis (University of Michigan Museum of Paleontology catalog number UMMP VP 9318) 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, Testudinidae, UMMP, University of Michigan Museum of Paleontology, Oligocene, CTEES, and c38728f5-6f38-d862-7bcf-9745e69db222
- Citation to related publication:
- University of Michigan Museum of Paleontology, CTEES. (2022). CT Data of UMMP VP 9318, Stylemys nebrascensis skull [Data set], University of Michigan - Deep Blue Data. https://doi.org/10.7302/74pd-kb09
- Discipline:
- Science
-
- Creator:
- Townsend, Kirk F., Clark, Marin K., and Niemi, Nathan A.
- Description:
- These datasets support the findings of Townsend et al. (in review) investigating the timing of faulting relative to changes in the orientation of the North American-Pacific plate boundary. Coeval with development of an oblique plate boundary segment (i.e. the “Big Bend” of the San Andreas fault), active shortening is inferred to have initiated at ~5 Ma in the Western Transverse Ranges (WTR). However, new low-temperature thermochronometric transects yield Miocene to Pleistocene apatite (U-Th-Sm)/He cooling ages and partially reset zircon (U-Th)/He ages. Inverse thermal modelling indicate that reverse faulting initiated as early as 10 Ma, several million years prior to our current understanding of the timing of the Big Bend. New and existing thermochronometry data delineate the WTR as the locus of rapid post-Miocene exhumation, and demonstrate that similar exhumation is not present in the broader region surrounding the Big Bend. We posit that reverse faulting is localized in the WTR because of a weak underlying lithosphere and predates the more recent geometric anomaly of the restraining bend in the transform margin.
- Keyword:
- Reverse faults, Fault initiation, Fault propagation, Low-temperature thermochronometry, Western Transverse Ranges, and San Andreas Fault
- Citation to related publication:
- Townsend, K. F., Clark, M. K., & Niemi, N. A., in review, Reverse faulting within a continental plate boundary transform system. Tectonics
- Discipline:
- Science
-
Dynamical Heating in the Martian Thermosphere: Temperatures, Winds and Thermal Balances using M-GITM
- Creator:
- Bougher, S. W. and Pilinski, M. D.
- Description:
- The NASA MAVEN (Mars Atmosphere and Volatile Evolution) spacecraft, which is currently in orbit around Mars, has been taking systematic measurements of the densities and deriving temperatures in the upper atmosphere of Mars (between about 140 to 240 km above the surface) since late 2014. Wind measurement campaigns have also been conducted once per month for 5-10 orbits since 2016. These densities, temperatures and winds change with time (e.g. solar cycle, season, local time) and location, and sometimes fluctuate quickly. Global dust storm events are also known to significantly impact these density, temperature and wind fields in the Mars thermosphere. For the current project, in-situ measured winds and corresponding argon density derived temperatures are combined to trace the circulation patterns and investigate their convergence and divergence locations and impacts throughout the Mars thermosphere. M-GITM computed thermal balance terms are subsequently extracted to investigate the processes required to maintain the temperature distribution around the planet. For this work, Mars Year #33 (MY33) Neutral Gas and Ion Mass Spectrometer (NGIMS) measurements have been obtained by the MAVEN team for this purpose (see these representative works: (Bougher et al., 2017; Stone et al., 2018; Benna et al., 2019). These temperature and wind fields are compared to simulations from a computer model of the Mars atmosphere called M-GITM (Mars Global Ionosphere-Thermosphere Model), developed at U. of Michigan. Since the global circulation plays a role in the structure, variability, and evolution of the atmosphere, understanding the processes that drive the winds in the upper atmosphere of Mars also provides the needed context for understanding temperature distributions and underlying thermal balances throughout the atmosphere. Three dimensional M-GITM simulations for three of the four Mars cardinal seasons (Ls = 0, 90, 270) for MY33 were conducted for detailed comparisons with NGIMS temperature and wind distributions (Pilinski et al. 2022). Corresponding M-GITM datacubes used to extract these temperatures (plus winds) along the trajectory of each orbit path between 140 and 240 km, are provided in this Deep Blue Data archive. A single README file is included that details the contents of each datacube file. In addition, this general README file summarizes the inputs and outputs of each M-GITM simulation interval used for this study. Finally, a basic version of the M-GITM code can be found on Github at https:/github.com/dpawlows/MGITM.
- Keyword:
- MAVEN, Mars thermosphere, global dynamics, and heat balances owing to winds
- Citation to related publication:
- Pilinski, M. D., K. J. Roeten, S. W. Bougher and M. Benna, Dynamical Heating in the Martian Thermosphere, Journal Geophysical Res., XXX, (forthcoming - 2022). doi: .....
- Discipline:
- Science
-
- Creator:
- Bougher, S. W. and Parkinson, C. D.
- Description:
- Understanding the state and composition of an exoplanetary atmosphere depends upon several parameters such as heating, cooling, mixing and reactions between constituent chemical species. Only a few types of atmospheric species can be detected remotely spectroscopically and only if their abundance is large enough to be detectable. In this initial study, we model the atmosphere of a Venus-like planet orbiting the M-type star GJ 436 to determine the global neutral temperature structure, winds, and energy balance as the radial distance of the planet from the star decreases.
- Keyword:
- Venus-like exoplanet, upper atmospheres , and heat balances
- Citation to related publication:
- C. D. Parkinson, S. W. Bougher, F. P. Mills, R. Hu, G. Gronoff, J. Li, A. Brecht, D. Adams, and Y. L. Yung. Venus as an Exoplanet: I. An Initial Exploration of the 3-D Energy Balance for a CO2 Exoplanetary Atmosphere Around an M-Dwarf Star, J. Geophysical Research, X, (2022). doi:....
- Discipline:
- Science
-
- Creator:
- Larson, Joanna G, Hamar, Leslie, Whitcher, Courtney, Farrugia, Nicholas, and Schwarz, Eva
- Description:
- These are the data required to implement the authentic research experience (ARE) that we created and describe in our paper "The Batrachian Barf Bowl: An authentic research experience using ecological data from frog diets." We created an open-source “bowl game” competition that challenges students to identify, measure, and compare diet items across vouchered frog specimens.
- Keyword:
- Frog, Diet, Ecology, Science Education, Authentic Research Experience (ARE), Biodiversity, Herpetology, Museum Collections, Remote Learning, and Undergraduate
- Citation to related publication:
- Larson, J. G., Crowell, H. L., Walsh, L. L., & Davis Rabosky, A. R. (2022). The Batrachian Barf Bowl: An authentic research experience using ecological data from frog diets. Ecology and Evolution, 12, e9095. https://doi.org/10.1002/ece3.9095 and The above article is also available in Deep Blue Documents at https://hdl.handle.net/2027.42/174122
- Discipline:
- Science
-
- Creator:
- Murray, Kendra E, Niemi, Nathan A, and Clark, Marin C
- Description:
- These data were produced in the scope of research into understanding the application of zircon (U-Th)/He thermochronometric data derived from rocks with complex radiation damage distributions to the extraction of long-term (>1 Gyr) thermal histories of the Earth's upper crust. The samples used in this study were collected from the Front Range in Colorado, USA. The low-temperature (apatite and zircon (U-Th)/He) thermochronometric ages presented in this data set are sensitive to near-surface temperatures (~80C and 180C, respectively) and record the progressive exhumation of the rock mass from which the samples were collected towards the Earth's surface. These thermochronometric ages, and the differences between them, provide insight into the deep-time (~1000 Ma - 100 Ma) thermal history of the Colorado Front Range.
- Keyword:
- apatite, zircon, helium, (U-Th)/He, (U-Th-Sm)/He, thermochronometry, thermochronology, low-temperature, Colorado, Boulder, geology, Colorado Mineral Belt, and Front Range
- Discipline:
- Science
-
- Creator:
- McCuen, Brett A.
- Description:
- The data were used to study the high-frequency geomagnetic disturbances within the magnetic field data. Included in this repository are the python scripts that perform an identification and classification of high-frequency signals within the magnetometer data that is downloaded from the databases listed in the Methodology section. All analysis and plots were created using subsequent Python libraries. The machine learning study implemented libraries from the sci-kit learn software. All of the specific methodology can be accessed in the readme.txt script.
- Keyword:
- geomagnetic field, high frequency, space weather, transient-large-amplitude, TLA, high frequency dB/dt, and dB/dt search algorithm
- Discipline:
- Science
-
- Creator:
- Swiger, Brian M, Liemohn, Liemohn W, Ganushkina, Natalia Y, and Dubyagin, Stepan V
- Description:
- The data included are those that were used in the creation of a model described in the manuscript titled "Predictions of Electron Flux in the near-Earth Plasma Sheet from Solar Wind Driving" by Swiger et al., 2022, published in the Space Weather Journal. doi: pending, TBD and The manuscript describes the development and assessment of a model that predicts electron flux (from 83 eV to 93 keV energies) in a region of Earth's magnetosphere called the plasma sheet. The model uses inputs of solar wind parameters including, but not limited, to solar wind speed and the interplanetary magnetic field.
- Keyword:
- magnetosphere plasma, machine learning, neural network, space weather forecasting, electrons in space, Earth's plasma sheet, and solar wind driving of magnetosphere
- Citation to related publication:
- Swiger, B. M., Liemohn, M. W., Ganushkina, N. Y., & Dubyagin, S. V. (2022). Energetic electron flux predictions in the near-Earth plasma sheet from solar wind driving. Space Weather, 20, e2022SW003150. https://doi.org/10.1029/2022SW003150
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for tooth-apical of Physeter (University of Michigan Museum of Paleontology catalog number UMMP_R_102) 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:
- Sclerochronology, CT, Physeteridae, UMMP, University of Michigan Museum of Paleontology, Ford-Mitchell Collection, Holocene, and CTEES
- Discipline:
- Science
-
- Creator:
- Zhang, Yingxiao MI and Steiner, Allison MI
- Description:
- In the dataset, "_T" means temperature effects only, without "_T" means temperature and precipitation effects are both considered, "_co2" means CO2 effects are considered on the based of temperature and precipitation effects.
- Keyword:
- pollen emission, climate change, and public health
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for tooth, occlusal part of sectioned tooth of Physeter (University of Michigan Museum of Paleontology catalog number UMMP_R_102) 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:
- Sclerochronology, CT, Physeteridae, UMMP, University of Michigan Museum of Paleontology, Ford-Mitchell Collection, Holocene, and CTEES
- Citation to related publication:
- University of Michigan Museum of Paleontology, CTEES. CT Data of UMMP R 102, Physeter tooth (apical part of sectioned tooth) [Data set], University of Michigan - Deep Blue Data. https://doi.org/10.7302/msdh-gc24
- Discipline:
- Science
-
- Creator:
- Minallah, Samar and Steiner, Allison L.
- Description:
- Data format: netcdf4 , Time series duration: 2016-06-01 to 2020-10-31, Temporal resolution: Daily, and Spatial resolution: The model output was regridded to a 0.05 degree rectilinear (lat/lon) grid using the conservative remapping method ("cdo remapcon" tool).
- Keyword:
- Land surface hydrology, Great Lakes, Land surface model, NOAH-MP, WRF-Hydro, and Hydrologic modeling
- Citation to related publication:
- Minallah, S. (2022). A Study on the Atmospheric, Cryospheric, and Hydrologic Processes Governing the Evolution of Regional Hydroclimates (Doctoral dissertation, University of Michigan Ann Arbor). https://dx.doi.org/10.7302/6223
- Discipline:
- Science and Engineering
-
- Creator:
- Yu, Chi-Lin, Eggleston, Rachel, Zhang, Kehui, Nickerson, Nia, Sun, Xin, Marks, Rebecca A., Hu, Xiaosu, Brennan, Jonathan R. , Wellman, Henry M. , and Kovelman, Ioulia
- Description:
- The dataset includes 51 children (age range = 6-12 years) who listened to the first chapter of Alice’s Adventures in Wonderland during fNIRS neuroimaging. We also provide the text of the story with several word-by-word predictors motivated by research in Theory of Mind development and language. These annotated, naturalistic datasets can be used to replicate prior work and test new hypotheses about everyday social cognition and natural language comprehension in the developing brain.
- Keyword:
- neuroimaging, fNIRS, Children, Theory of Mind, Language, Naturalistic Neuroscience, and Story Listening
- Discipline:
- Science
-
- Creator:
- Bacon, Elizabeth, Hanson, Erika N., Austin, Sarah, Delacroix, Emerson, Uhlmann, Wendy, Roberts, Scott, and Resnicow, Ken
- Description:
- Survey respondents were cancer-affected patients seen at an academic medical center, and self-reported experiences with genetic testing and counseling. This is raw dataset is saved in comma separated value (.csv) format.
- Keyword:
- Genetic Testing, Clinician Recommandation , NCCN Guidelines, Hereditary Genetic Testing, and Disparities in Genetic Counseling
- Citation to related publication:
- American Association of Kidney Patients: A List of Support Groups in Michigan. https://aakp.org/wp-content/uploads/2020/06/Support-Groups-Michigan.pdf
- Discipline:
- Science and Health Sciences
-
- Creator:
- Bougher, Stephen W. and Roeten, Kali J.
- Description:
- The NASA MAVEN (Mars Atmosphere and Volatile Evolution) spacecraft, which is currently in orbit around Mars, has been taking systematic measurements of the densities and deriving temperatures in the upper atmosphere of Mars between about 140 to 240 km above the surface since late 2014. Wind measurement campaigns are also conducted once per month for 5-10 orbits. These densities, temperatures and winds change with time (e.g. solar cycle, season, local time) and location, and sometimes fluctuate quickly. Global dust storm events are also known to significantly impact these density, temperature and wind fields in the Mars thermosphere. For the current project, the derived temperatures and O plus CO2 densities are used to characterize the upper atmosphere dayside thermal and density structure. Presently, more than 6 years of Neutral Gas and Ion Mass Spectrometer (NGIMS) measurements of neutral densities have been obtained by the MAVEN team (e.g. Mahaffy et al. 2015; Bougher et al 2015; Elrod et al., 2017; 2021; Stone et al. 2018; Gupta et al., 2021). Measured neutral density distributions are compared to simulations from a computer model of the Mars atmosphere called M-GITM (Mars Global Ionosphere-Thermosphere Model), developed at U. of Michigan. Since the global circulation plays a role in the structure, variability, and evolution of the atmosphere, understanding the processes that drive the winds in the upper atmosphere of Mars also provides the needed context for understanding density and temperature distributions and how the atmosphere behaves as a whole system. Three dimensional M-GITM simulations for extreme Mars seasonal and solar cycle conditions were conducted for detailed comparisons with NGIMS derived temperatures and O/CO2 ratio distributions (Bougher et al. 2022). Extracted model densities and temperatures along the MAVEN inbound trajectory of each orbit path (between ~300 km and periapsis) are provided in this Deep Blue Data archive. Corresponding M-GITM heat balance terms are also provided in vertical 1-D tabulated formats. README files are included for each suite of 1-D "flythru" tables, detailing the contents of each file. In addition, a general README file is provided that summarizes the inputs and outputs of the M-GITM code simulations for this study. Finally, a basic version of the M-GITM code can be found on Github at https:/github.com/dpawlows/MGITM.
- Keyword:
- Mars, NASA MAVEN Mission, NGIMS instrument , and M-GITM numerical simulations
- Citation to related publication:
- Bougher, S. W., Benna, M., Elrod, M., Roeten, K., & Thiemann, E. (2023). MAVEN/NGIMS dayside exospheric temperatures over solar cycle and seasons: Role of dayside thermal balances in regulating temperatures. Journal of Geophysical Research: Planets, 128, e2022JE007475. https://doi.org/10.1029/2022JE007475
- Discipline:
- Science
-
- Creator:
- Walsh, Lisa L
- Description:
- Stable isotope values of carbon (δ13C) and nitrogen (δ15N) from Virginia opossum (Didelphis virginiana) guard hairs were analyzed to evaluate the ecology and winter adaptations in opossums by Dr. Lisa L. Walsh as part of her Ph.D. thesis in the Ecology and Evolutionary Biology Department. The collection of stable isotope data took place from 2017 to 2019. Guard hair was processed at the University of Michigan and analyzed by the University of New Mexico Center for Stable Isotopes (UNM-CSI, USA). Captive and wild opossums were evaluated for evidence of biannual or incomplete biannual molting, a mammalian adaptation to harsh winters. Results suggest opossums do not exhibit either winter molting strategy and that guard hairs capture the opossum’s lifetime diet (Walsh and Tucker 2021). The stable isotope values were used to test the hypothesis that a Type A generalist’s niche is positively correlated with habitat heterogeneity and to evaluate which climate variables best explained isotope values. There was a positive correlation between isotopic niche size and habitat-diversity indexes (Walsh and Tucker 2020). The δ13C values from opossums in the Midwest and Northeast to test whether opossums rely on anthropogenic trash to survive extreme winters. There was no significant relationship between δ13C and winter variables, but there was a significant increase in variance of Midwest opossums’ δ13C after the 1970 corn agricultural boom (Walsh and Tucker 2023).
- Keyword:
- stable isotope, Virginia opossum, mesopredator, ecology, and mammal
- Citation to related publication:
- Walsh, L.L. and P.K. Tucker. 2020. Habitat heterogeneity is correlated with isotopic niche breadth across the range of a mammalian generalist mesopredator. Ecosphere, 11(12): e03314. https://doi.org/10.1002/ecs2.3314, Walsh, L.L. and P.K. Tucker. 2021. Stable isotope values suggest opossums (Didelphis virginiana) at their northern edge do not seasonally molt. Northeastern Naturalist, 28(1): 1-8. https://doi.org/10.1656/045.028.0101, and Walsh, L.L., and P.K. Tucker. 2023. Evaluating anthropogenic influence on a mesopredator: Opossum (Didelphis virginiana) isotope values influenced by corn agriculture more than urbanization. Canadian Journal of Zoology, 101: https://doi.org/10.1139/cjz-2021-0172.
- Discipline:
- Science
-
- Creator:
- Jenkins, G. J. and Bougher, S. W.
- Description:
- In early 2019, the Mars Atmosphere and Volatile Evolution (MAVEN) mission underwent an ~2-month aerobraking campaign, during which time the spacecraft periapsis altitude was lowered from its nominal altitude range of 140-160 km to as low as ~123 km. Excluding spacecraft walk-in/out maneuvers, accelerometer measurements were made along 272 orbits with coverage spanning Ls 340-3°, latitudes ~5-54°S, longitudes 0-360°, and Local Solar Time (LST) ~22-17 hours. In this study, we perform a diagnostic analysis of the full aerobraking data set by fitting 4-harmonic waves to mass densities. We then study the variations of these waves as a function of latitude with an emphasis on those observed previously in Mars’ thermosphere by MAVEN and other missions. Additionally, we utilize data collected during the same time period from the Mars Reconnaissance Orbiter’s Mars Climate Sounder to study the vertical propagation of waves originating from the middle atmosphere. Key results indicate that normalized wave amplitudes decrease with latitude, and this is consistent with the latitudinal structure of a diurnal Kelvin mode. We also observe that waves imprinted from the middle atmosphere show normalized amplitude growth with increasing altitude. A complete summary of data sets, analysis methodology, and scientific results is given. The purpose of this study is to add to the body of knowledge surrounding Martian atmospheric wave features and to provide further constraints for future numerical modeling and subsequent tidal mode identification.
- Keyword:
- MAVEN, Mars Thermosphere, Accelerometer Data Set, Global Data Set, and Wave Analysis of Tides
- Citation to related publication:
- Jenkins, G. A., Bougher, S. W., Lugo, R., Tolson, R. H., Zurek, R. W., Baird, D., Steele, L., Kass, D., Withers, P. (2023), MAVEN Accelerometer Observations of Thermospheric Densities during Aerobraking and Deep Dip 2: Wave Features and Connections to Upward Propagating Thermal Tides, Journal of Geophysical Research: Planets, xx, xx.
- Discipline:
- Science
-
- Creator:
- Title, Pascal O. and Bemmels, Jordan B.
- Description:
- The ENVIREM dataset v1.0 is a set of 16 climatic and 2 topographic variables that can be used in modeling species' distributions. The strengths of this dataset include their close ties to ecological processes, and their availability at a global scale, at several spatial resolutions, and for several time periods. The underlying temperature and precipitation data that went into their construction comes from the WorldClim dataset ( www.worldclim.org), and the solar radiation data comes from the Consortium for Spatial Information ( www.cgiar-csi.org). The data are compatible with and expand the set of variables from WorldClim v1.4 ( www.worldclim.org). For more information, please visit the project website: envirem.github.io
- Keyword:
- raster, species distribution modeling, and bioclimatic
- Citation to related publication:
- Title, P. O. and Bemmels, J. B. (2018), ENVIREM: an expanded set of bioclimatic and topographic variables increases flexibility and improves performance of ecological niche modeling. Ecography, 41: 291-307. http://doi.org/10.1111/ecog.02880
- Discipline:
- Science
-
- Creator:
- Johnson, JE and Molnar, PH
- Description:
- This IF compilation was assembled from the existing literature to understand if preservation biases affected the record of iron formations.
- Keyword:
- Archean ocean chemistry, temporal record of iron formations, and early Earth iron cycle
- Citation to related publication:
- Johnson, J. E., & Molnar, P. H. ( 2019). Widespread and persistent deposition of iron formations for two billion years. Geophysical Research Letters, 46, 3327– 3339. https://doi.org/10.1029/2019GL081970
- Discipline:
- Science
-
- Creator:
- Crisp, Dakota N., Cheung, Warwick, Gliske, Stephen V., Lai, Alan, Freestone, Dean R., Grayden, David B., Cook, Mark J., and Stacey, William C.
- Description:
- The data and the scripts are to show that seizure onset dynamics and evoked responses change over the progression of epileptogenesis defined in this intrahippocampal tetanus toxin rat model. All tests explored in this study can be repeated with the data and scripts included in this repository. and Dataset citation: Crisp, D.N., Cheung, W., Gliske, S.V., Lai, A., Freestone, D.R., Grayden, D.B., Cook, MJ., Stacey, W.C. (2019). Epileptogenesis modulates spontaneous and responsive brain state dynamics [Data set]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/r6vg-9658
- Keyword:
- evoked response, stimulation, bifurcation, epilepsy, seizure, divergence, and dynamics
- Citation to related publication:
- Crisp, D. N., Cheung, W., Gliske, S. V., Lai, A., Freestone, D. R., Grayden, D. B., Cook, M. J., & Stacey, W. C. (2020). Quantifying epileptogenesis in rats with spontaneous and responsive brain state dynamics. Brain Communications, 2(1). https://doi.org/10.1093/braincomms/fcaa048
- Discipline:
- Science, Engineering, and Health Sciences
-
- Creator:
- Nasser, Ahmad and Gumise, Wonder
- Description:
- The work on accelerating authenticated boot for embedded system resulted in designing an algorithm in python to perform the random address generation and cryptographic MAC calculation. The Sampled Boot schemes implemented in this package allow a significant reduction of the time needed to authenticate firmware images during startup, while still retaining a high degree of trust. This is particularly useful for automotive applications in which startup time constraints make secure boot a time prohibitive process. and Citation for this dataset: Nasser, A., Gumise, W. (2019). Authenticated Boot Acceleration Algorithm [Code and data]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/yeh1-1x17
- Keyword:
- Trusted Computing, IOT security, Embedded Security, and Cyber Physical Systems
- Citation to related publication:
- Nasser, A., Gumise, W., and Ma, D., "Accelerated Secure Boot for Real-Time Embedded Safety Systems," SAE Int. J. Transp. Cyber. & Privacy 2(1) : 35-48, 2019, https://doi.org/10.4271/11-02-01-0003
- Discipline:
- Science
-
- Creator:
- Linyan, Xiang and Oleg, Zikanov
- Description:
- The Liquid Metal Battery (LMB), a promising energy-storage device that contains liquid-metal interior, is studied numerically in the paper. The metal pad roll instability was modeled based on the open-source CFD software, OpenFOAM. It's based on the solver for simulations of incompressible multiphase flows multiphaseInterFoam modified to include the electromagnetic fields and account for the sharp variations of the electrical conductivity.
- Keyword:
- Liquid metal battery, Interfacial waves, Instability, and OpenFOAM
- Citation to related publication:
- Linyan Xiang (相林言) and Oleg Zikanov, “Numerical simulation of rolling pad instability in cuboid liquid metal batteries,” Physics of Fluids, vol. 31, no. 12, p. 124104, 2019, https://doi.org/10.1063/1.5123170 and Oleg Zikanov, "Shallow water modeling of rolling pad instability in liquid metal batteries." Theoretical and Computational Fluid Dynamics, 32, 325–347, 2018, https://doi.org/10.1007/s00162-018-0456-2
- Discipline:
- Science
-
- Creator:
- Tronson, Natalie C and Tchessalova, Daria
- Description:
- The main goal of this research was to identify potential molecular pathways that contribute to memory dysregulation and decline that persists long after illness or inflammation. We have previously established a subchronic immune challenge model that results in memory impairments months after the inflammatory challenge. This project aimed to determine whether memory impairments were accompanied by transcriptional dysregulation in memory related brain region (the hippocampus). These data show the differential gene expression as log2fold change (and p-value) in males and females 3 months after immune challenge (Supp Tables 1 and 2); after a subsequent immune challenge (Supp Tables 3 and 4); the differential regulation of genes in males and females (Supp Table 5); genes differentially expressed in the hippocampus of males and females at baseline (Supp Table 6) and the differential regulation of those genes in males and females after immune challenge (Supp Tables 7,8).
- Keyword:
- hippocampus, lipopolysaccharide, differential gene expression, RNA sequencing, neuroimmune, sex differences, learning and memory, and inflammation
- Citation to related publication:
- Tchessalova, D., & Tronson, N. C. (2019). Enduring and sex-specific changes in hippocampal gene expression after a subchronic immune challenge. BioRxiv, 566570. https://doi.org/10.1101/566570
- Discipline:
- Science and Health Sciences
-
- Creator:
- Gebarski, Benjamin B. and Becker, Udo
- Description:
- Files are uploaded as crystallographic information files (.cif), the standard text file format for representing crystallographic information. These files contain the optimized molecular models for pentavalent plutonium incorporation reactions into/onto barite, anglesite, celestine, anhydrite, aragonite, and calcite host minerals.
- Keyword:
- actinide, quantum mechanics, molecular model, plutonium, incorporation, surface, radioactive, contamination, and nuclear waste
- Citation to related publication:
- Gebarski, B. B. and Becker, U. Quantum-Mechanical Determination of the Incorporation of Pentavalent Plutonium into Carbonate and Sulfate Minerals. (2019) Geochimica et Cosmochimica Acta. https://doi.org/10.1016/j.gca.2019.10.015
- Discipline:
- Science
-
- Creator:
- Horsley, Timothy J. and Sampson, Christina P.
- Description:
- The data (raw data, composite files [processed], and some images) can be read by the program TerraSurveyor. Version 3.0.34.10 of the software was used to create the composite files in this deposit. and The magnetometer data was the second step in a geophysical survey program that began with magnetic susceptibility survey of a portion of the Weedon Island Preserve in St. Petersburg, Florida. Geophysical survey was used to map human occupation of the study area and to guide subsequent archaeological excavations.
- Keyword:
- magnetometry, geophysical survey, remote sensing, Florida archaeology, and coastal archaeology
- Citation to related publication:
- Sampson, C. P. (2019) Safety Harbor at the Weeden Island Site: Late Pre-Columbian Craft, Community, and Complexity on Florida's Gulf Coast. PhD Dissertation, University of Michigan. and Sampson, Christina Perry and Timothy J. Horsley. Using Multi-Staged Magnetic Survey and Excavation to Assess Community Settlement Organization: A Case Study from the Central Peninsular Gulf Coast of Florida. Advances in Archaeological Practice. Cambridge University Press: 18 December 2019. https://doi.org/10.1017/aap.2019.45
- Discipline:
- Science and Social Sciences
-
- Creator:
- Liemohn, Michael W
- Description:
- The editorial decision process for the Journal of Geophysics Research Space Physics is assisted by over 1,000 scientists every year, providing over 3,000 reviews per year. These statistics are presented for the years 2013 through 2018, showing some fluctuations but, overall, consistency in the response of the space physics research community to requests to serve as manuscript reviewers. Over half of these reviews are submitted on time, and the average time to review actually dropped as the load increased. This is greatly appreciated and the community is to be commended and thanked for their willingness to help make this journal thrive and remain a premiere publication in the field.
- Keyword:
- Editorial and reviewer statistics
- Citation to related publication:
- Liemohn, M. W. (2020). Editorial: Multiyear analysis of JGR Space Physics reviewing statistics. Journal of Geophysical Research Space Physics, 125, e2019JA027719. https://doi.org/10.1029/2019JA027719
- Discipline:
- Science
-
- Creator:
- Swiger, Brian M., Liemohn, Michael W., and Ganushkina, Natalia Y.
- Description:
- We sampled the near-Earth plasma sheet using data from the NASA Time History of Events and Macroscale Interactions During Substorms mission. For the observations of the plasma sheet, we used corresponding interplanetary observations using the OMNI database. We used these data to develop a data-driven model that predicts plasma sheet electron flux from upstream solar wind variations. The model output data are included in this work, along with code for analyzing the model performance and producing figures used in the related publication. and Data files are included in hdf5 and Python pickle binary formats; scripts included are set up for use of Python 3 to access and process the pickle binary format data.
- Keyword:
- neural network, plasma sheet, solar wind, machine learning, keV electron flux, deep learning, and space weather
- Citation to related publication:
- Swiger, B. M., Liemohn, M. W., & Ganushkina, N. Y. (2020). Improvement of Plasma Sheet Neural Network Accuracy With Inclusion of Physical Information. Frontiers in Astronomy and Space Sciences, 7. https://doi.org/10.3389/fspas.2020.00042
- Discipline:
- Science and Engineering
-
- Creator:
- James, David A. and Lokam, Nikhil
- Description:
- The object of this project is to provide researchers and students with a tool to allow them to develop an intuitive understanding of singular vectors and singular values. 2x2 matrices A with real entries map circles to ellipses; in particular, unit circles centered at the origin to ellipses centered at the origin. It is known that the points on the ellipse farthest from the origin correspond to the singular vectors of A. Users can use the GUI to enter matrices of their choice and explore to visually self-determine the singular vectors/values.
- Keyword:
- SVD, Singular Value Decomposition, Singular Vector, Singular Value, and Matrix
- Discipline:
- Science and Engineering
-
Quantifying near-surface rock strength on a regional scale from hillslope stability models - dataset
- Creator:
- Townsend, Kirk F., Gallen, Sean F., and Clark, Marin K.
- Description:
- These datasets support the findings of Townsend et al. (2020). In this article, we quantify rock strength using two novel applications of hillslope stability models, resulting in estimates of cohesive and frictional strength at the spatial scale of small watersheds. We compare these results against the direct-shear test dataset here for validation of our approach. We find that cohesive strength is dependent on the original burial depth of the sedimentary rocks studied here. The low-temperature thermochronometry data was used to assess the magnitude of burial.
- Keyword:
- Thermochronology, Thermochronometry, Direct-Shear, Landslides, Rock Strength, Landscape Evolution, and Geomorphology
- Citation to related publication:
- Townsend, K.F., Gallen, S.F., & Clark, M.K., in press, Quantifying near-surface rock strength on a regional scale from hillslope stability models: Journal of Geophysical Research Earth Surface. https://agupubs.onlinelibrary.wiley.com/doi/abs/10.1029/2020JF005665
- Discipline:
- Science
-
- Creator:
- Boles, Austin H and van der Pluijm, Ben
- Description:
- This data was generated as a chapter in the dissertation of Austin Boles.
- Keyword:
- authigenic illite, hydrogen isotopes, and 40Ar/39Ar isotopic analysis
- Citation to related publication:
- Boles, A., & Pluijm, B. van der. (2020). Locally Derived, Meteoric Fluid Infiltration Was Responsible for Widespread Late Paleozoic Illite Authigenesis in the Appalachian Basin. Tectonics, 39(7), e2020TC006137. https://doi.org/10.1029/2020TC006137
- Discipline:
- Science
-
- Creator:
- Brasch, Jonathan M, Elipot, Shane, and Arbic, Brian
- Description:
- For Drifters, HYCOM, MITgcm: Spectra and kinetic energy files. Please see readme.txt for a description of all data and code contained here. and - Compare kinetic energies (KE) of high-resolution global ocean models estimated from rotary spectra to KE in surface drifter observations. - Near-inertial KE is closer to drifter observations in models with frequently updated wind forcing - Internal tide KE is closer to drifter observations in models with topographic wave drag
- Keyword:
- oceanography, rotary spectra, kinetic energy, sea surface velocity, and drifters
- Citation to related publication:
- Elipot, S., Lumpkin, R., Perez, R. C., Lilly, J. M., Early, J. J., & Sykulski, A. M. (2016). A global surface drifter data set at hourly resolution. Journal of Geophysical Research: Oceans, 121(5), 2937–2966. https://doi.org/10.1002/2016JC011716
- Discipline:
- Science
-
- Creator:
- Zhang, Yizhen
- Description:
- We collected hours of functional magnetic resonance imaging data from human subjects listening to natural stories. We developed a predictive model of the voxel-wise response and further applied it to thousands of new words to understand how the brain stores and connects different concepts. and This is a dataset for the paper: Zhang, Y., Han, K., Worth, R., & Liu, Z. (2020). Connecting concepts in the brain by mapping cortical representations of semantic relations. Nature communications, 11(1), 1-13. https://doi.org/10.1038/s41467-020-15804-w. This project is also documented at https://osf.io/eq2ba/.
- Keyword:
- fMRI, natural story comprehension, neural encoding, semantic processing, word relations, and naturalistic stimuli
- Citation to related publication:
- Zhang, Y., Han, K., Worth, R., & Liu, Z. (2020). Connecting concepts in the brain by mapping cortical representations of semantic relations. Nature communications, 11(1), 1-13. https://doi.org/10.1038/s41467-020-15804-w
- Discipline:
- Science
-
- Creator:
- Moldwin, Mark B. and O'Brien, Paul
- Description:
- A new empirical model of the plasmapause location has been developed using density data from the plasma wave receiver onboard the CRRES spacecraft for nearly 1000 orbits. The “plasmapause” is identified here as the innermost sharp gradient in density (change of a factor of 5 in <0.5 L). Such a sharp gradient was observed on 73% of the CRRES inbound and outbound orbits that returned data. The plasmapause location is expressed as a linear function of Kp (previous 12 hour maximum) and local time. The model gives the linear best fit location of the plasmapause as well as the standard deviations of the model parameters.
- Keyword:
- Plasmapause and Plasmasphere
- Citation to related publication:
- Moldwin, M. B., Downward, L., Rassoul, H. K., Amin, R., and Anderson, R. R. (2002), A new model of the location of the plasmapause: CRRES results, J. Geophys. Res., 107( A11), 1339, doi:10.1029/2001JA009211 and O'Brien, T. P., and Moldwin, M. B. (2003), Empirical plasmapause models from magnetic indices, Geophys. Res. Lett., 30, 4, 1152. doi:10.1029/2002GL016007
- Discipline:
- Science
-
- Creator:
- Brang, David and Karthik, Ganesan
- Description:
- Data were acquired from 21 patients with intractable epilepsy undergoing clinical evaluation using iEEG. Patients ranged in age from 15-58 years (mean = 37.1, SD = 12.8) and included 10 females. Across all patients, data was recorded from a total of 1367 electrodes. Each participant were presented with multiple trials of auditory only and congruent audio-visual stimuli. On each trial a single phoneme was presented to the participant. Three variants of the tasks were used with each variant consisting of a different set of phonemes (variant A: /ba/ /da/ /ta/ /tha/, variant B: /ba/ /da/ /ga/, variant C: /ba/ /ga/ /ka/ /pa/). Trials were presented in a random order and phonemes were distributed uniformly across conditions. While conditions were matched in terms of trial numbers, participants completed a variable number of trials (based on task variant and the number of blocks completed). All provided data has been resampled to 1024 Hz during initial stages of processing for all participants. Data has been referenced in a bipolar fashion (signals subtracted from each immediately adjacent electrode in a pairwise manner) to ensure that the observed signals were derived from maximally local neuronal populations. The preprocessing steps followed have been described in the detailed description document in the attached materials. and The dataset zip folder consists of three main sub-folders: 1) Electrodes: This folder provides details regarding the individual electrodes for each subject, their MNI coordinates as well as their MNI vertices information according to freesurfer parcellations. This folder also consists of images of the physical location of each of the electrode sets. 2) Processed: This folder contains preprocessed data in all three frequencies (theta, beta and high gamma power) for individual subjects and the corresponding vertex locations for each of the electrodes from which their data was recorded. The images subfolder also contains figures provided in the main manuscript. 3) MatlabCodes: This folder contains all the matlab scripts required to reproduce the results provided in the main manuscript. LME_AvsAV_Main_Windows.m is the main file that an user has to run to reproduce the results.
- Keyword:
- Cognitive Neuroscience, Neuroscience, Perception, and Mixed Effects Models
- Citation to related publication:
- Ganesan, K., Plass, J., Beltz, A. M., Liu, Z., Grabowecky, M., Suzuki, S., ... & Brang, D. (2020). Visual speech differentially modulates beta, theta, and high gamma bands in auditory cortex. bioRxiv. https://doi.org/10.1101/2020.09.07.284455
- Discipline:
- Science
-
- Creator:
- Sun, Xin, Zhang, Kehui, Marks, Rebecca, Karas, Zachary, Eggleston, Rachel, Nickerson, Nia, Yu, Chi-Lin, Wagley, Neelima, Hu, Xiaosu, Caruso, Valeria, Tardif, Twila, Satterfield, Teresa, Chou, Tai-Li, and Kovelman, Ioulia
- Description:
- In a broad sense, this dataset explores morphological and phonological processing in English monolinguals and two bilingual populations, Chinese-English and Spanish-English, using a battery of standardized and self-developed behavioral measures, as well as fNIRS neuroimaging.
- Citation to related publication:
- Sun X, Zhang K, Marks R, Karas Z, Eggleston R, Nickerson N, Yu CL, Wagley N, Hu X, Caruso V, Chou TL, Satterfield T, Tardif T, Kovelman I. Morphological and phonological processing in English monolingual, Chinese-English bilingual, and Spanish-English bilingual children: An fNIRS neuroimaging dataset. Data Brief. 2022 Mar 12;42:108048. doi: 10.1016/j.dib.2022.108048. PMID: 35313503; PMCID: PMC8933821.
- Discipline:
- Science
-
- Creator:
- Herrick, Etienne M
- Description:
- This data was produced as part of field experiment investigating the extent, drivers, and consequences of functional trait variation in cover crops. Specifically, we studied the role of intraspecific trait variation in explaining interactions between species in cover crop mixtures, and whether and how intraspecific trait variation improves understanding of relationships between functional traits and ecosystem services from cover crops.
- Keyword:
- agroecology, cover crops, functional diversity, functional traits, intraspecific trait variation, ecosystem services, nitrogen, species interactions, and student-friendly
- Citation to related publication:
- Herrick, E., and Blesh, J. (2021) Intraspecific trait variation improves understanding and management of cover crop outcomes. Ecosphere.
- Discipline:
- Science
-
- Creator:
- Lynch, Erin and van der Pluijm, Ben
- Description:
- High-resolution, low-angle XRD analysis of oriented clay samples (.txt files) and TC/EA, Mass Spectronometric analysis of oxygen and hydrogen isotopes (.xslx files)
- Keyword:
- fault gouge and geofluids
- Citation to related publication:
- In submission
- Discipline:
- Science
-
- Creator:
- Fuller, Jennifer, Rowan, Erin, Landgraf, Ava, Alofs, Karen, Foufopoulos, Johannes, and Gronewold, Andrew
- Description:
- This study investigates the rapid decline of black tern (Chlidonias niger) over eight years in one of Michigan’s largest colonies, Lake St. Clair. 1. Nesting Success Model: A multiple logistic regression with a binomial (logit-link) fit using the glm() function from the ‘stats’ package in R (55) to determine the influence of habitat and biological predictors on nesting survival. 2. ArcMap visualization of Nesting Success: To visualize the geographic extent of the habitat’s potential to predispose nests’ vulnerability, the coefficients and intercept from our selected GLM were applied to raster layers in ArcMap using the Raster Calculator Tool. 3. Population Change & Habitat Extent: To quantify sub-colony breeding pair population size and their response to changes in sub-colony habitat in the geospatial model, we applied a general linear mixed model (GLMM) using the lmer() function from the ‘lme4’ package in R (55). Predictor variables were chosen a priori, and included the area of open water, uninhabitable vegetation (NDVI>0.72), any habitable area, and area with >50% hatch success.
- Keyword:
- black terns, wetlands, ecology, climate change, lake levels, Great Lakes, waterbirds, ornithology, general linear model, geospatial, GIS, nesting success, avian, and breeding
- Citation to related publication:
- Fuller, J., Rowan, E., Landgraf, A., Alofs, K., Foufopoulos, J., Gronewold, A., (2021). Collapse of a Black Tern Colony (Chlidonias niger) as a Result of Climate Change Driven Lake-Level Extremes and Anthropogenic Habitat Alteration [Data set]. University of Michigan - Deep Blue. and Fuller, J., et al. (2021). Shorebird colony collapses under climate driven lake-level rise and anthropogenic stressors. Forthcoming.
- Discipline:
- Science
-
- Creator:
- Brenner, Austin, M
- Description:
- Coupling between the solar wind and magnetosphere can be expressed in terms of energy transfer through the separating boundary known as the magnetopause. Geospace simulation is performed using the Space Weather Modeling Framework (SWMF) of a multi-ICME impact event on February 18-20, 2014 in order to study the energy transfer through the magnetopause during storm conditions. The magnetopause boundary is identified using a modified plasma $\beta$ and fully closed field line criteria to a downstream distance of $-20R_{e}$. Observations from Geotail, Themis, and Cluster are used as well as the Shue 1998 model to verify the simulation field data results and magnetopause boundary location. Once the boundary is identified, energy transfer is calculated in terms of total energy flux \textbf{K}, Poynting flux \textbf{S}, and hydrodynamic flux \textbf{H}. Surface motion effects are considered and the regional distribution of energy transfer on the magnetopause surface is explored in terms of dayside $\left(X>0\right)$, flank $\left(X<0\right)$, and tail cross section $\left(X=X_{min}\right)$ regions. It is found that total integrated energy flux over the boundary is nearly balanced between injection and escape, and flank contributions dominate the Poynting flux injection. Poynting flux dominates net energy input, while hydrodynamic flux dominates energy output. Surface fluctuations contribute significantly to net energy transfer and comparison with the Shue model reveals varying levels of cylindrical asymmetry in the magnetopause flank throughout the event. Finally existing energy coupling proxies such as the Akasofu $\epsilon$ parameter and Newell coupling function are compared with the energy transfer results.
- Keyword:
- Space plasma, Magnetosphere, MHD simulations, Magnetopause, Substorm, Energy transfer, and Poynting flux
- Citation to related publication:
- Brenner A, Pulkkinen TI, Al Shidi Q and Toth G (2021) Stormtime Energetics: Energy Transport Across the Magnetopause in a Global MHD Simulation. Front. Astron. Space Sci. 8:756732. doi: 10.3389/fspas.2021.756732
- Discipline:
- Science
-
- Creator:
- Vaskov, Alex K, Vu, Philip P, North, Naia, Davis, Alicia J, Kung, Theodore A, Gates, Deanna H, Cederna, Paul S, and Chestek, Cynthia A
- Description:
- The data was used to calibrate and simulate pattern recognition algorithms for the following publication: Surgically Implanted Electrodes Enable Real-Time Finger and Grasp Pattern Recognition for Prosthetic Hands (medRxiv 2020, IEEE TRO in review). Each data file is named as follows Px_PostureSet.csv. Where Px is the patient number. The 1 of 10 posture set contains individual finger and intrinsic thumb movements, the grasps posture set contains a fewer number of combined finger movements. P1’s calibration data for individual fingers is labelled 1 of 12 because it also includes two grasps, which were removed for analysis in the publication. The first column of each .csv file is the experiment time in seconds. The second column is the posture of the cue hand at that timestamp. The rest of the columns are the raw EMG data in microvolts sampled at 30KSps. A legend of the movement postures, each patients EMG channels, and suggested signal processing and filtering is included in DataLabellingAndProcessing.pdf
- Keyword:
- pattern recognition, electromyography, regenerative peripheral nerve interface, intramuscular electrodes, and myoelectric prostheses
- Citation to related publication:
- Surgically Implanted Electrodes Enable Real-Time Finger and Grasp Pattern Recognition for Prosthetic Hands A. K. Vaskov, P. P. Vu, N. North, A. J. Davis, T. A. Kung, D. H. Gates, P. S. Cederna, C. A. Chestek medRxiv 2020.10.28.20217273; doi: https://doi.org/10.1101/2020.10.28.20217273
- Discipline:
- Science and Engineering
-
- Creator:
- Cody H. Pham, Jason M. Tallant, J. Jordan Price, and David N. Karowe
- Description:
- Anthropogenic climate change will dramatically alter species distributions. The rate and magnitude of range shifts, however, will differ among taxa, resulting in altered patterns of co-occurrence and interspecific interactions. We examined potential climate-mediated breeding range shifts among North American wood-warblers (Parulidae), a speciose avian family likely to be especially impacted by such changes. We used publicly available species distribution model (SDM) range outputs to compare current ranges and patterns of sympatry among warbler species to future ranges and sympatry under 1.5 °C, 2.0 °C, and 3.0 °C of average global warming. We used these outputs to calculate average breeding range area, range overlap among species, number of sympatric species, and distances of breeding range shifts. We additionally calculated the number gained and lost sympatric interactions under each warming scenario.
- Keyword:
- wood-warbler, University of Michigan Biological Station (UMBS), Research Experience for Undergraduates (REU), climate change, interspecific, range shift, species distribution models, sympatric, and student-friendly
- Discipline:
- Science
-
- Creator:
- Bressler, Alison and Blesh, Jennifer
- Description:
- This dataset contains three data files and three corresponding metadata files used in Bressler, A., and J. Blesh. 2022. Episodic N2O emissions following tillage of a legume-grass cover crop mixture. Biogeosciences. The file “Cover_crop_soil_N2O.xls” contains data organized by site, replicate block, and treatment for spring cover crop biomass, nitrogen and carbon content, and legume BNF; soil fertility characteristics including potentially mineralizable nitrogen, particulate organic matter stocks, concentrations, and nitrogen content; and cumulative nitrous oxide data. The file “Soil_properties.xls” contains baseline soil data organized by site and replicate block. The file “Daily_N2O.xls” contains daily nitrous oxide data organized by site, replicate block, treatment, and date. The corresponding metadata files: “Cover_crop_soil_N2O_metadata.xls”, and “Soil_properties_metadata.xls”, and “Daily_N2O_metadata.xls” provided detailed descriptions of all variables in each data set and any abbreviations used.
- Keyword:
- cover crops, legume-grass mixtures, nitrous oxide, particulate organic matter, soil organic matter.
- Citation to related publication:
- Bressler, A., and J. Blesh. 2022. Episodic N2O emissions following tillage of a legume-grass cover crop mixture. Biogeosciences.
- Discipline:
- Science
-
- Creator:
- Brian C. Weeks
- Description:
- Description: Each folder contains all of the data for a specific specimen; the folder names correspond to the University of Michigan Museum of Zoology catalog number for the specimen. Folders with a “-“ in the name are individual specimens that were photographed multiple independent times; the number following the “-“ indicates the repetition number (i.e. the folder named “UMMZ_242382-10” contains the tenth set of photographs for specimen UMMZ 242382). The photographs are necessary to train and test the Skelevision model, which is a computer vision approach to identifying and measuring elements of the skeleton (length of the tibiotarsus, tarsometatarsus, femur, humerus, ulna, radius, carpometacarpus, 2nd digit 1st phalanx, skull, and keel; the outer diameter of the sclerotic ring at its widest point; and the distance from the back of the skull to the tip of the bill). The data span 115 species of passerines across 79 genera from 59 families.
- Keyword:
- Bird skeleton, neural network, and functional traits
- Citation to related publication:
- Weeks, B.C., Zhou, Z., O’Brien, B., Darling, R., Dean, M., Dias, T., Hassena, G., Zhang, M., and Fouhey, D.F. 2022. A deep neural network for high throughput measurement of functional traits on museum skeletal specimens. Methods in Ecology and Evolution. https://doi.org/10.1111/2041-210X.13864
- Discipline:
- Science
-
- Creator:
- Liemohn, Michael W, Adam, Joshua G, and Ganushkina, Natalia Y
- Description:
- Many statistical tools have been developed to aid in the assessment of a numerical model’s quality at reproducing observations. Some of these techniques focus on the identification of events within the data set, times when the observed value is beyond some threshold value that defines it as a value of keen interest. An example of this is whether it will rain, in which events are defined as any precipitation above some defined amount. A method called the sliding threshold of observation for numeric evaluation (STONE) curve sweeps the event definition threshold of both the model output and the observations, resulting in the identification of threshold intervals for which the model does well at sorting the observations into events and nonevents. An excellent data-model comparison will have a smooth STONE curve, but the STONE curve can have wiggles and ripples in it. These features reveal clusters when the model systematically overestimates or underestimates the observations. This study establishes the connection between features in the STONE curve and attributes of the data-model relationship. The method is applied to a space weather example.
- Keyword:
- space physics, statistical methods, and STONE curve
- Citation to related publication:
- Liemohn, M. W., Adam, J. G., & Ganushkina, N. Y. (2022). Analysis of features in a sliding threshold of observation for numeric evaluation (STONE) curve. Space Weather, 20, e2022SW003102. https://doi.org/10.1029/2022SW003102
- Discipline:
- Science
-
- Creator:
- Zhou, Peng and Mi, Zetian
- Description:
- Production of hydrogen fuel from sunlight and water offers one of the most promising pathways for carbon neutrality. Some solar hydrogen production approaches, e.g., photoelectrochemical water splitting, often requires corrosive electrolyte, limiting their performance stability and environmental sustainability. Alternatively, clean hydrogen can be produced directly from tap water, or seawater by wireless photocatalytic water splitting. The solar-to-hydrogen (STH) efficiency, however, is still lower than 3%. Herein, we have developed a unique strategy to overcome the efficiency bottleneck. A high STH efficiency of 9.2% was achieved by utilizing pure water, concentrated solar light, and visible-light-responsive InGaN photocatalyst. The success of this strategy was explained by the synergistic effects of promoting forward hydrogen-oxygen evolution and inhibiting the reverse hydrogen-oxygen recombination by operating at an optimal reaction temperature (~70 °C). Such an optimal temperature can be readily achieved by harvesting the previously wasted infrared light of the solar spectrum without other energy consumption. This temperature-dependent strategy also leads to the STH efficiencies of ~7% from the widely available tap water and seawater. A large-scale photocatalytic water splitting system with a natural solar light capacity of 257 W on a 4 cm × 4 cm photocatalyst wafer achieves a STH of 6.2% at ~70 oC. Our study offers a practical approach to produce hydrogen fuel efficiently from natural solar and water, overcoming some of the major barriers for green hydrogen economy.
- Keyword:
- photocatalysis, water splitting, and solar hydrogen
- Discipline:
- Science
-
- Creator:
- Kharbush, Jenan J, Carter, Susan J, and Robinson, Rebecca S
- Description:
- Nitrogen availability is hypothesized to play a central role in cyanoHAB progression, as well as production of the N-rich toxin microcystin. Recent work implicated reduced N substrates like ammonium and dissolved organic N (DON) in promoting greater bloom biomass and longevity. To examine the relative importance of oxidized and reduced N substrates to phytoplankton during different bloom stages, we measured concentrations and natural abundance δ15N isotope values of dissolved N substrates and phytoplankton biomass throughout the entirety of the 2020 cyanoHAB in Western Lake Erie. This is the first data on DON concentrations and isotope values in Western Lake Erie. We measured nitrate concentrations and isotope values to compare with DON and also with particulate organic matter (POM) 15N isotope values. This dataset is described and analyzed in the publication, "Patterns in sources and forms of nitrogen during a freshwater cyanobacterial harmful algal bloom".
- Keyword:
- Dissolved organic nitrogen, cyanobacteria, nitrate, particulate organic matter, δ15N, stable isotopes
- Citation to related publication:
- Kharbush, Jenan J., Robinson, Rebecca S., Carter, Susan J. In revision. Patterns in sources and forms of nitrogen during a freshwater cyanobacterial harmful algal bloom. Limnology and Oceanography.
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for skull of Stylemys nebrascensis (University of Michigan Museum of Paleontology catalog number UMMP VP 9318) 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, Testudinidae, UMMP, University of Michigan Museum of Paleontology, Oligocene, CTEES, and c38728f5-6f38-d862-7bcf-9745e69db222
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Posterior cranium fragment (juvenile) of Dorudon atrox (University of Michigan Museum of Paleontology catalog number UMMP VP 100142) 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, Basilosauridae, Eocene, CTEES, UMMP, University of Michigan Museum of Paleontology, and a470edbc-75b1-f352-d947-330dd1043256
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology, University of Michigan School of Dentistry MicroCT Core, and Lynch, Michelle
- Description:
- Reconstructed CT slices for UMMP VP 118711 Mammuthus primigenius block number 1 (proximalmost) removed from tusk 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, Elephantidae, UMMP, University of Michigan Museum of Paleontology, Pleistocene, and eb7acb05-b8b5-9642-b90a-b7d49a83de4d
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology, University of Michigan School of Dentistry MicroCT Core, and Lynch, Michelle
- Description:
- Reconstructed CT slices for UMMP VP 118711 Mammuthus primigenius block number 10 (distalmost) removed from tusk 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, Elephantidae, UMMP, University of Michigan Museum of Paleontology, Pleistocene, and eb7acb05-b8b5-9642-b90a-b7d49a83de4d
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for tusk block number 2 of Mammuthus primigenius (University of Michigan Museum of Paleontology catalog number UMMP VP 118711) 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, Elephantidae, UMMP, University of Michigan Museum of Paleontology, Pleistocene, and eb7acb05-b8b5-9642-b90a-b7d49a83de4d
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology, University of Michigan School of Dentostry MicroCT Core, and Lynch, Michelle
- Description:
- Reconstructed CT slices for UMMP VP 118186 Loxodonta africana tusk core 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, CT, Elephantidae, UMMP, University of Michigan Museum of Paleontology, and a4f83cc6-09f2-0032-8a09-60ea798f787c
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and Micro and Nano CT Advanced Imaging Core, Orthopaedic Research Laboratories, University of Michigan
- Description:
- Reconstructed CT slices for UMMP VP 118710 Mammuthus primigenius proximal tusk segment 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, Elephantidae, UMMP, University of Michigan Museum of Paleontology, and 4760d0fa-a763-23d2-1be9-89bb1aaf711c
- Discipline:
- Science
-
- Creator:
- Su, Xue, Zhang, Youxue, Liu, Yang, and Holder, Robert M.
- Description:
- It is commonly thought that volcanic glass only records volatile loss during the eruptions in the Moon. However, our recent work shows that Na, K and Cu (moderately volatile elements) in lunar 74220 orange glass beads are enriched near the bead surfaces and depleted in the bead interiors, forming an overall “U-shaped” profile. The “U-shaped” profile means that rather than being “lost” into space, Na, K and Cu were “gained” into the volcanic glass during the eruption, which is contrary to the “volatile loss” story. Three different instruments (EMP, SIMS and LA-ICP-MS) were used to verify the discovery. We propose that such U-shaped Na, K and Cu profiles were formed by initial outgassing and subsequent in-gassing of Na, K and Cu when the beads were flying from the vent onto the surface through the cooling volcanic gas plume. Hence, in-gassing and the formation of surface coatings are two processes that are genetically linked during the pyroclastic eruption and evolution of the gas cloud. To quantify the processes that formed the U-shaped profiles, we developed a diffusion and surface-equilibrium model using available literature data on Na and Cu diffusivity in basaltic melts. The model reproduced U-shaped Na and Cu concentration profiles with outgassing at high temperature and subsequent in-gassing as beads cooled. By fitting the measured Na and Cu profiles, we found that the cooling time scales of individual orange glass beads range from 48 to 179 s. This is the first time that both outgassing and in-gassing were modeled and the cooling time scales of individual 74220 volcanic orange glass beads were estimated. The discovery of the U-shaped profiles of moderately volatile elements inside volcanic beads provides significant constraints on partial pressures of relevant volcanic gas species in the eruption plume.
- Keyword:
- Moon, Volcanic orange glass beads, Moderately volatile elements, Outgassing and in-gassing, and Cooling time scales
- Citation to related publication:
- Su, X., Zhang, Y., Liu, Y. and Holder, R.M. (2023) Outgassing and in-gassing of Na, K and Cu in lunar 74220 orange glass beads. Earth and Planetary Science Letters 602. https://doi.org/10.1016/j.epsl.2022.117924
- Discipline:
- Science
-
- Creator:
- Bressler, Alison and Blesh, Jennifer
- Description:
- This dataset contains three data files and three corresponding metadata files used in Bressler, A., and J. Blesh. 2023. A grass-legume cover crop maintains nitrogen inputs and nitrous oxide fluxes from an organic agroecosystem. Ecosphere. The file “N2O_Flux.xls” contains daily nitrous oxide data organized by replicate block, treatment, and date. The file “Soil_N.xls” contains nitrate and ammonium data organized by replicate block, treatment, and date. The file “Cover_crop_corn_soil.xls” contains baseline soil fertility characteristics, cover crop and corn biomass, nitrogen and carbon content, legume BNF, and cumulative N2O content organized by replicate block and treatment. The corresponding metadata files: “N2O_Flux_metadata.xls”, “Soil_N_metadata.xls”, and “Cover_crop_corn_soil_metadata.xls” provide detailed descriptions of all variables in each data set and any abbreviations used.
- Keyword:
- cover crops, nitrous oxide, corn, biological nitrogen fixation, and legume-grass mixtures
- Citation to related publication:
- Bressler, A., and J. Blesh. 2023. A grass-legume cover crop maintains nitrogen inputs and nitrous oxide fluxes from an organic agroecosystem. Ecosphere. 14(2): e4428. https://doi.org/10.1002/ecs2.4428
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology, Nondestructive Evaluation Laboratory, Ford Motor Company, and Jones, Martin
- Description:
- Reconstructed CT slices for a right tusk of Loxodonta africana (University of Michigan Museum of Paleontology catalog number UMMP_VP_118186) 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 (*_000.tif) is the XYZ origin. Metadata as produced by the Aracor system are included in *.IM$LA text files in IM$LA.zip.
- Keyword:
- Paleontology, CT, Elephantidae, UMMP, University of Michigan Museum of Paleontology, and a4f83cc6-09f2-0032-8a09-60ea798f787c
- Citation to related publication:
- Cherney, M., et al. (in prep)
- Discipline:
- Science
-
- Creator:
- Huber, Daniel E
- Description:
- The files here provide monthly averaged soil NOx emissions (units of ng N m^-2 s^-1) for the contiguous United States on a 0.25 degree x 0.25 degree grid for the years 2011-2020 .
- Keyword:
- soil NOx, soil emissions, biogenic emissions, and agricultural emissions
- Discipline:
- Science
-
- Creator:
- Szuromi, Matthew P. and Stacey, William C.
- Description:
- The data and scripts are meant to show how burster dynamics determine response to a single biphasic stimulus. The files include data which show trends in the propensity of termination for different burster types and the MATLAB scripts used to generate this data. The MATLAB scripts also allow the user to generate their own data sets for alternative bursting paths and stimulus parameter combinations. Furthermore, they allow the user to visually examine the effects of single stimuli in the voltage timeseries and in state space. How the user can access these features of the script is described in the file "ReadMe.pdf."
- Keyword:
- Epilepsy, Stimulation, Modelling, Dynamics, Seizure, and Dynamotype
- Citation to related publication:
- (PROVISIONAL) Optimization of Ictal Aborting Stimulation Using the Dynamotype Taxonomy
- Discipline:
- Health Sciences, Engineering, and Science
-
- Creator:
- Zelditch, Miriam L. and Swiderski, Donald L.
- Description:
- Each row in the file contains the museum ID (museum where the specimen is located and the accession number), the species name, and the values for centroid size, followed by the x,y coordinates for each landmark. Any program that can read in a csv file can read this file.
- Keyword:
- Shape, Sciuridae, mandibles
- Citation to related publication:
- Zelditch, M.L., Swiderski, D.L. The Predictable Complexity of Evolutionary Allometry. Evol Biol (2022). https://doi.org/10.1007/s11692-022-09581-1
- Discipline:
- Science
-
- Creator:
- Bougher, Stephen W. and Roeten, Kali J.
- Description:
- The NASA MAVEN (Mars Atmosphere and Volatile Evolution) spacecraft, which is currently in orbit around Mars, has been taking daily (systematic) measurements of the densities and temperatures in the upper atmosphere of Mars between about 140 to 240 km above the surface. Wind measurement campaigns are also conducted once per month for 5-10 orbits. These densities, temperatures and winds change with time (e.g. season, local time) and location, and sometimes fluctuate quickly. Global dust storm events are also known to significantly impact these density, temperature and wind fields in the Mars thermosphere. Such global dust storm period measurements can be compared to simulations from a computer model of the Mars atmosphere called M-GITM (Mars Global Ionosphere-Thermosphere Model), developed at U. of Michigan. This is an ongoing detailed comparison between direct global dust storm period measurements in the upper atmosphere of Mars and simulated MGITM fields and is important because it can help to inform us what physical processes are acting on the upper atmosphere during such large dust events. Since the global circulation plays a role in the structure, variability, and evolution of the atmosphere, understanding the processes that drive the winds in the upper atmosphere of Mars also provides key context for understanding how the atmosphere behaves as a whole system. A basic version of the M-GITM code can be found on Github as follows: https:/github.com/dpawlows/MGITM [less] About 4 months of Neutral Gas and Ion Mass Spectrometer (NGIMS) measurements of densities and winds have been made by the MAVEN team during the summer of 2018 (Elrod et al., 2019; Roeten et al 2022). For this specialized archive (Elrod et al. 2023), one reference measurement interval during this 2018 global dust storm (30-31 August 2018) is selected for detailed study of helium distributions (Elrod et al. 2023). The Mars conditions for this last of nine intervals have been used to launch corresponding M-GITM code simulations, yielding 3-D neutral density, temperature and wind fields for comparison to these NGIMS measurements. This last interval is used to provide M-GITM datacubes to explicitly extract the helium density (plus corresponding temperatures and neutral winds) along the trajectory of each orbit path between 140 and 240 km . A general README file is also provided for this Deep Blue Data archive detailing the contents of each file, while also summarizing the inputs and outputs of the M-GITM code simulations for this study.
- Keyword:
- Mars , NASA MAVEN spacecraft, Mars Thermosphere, Global Dust Strom of 2018, and Helium distribution
- Citation to related publication:
- Elrod, M. K., S. W. Bougher, K. Roeten, R. Sharrar, J. Murphy, Structural and Compositional Changes in the Upper Atmosphere related to the PEDE-2018 Dust Event on Mars as Observed by MAVEN NGIMS, Geophys. Res. Lett., (2019). doi: 10.1029/2019GL084378. and Elrod, M. K., S. W. Bougher, K. Roeten and K. Arnold, Surprising Decrease in the Martian He Bulge during PEDE-2018 and Changes in Upper Atmospheric Circulation, J. Geophysical Research, (2023), doi:XXX
- Discipline:
- Science
-
Data for Macroscopic Transition Metal Dichalcogenides Monolayers with Uniformly High Optical Quality
- Creator:
- Li, Qiuyang, Alfrey, Adam, Hu, Jiaqi, Lydick, Nathanial, Paik, Eunice, Liu, Bin, Sun, Haiping, Lu, Yang, Wang, Ruoyu, Forrest, Stephen, and Deng, Hui
- Description:
- This dataset contains raw and source data for all figures generated in the manuscript "Macroscopic Transition Metal Dichalcogenides Monolayers with Uniformly High Optical Quality" The raw data files include '.spe' data, which are spectral data collected by LightField Sofware, and '.dset' and '.vms' files, which are X-ray photoelectron spectroscopy (XPS) data and require CasaXPS to access. The source data files include the processed data that can be directly used for generating the corresponding figures in the manuscript.
- Keyword:
- 2D materials, Exciton-polaritons, and Photonics
- Discipline:
- Science
-
- Creator:
- Sun, Hu, Ren, Jiaen, Chen, Yang, and Zou, Shasha
- Description:
- Our research focuses on providing a fully-imputed map of the worldwide total electron content with high resolution and spatial-temporal smoothness. We fill in the missing values of the original Madrigal TEC maps via estimating the latent feature of each latitude and local time along the 2-D grid and give initial guess of the missing regions based on pre-computed spherical harmonics map. The resulting TEC map has high imputation accuracy and the ease of reproducing. and All data are in HDF5 format and are easy to read using the h5py package in Python. The TEC map is grouped in folders based on years and each file contains a single-day data of 5-min cadence. Each individual TEC map is of size 181*361.
- Keyword:
- Total Electron Content, Matrix Completion, VISTA, Spherical Harmonics, and Spatial-Temporal Smoothing
- Citation to related publication:
- Sun, H., Hua, Z., Ren, J., Zou, S., Sun, Y., & Chen, Y. (2020). Matrix Completion Methods for the Total Electron Content Video Reconstruction. arXiv preprint arXiv:2012.01618. and Zou, S., Ren, J., Wang, Z., Sun, H., & Chen, Y. (2021). Impact of Storm-Enhanced Density (SED) on Ion Upflow Fluxes During Geomagnetic Storm. Frontiers in Astronomy and Space Sciences, 162.
- Discipline:
- Science
-
Supporting data: Domain-agnostic predictions of nanoscale interactions in proteins and nanoparticles
- Creator:
- Saldinger, Jacob, Raymond, Matt , Elvati, Paolo, and Violi, Angela
- Description:
- The accurate and rapid prediction of generic nanoscale interactions is a challenging problem with broad applications. Much of biology functions at the nanoscale, and our ability to manipulate materials and purposefully engage biological machinery requires knowledge of nano-bio interfaces. While several protein-protein interaction models are available, they leverage protein-specific information, limiting their abstraction to other structures. Here, we present NeCLAS, a general, and rapid machine learning pipeline that predicts the location of nanoscale interactions, providing human-intelligible predictions. Two key aspects distinguish NeCLAS: coarse-grained representations, and the use of environmental features to encode the chemical neighborhood. We showcase NeCLAS with challenges for protein-protein, protein-nanoparticle and nanoparticle-nanoparticle systems, demonstrating that NeCLAS replicates computationally- and experimentally-observed interactions. NeCLAS outperforms current nanoscale prediction models, and it shows cross-domain validity, qualifying as a tool for basic research, rapid prototyping, and design of nanostructures., Software: - To reproduce all-atom molecular dynamics (MD) NAMD is required (version 2.14 or later is suggested). NAMD software and documentation can be found at https://www.ks.uiuc.edu/Research/namd/, - To reproduce coarse-grained MD simulations, LAMMPS (version 29 Sep 2021 - Update 2 or later is suggested). LAMMPS software and documentation can be found at https://www.lammps.org, - To rebuild free energy profiles, the PLUMED plugin (version 2.6) was used. PLUMED software and documentation can be found at https://www.plumed.org/ , and - To generate force matching potentials, the was used the OpenMSCG software was used. OpenMSCG software and documentation can be found at https://software.rcc.uchicago.edu/mscg/
- Keyword:
- Neural Networks, Proteins, Dimensionality Reduction, Nanoparticles, and Coarse-Graining
- Citation to related publication:
- https://www.biorxiv.org/content/10.1101/2022.08.09.503361v2
- Discipline:
- Science
-
- Creator:
- Engebretson, Mark J.
- Description:
- Large geomagnetic disturbances (GMDs, also denoted as MPEs - magnetic perturbation events) have sufficient amplitude to cause geomagnetically induced currents (GICs) that can damage technical infrastructure. In this study we present occurrence statistics for GMD / MPE events with derivatives ≥ 6 nT/s and ≥ 20 nT/s from five stations in the MACCS and AUTUMNX magnetometer arrays in Arctic Canada at magnetic latitudes ranging from 65° to 75°. Earlier studies using data from these arrays (Engebretson et al., 2019a,b, 2021a,b) covered only two years (2015 and 2017) and focused on latitude- and local time-dependent occurrence patterns and short-term dependencies on solar wind/IMF parameters and magnetospheric activity indices. This study presents all available data from these stations from 2011 through 2022 to analyze variations of GMD activity over a full solar cycle. Intense GMD activity did not closely follow the sunspot cycle, but instead was lowest during its rising phase and maximum (2011-2014), was highest during the early declining phase (2015-2017), and reached a subsequent minimum early in the following sunspot cycle (2020). GMDs with amplitude >20 nT/s followed the same yearly pattern but peaked even more strongly during 2015-2017. Most of these GMDs were associated with high-speed solar wind streams (Vsw > 600 km/s), but not with strongly negative values of the SYM/H index. The majority of these GMDs, irrespective of the Vsw value, were accompanied within 10 min (and most often less) by other events with amplitude ≥ 6 nT/s and showed a mostly poleward progression. These results show that large amplitude but spatially localized nighttime GMDs are primarily associated with high-speed stream geomagnetic drivers during the declining phase of the solar cycle. This indicates that large GIC hazard conditions can occur for a variety of solar wind drivers and geomagnetic conditions and not only for fast-coronal mass ejection driven storms.
- Keyword:
- geomagnetic disturbance events, geomagnetically induced currents
- Citation to related publication:
- Engebretson, M. J., Steinmetz, Yang, L., Pilipenko, V. A., Moldwin, M. B., McCuen, B. A., Connors, M. G., Weygand, J. M., Waters, C. L., Lyons, L. R., Nishimura, Y., Russell, C. T. (2023) Solar Cycle Dependence of Very Large Nighttime Geomagnetic Disturbances (GMDs) Observed in Eastern Arctic Canada. Journal of Geophysical Research – Space Physics
- Discipline:
- Science
-
- Creator:
- Kort, Eric A., Plant, Genevieve, Smith, Mackenzie L., Brandt, Adam R., Chen, Yuanlei, Gorchov Negron, Alan M., Schwietzke, Stefan, and Zavala-Araiza, Daniel
- Description:
- As part of the Flaring & Fossil Fuels: Uncovering Emissions & Losses (F3UEL) project, in 2020 the aircraft measurement platform sampled offshore oil & gas facilities in the Gulf of Mexico to quantify facility-level emissions using the approach detailed in Conley et al. (2017). Onshore, the aircraft sampled downwind of flare combustion plumes in the Permian and Eagle Ford regions of Texas. Vertical profiles were conducted on each flight to capture the vertical structure and mixing depths of the atmosphere. The data file contains all merged flight data from each flight day. and Reference: Conley, S., Faloona, I., Mehrotra, S., Suard, M., Lenschow, D. H., Sweeney, C., Herndon, S., Schwietzke, S., Pétron, G., Pifer, J., Kort, E. A., and Schnell, R.: Application of Gauss’s theorem to quantify localized surface emissions from airborne measurements of wind and trace gases, Atmos. Meas. Tech., 10, 3345 – 3358, 2017.
- Keyword:
- Offshore Oil & Gas, Flaring, Methane, and Nitrogen Oxides
- Discipline:
- Science
-
- Creator:
- Kort, Eric A., Plant, Genevieve, Brandt, Adam R., Chen, Yuanlei, Gorchov Negron, Alan M., Schwietzke, Stefan, Smith, Mackenzie L., and Zavala-Araiza, Daniel
- Description:
- As part of the Flaring & Fossil Fuels: Uncovering Emissions & Losses (F3UEL) project, in 2021 the aircraft measurement platform sampled offshore oil & gas facilities in Alaska and California to quantify facility-level emissions using the approach detailed in Conley et al. (2017). Onshore, the aircraft sampled downwind of flare combustion plumes in the Bakken region of North Dakota. Vertical profiles were conducted on each flight to capture the vertical structure and mixing depths of the atmosphere. The data file contains all merged flight data from each flight day. and Reference: Conley, S., Faloona, I., Mehrotra, S., Suard, M., Lenschow, D. H., Sweeney, C., Herndon, S., Schwietzke, S., Pétron, G., Pifer, J., Kort, E. A., and Schnell, R.: Application of Gauss’s theorem to quantify localized surface emissions from airborne measurements of wind and trace gases, Atmos. Meas. Tech., 10, 3345 – 3358, 2017.
- Keyword:
- Offshore Oil & Gas, Flaring, Methane, and Nitrogen Dioxides
- Discipline:
- Science
-
- Creator:
- Bueno-Junior, Lezio S., Ruckstuhl, Maxwell S., Lim, Miranda M., and Watson, Brendon O.
- Description:
- Rapid eye movement sleep (REM) is believed to have a binary temporal structure with “phasic” and “tonic" microstates, characterized by motoric activity versus quiescence, respectively. However, we observed in mice that the frequency of theta activity (a marker of rodent REM) fluctuates in a non-binary fashion, with the extremes of that fluctuation correlating with phasic-type and tonic-type facial motricity. Thus, phasic and tonic REM may instead represent ends of a continuum. These cycles of brain physiology and facial movement occurred at 0.01-0.06 Hz, or infraslow frequencies, and affected cross-frequency coupling and neuronal activity in the neocortex, suggesting network functional impact. We then analyzed human data and observed that humans also demonstrate non-binary phasic/tonic microstates, with continuous 0.01-0.04 Hz respiratory rate cycles matching the incidence of eye movements. These fundamental properties of REM can yield new insights into our understanding of sleep health.
- Keyword:
- REM sleep, Infraslow fluctuations, Facial movements, Theta oscillations, and Respiration rate
- Citation to related publication:
- L. S. Bueno-Junior, M. S. Ruckstuhl, M. M. Lim, B. O. Watson, The temporal structure of REM sleep shows minute-scale fluctuations across brain and body in mice and humans. Proc. Natl. Acad. Sci. U. S. A. In press (2023).
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for phalanx (pathological) of phytosaur (University of Michigan Museum of Paleontology catalog number UMMP VP 13838) 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, Phytosauria, UMMP, University of Michigan Museum of Paleontology, Triassic, and e06c6866-4cba-4532-2a68-d8e3357a674e
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Right innominate (acetabulum region) of Remingtonocetus domandaensis (University of Michigan Museum of Paleontology catalog number GSP-UM 3408) 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, Remingtonocetidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and Geological Survey of Pakistan (GSP)
- Discipline:
- Science
-
- Creator:
- Limon, Garrett C.
- Description:
- The data represents weekly output from three 60-year CAM6 model runs. The output includes state (.h0. files) and tendency (.h1. files) fields for three difference model configurations of increasing complexity. State fields include temperature, surface pressure, specific humidity, among others; while tendencies include temperature tendencies, specific humidity tendencies, as well as precipitation rates. Using the state variables at a given time step, machine learning techniques can be trained to predict the following tendency field, which can then be applied to the state variables to provide the state at the next physics time step of the model.
- Keyword:
- Machine Learning, Climate Modeling, and Physics Emulation
- Citation to related publication:
- Limon, G. C., Jablonowski, C. (2022) Probing the Skill of Random Forest Emulators for Physical Parameterizations via a Hierarchy of Simple CAM6 Configurations [Preprint]. ESSOAr. https://10.1002/essoar.10512353.1
- Discipline:
- Engineering and Science
-
- Creator:
- Limon, Garrett C.
- Description:
- The work guides the processing of CAM6 data for use in machine learning applications. We also provide workflow scripts for training both random forests and neural networks to emulate physic s schemes from the data, as well as analysis scripts written in both Python and NCL in order to process our results.
- Keyword:
- Machine Learning, Climate Modeling, and Physics Emulation
- Citation to related publication:
- Limon, G. C., Jablonowski, C. (2022) Probing the Skill of Random Forest Emulators for Physical Parameterizations via a Hierarchy of Simple CAM6 Configurations [Pre Print]. ESSOAr. https://10.1002/essoar.10512353.1
- Discipline:
- Engineering and Science
-
- Creator:
- Salaree, Amir, Spica, Zack, and Huang, Yihe
- Description:
- The items in this bundle are supporting videos to a study of subsea seismo-acoustics carried out regarding an earthquake in the Persian Gulf. The main data used in the study is a diver's recording of the acoustic waves from the earthquake. The epicenter and topography data used in this study are publicly available as cited in the README.txt file.
- Keyword:
- Seismo-acoustics, Persian Gulf, Divers’ Microphones, Seismic Hazard, Early Warning
- Discipline:
- Science
-
- Creator:
- Bradshaw, Lisa, Vernon, Julianne, Schmidt, Thomas, James, Timothy, Zhang, Jianzhi, Archbold, Hilary, Cadigan, Ken, Wolfe, John P., and Goldberg, Deborah E.
- Description:
- This is the experimental data referenced in our manuscript entitled "Influence of CUREs on STEM retention depends on demographic identities." The dataset comprises csv files with results from student surveys given to students enrolled in Biology 173 from Fall 2015 through Fall 2019 as well as institutional data of their course grades and cumulative GPA at the time they enrolled in Biology 173, and graduation and major data for student who had graduated by 2021. The survey questions used in the analysis and the IRB consent form are also included as pdfs.
- Keyword:
- undergraduate research, STEM retention, CURE, introductory biology laboratory, and education research
- Citation to related publication:
- Bradshaw, L., Vernon J., Schmidt T., James T., Zhang J., Archbold H., Cadigan K., Wolfe J.P. & Goldberg D. 2023. Research article: Influence of CUREs on STEM retention depends on demographic identities. J Microbiol Biol Educ (accepted)
- Discipline:
- Science
-
- Creator:
- Zhang, Yingxiao MI and Steiner, Allison MI
- Description:
- Atmospheric aerosols are emitted from both natural and anthropogenic sources, and they play an important role in climate, impacting solar radiation and cloud formation. Compared to other types of aerosol particles, primary biological aerosol particles (PBAP, e.g., fungal spores, bacteria, pollen, virus, etc.) are relatively understudied. However, they are linked to adverse health effects and have the potential to influence ice nucleation at higher temperatures. Anemophilous (or wind-driven) pollen is one of the important PBAP, impacts cloud properties under some conditions, and triggers allergic diseases such as allergic rhinitis (also known as hay fever) and asthma. Because pollen emission is closely associated with environmental drivers, the climatic change could influence pollen emission and consequently the incidence of allergic disease. Using CMIP6 model data, our research projects continental-scale changes in pollen emissions at the end of the century, considering the effects of temperature, precipitation, CO2, and future vegetation distribution change. While prior studies have evaluated single types of pollen, we use a mechanistic model to comprehensively simulate total pollen across the United States from all sources. Similar to previous single-source pollen studies, our simulations suggest that pollen season duration will lengthen, and pollen emission will increase in the future, but in addition, we identify new synergies between different pollen types that can influence the maximum daily pollen. Our work highlights that the changes of overlap between pollen seasons of different vegetation taxa can magnify or mitigate the impacts of climate change, which addresses the importance to study all pollen emissions comprehensively. Given pollen is one of the most common triggers of seasonal allergies, our findings also provide information to evaluate global health conditions in the future. In this study, all of the pollen emission data are written in NetCDF files.
- Keyword:
- Pollen emission change, Climate change, Public health, Vegetation land cover change, and CO2 effects
- Citation to related publication:
- Zhang, Y. and Steiner, A. “Projected climate-driven changes in pollen emission season length and magnitude over the continental United States”, under review in Nature Communication, 2022. and yingxz. (2022). steiner-lab/pecm: PECM2.0 (2.0). Zenodo. https://doi.org/10.5281/zenodo.5874177
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for navicular of Cantius trigonodus (University of Michigan Museum of Paleontology catalog number UMMP 73318) 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, Notharctidae, Eocene, and 0d607d85-8d27-6be2-dbc5-9cb73f1324ae
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for L cuboid of Cantius mckennai (University of Michigan Museum of Paleontology catalog number UMMP 81824) 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, Notharctidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and e763ae30-4a86-9d02-0b8a-9297ff48cf58
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for navicular of Cantius trigonodus (University of Michigan Museum of Paleontology catalog number UMMP 87973) 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, Notharctidae, UMMP, University of Michigan Museum of Paleontology, Eocene, and a537f0d8-6185-9562-9b9a-a233468bf8e1
- Discipline:
- Science
-
- Creator:
- Bellile, Emily L, Taylor, Jeremy MG, and Wolf, Gregory T
- Description:
- The University of Michigan’s Head and Neck Specialized Program of Research Excellence (SPORE) included an epidemiology project that approached every previously untreated adult head and neck squamous carcinoma (HNSCC) patient evaluated in the multidisciplinary Head and Neck Oncology Program of the University of Michigan (UM; Ann Arbor, MI) Comprehensive Cancer Center for participation in our longitudinal epidemiology study. This analytic dataset includes the most commonly requested covariates and outcome variables for survival analysis of this cohort of HNSCC patients. Data cleaning and creation of this analysis dataset was performed with SAS software v 9.3 (Carey,NC) by a biostatistician supporting multiple projects in the University of Michigan’s Head and Neck Specialized Program of Research Excellence (SPORE) and is available in RedCap for UM investigators to join with discipline specific data collected on the same cohort through a de-identified ID link.
- Keyword:
- Head and Neck Cancer, HNSCC, Squamous Cell Cancer, Epidemiology, Head and Neck Specialized Program of Research Excellence (SPORE). , Cancer, Prognosis, and Survival Analysis
- Citation to related publication:
- Cigarette use, comorbidities, and prognosis in a prospective head and neck squamous cell carcinoma population. Peterson LA, Bellile EL, Wolf GT, Virani S, Shuman AG, Taylor JM, Rozek LS; University of Michigan Head and Neck Specialized Program of Research Excellence Program. Head Neck. 2016 Dec;38(12):1810-1820. doi: 10.1002/hed.24515. Epub 2016 Jul 19. PMID: 27432208. , Development and Assessment of a Model for Predicting Individualized Outcomes in Patients With Oropharyngeal Cancer. Beesley LJ, Shuman AG, Mierzwa ML, Bellile EL, Rosen BS, Casper KA, Ibrahim M, Dermody SM, Wolf GT, Chinn SB, Spector ME, Baatenburg de Jong RJ, Dronkers EAC, Taylor JMG. JAMA Netw Open. 2021 Aug 2;4(8):e2120055. doi: 10.1001/jamanetworkopen.2021.20055. PMID: 34369988., Amlani, L; Bellile, E; Spector, M; Smith, J; Brenner, C; Rozek, L; Nguyen, A; Zarins, K; Thomas, D; McHugh, J; Taylor, J; Wolf, GT. Expression of p53 and prognosis in patients with head and neck squamous cell carcinoma (HNSCC); Int J Cancer Clin Res 2019, 6:122. DOI: 10.23937/2378-3419/1410122., and Spector ME, Bellile E, Amlani L, Zarins K, Smith J, Brenner JC, Rozek L, Nguyen A, Thomas D, McHugh JB, Taylor JMG, Wolf GT; University of Michigan Head and Neck SPORE Program. Prognostic Value of Tumor-Infiltrating Lymphocytes in Head and Neck Squamous Cell Carcinoma. JAMA Otolaryngol Head Neck Surg. 2019 Nov 1;145(11):1012-1019. doi: 10.1001/jamaoto.2019.2427. PMID: 31486841; PMCID: PMC6735419.
- Discipline:
- Science and Health Sciences
-
- Creator:
- Thompson, Ellen P. and Ellis, Brian R.
- Description:
- Accurate prediction of physical alterations in carbonate reservoirs under dissolution is critical for development of subsurface energy technologies. The impact of mineral dissolution on flow characteristics depends on the connectivity and tortuosity of the pore network. Persistent homology is a tool from algebraic topology that describes the size and connectivity of topological features. When applied to 3D X-ray computed tomography (XCT) imagery of rock cores, it provides a novel metric of pore network heterogeneity. Prior works have demonstrated the efficacy of persistent homology in predicting flow properties in numerical simulations of flow through porous media. Its ability to combine size, spatial distribution, and connectivity information make it a promising tool for understanding reactive transport in complex pore networks, yet limited work has been done to apply persistence analysis to experimental studies on natural rocks. In this study, three limestone cores were imaged by XCT before and after acid-driven dissolution flow through experiments. Each XCT scan was analyzed using persistent homology. In all three rocks, permeability increase was driven by the growth of large, connected pore bodies. The two most homogenous samples saw an increased effect nearer to the flow inlet, suggesting emerging preferential flow paths as the reaction front progresses. The most heterogeneous sample showed an increase in along-core homogeneity during reaction. Variability of persistence showed moderate positive correlation with pore body size increase. Persistence heterogeneity analysis could be used to anticipate where greatest pore size evolution may occur in a reservoir targeted for subsurface development, improving confidence in project viability.
- Keyword:
- Carbonate dissolution, X-ray computed tomography, Porous media, Topology, and Persistent homology
- Citation to related publication:
- Thompson, E.P.; Ellis, B.R. (2023) Persistent Homology as a Heterogeneity Metric for Predicting Pore Size Change in Dissolving Carbonates. In Review.
- Discipline:
- Science and Engineering
-
- Creator:
- Dewey, Ryan M, Livi, Stefano, Lepri, Susan T, Raines, Jim M, Ploof, Keeling, and The HIS Science Team
- Description:
- The data contained within the archive are for analysis and replication of Figure 2 in Livi et al. (2023), First Results from the Solar Orbiter Heavy Ion Sensor, Astronomy & Astrophysics. The readme.txt file contains more details on the contents of the archive and its files. Livi et al. (2023) reports the first solar wind composition measurements collected from the Heavy Ion Sensor (HIS) on the Solar Orbiter spacecraft. The period of study spans January-June 2022 during with the spacecraft completed nearly a full orbit about the Sun, from 0.3 AU to 1.0 AU. The solar wind composition within this publication are the first within the inner heliosphere. This paper describes the data and its processing from raw measurements (e.g., the data contained within this archive) to derived composition data products, and examines these composition data products about an interplanetary shock and interplanetary coronal mass ejection. Finally, these composition data are examined statistically and compared to historical data sets.
- Keyword:
- Solar Orbiter, Solar wind, Heavy ions, and Heavy Ion Sensor
- Citation to related publication:
- Livi, S., et al. (2023), First Results from the Solar Orbiter Heavy Ion Sensor, Astronomy & Astrophysics. https://doi.org/10.1051/0004-6361/202346304 and Owen, C., et al. (2020), The Solar Orbiter Solar Wind Analyser (SWA) suite, Astronomy & Astrophysics, 642. https://doi.org/10.1051/0004-6361/201937259
- Discipline:
- Science
-
- Creator:
- Martin, Tara L, Young, LR, Goldsteen, D, Nunamaker, EA, Reynolds, P, Thompson-Iritani, S, Thurston, SE, and LaFollette, MR
- Description:
- This dataset contains the results of a survey of mouse handling methods by personnel working with laboratory mice. The survey included questions about preferred handling methods, barriers to use of refined handling methods, and a knowledge quiz about refined mouse handling. Data was collected via Qualtrics survey as described in the methodology section. This dataset is associated with the following publication, accepted by PLOS One: PONE-D-23-01633R1 Title: Using refined methods to pick up mice: A survey benchmarking prevalence & beliefs about tunnel and cup handling Authors: Lauren Young, Donna Goldsteen, Elizabeth A. Nunamaker, Mark J. Prescott, Penny Reynolds, Sally Thompson-Iritani, Sarah E. Thurston, Tara L. Martin, Megan R. LaFollette
- Keyword:
- Mouse, Refined Handling, Tunnel Handling, Cup Handling, Laboratory Animal, and Animal Care
- Citation to related publication:
- Young LR, Goldsteen D, Nunamaker EA, Prescott MJ, Reynolds P, Thompson-Iritani S, Thurston SE, Martin TL, LaFollette MR. Using refined methods to pick up mice: A survey benchmarking prevalence & beliefs about tunnel and cup handling. PLOS ONE. 2023. In Press.
- Discipline:
- Science
-
- Creator:
- Ye, Zhengwei and Mi, Zetian
- Description:
- Generation of C2+ compounds using sunlight, carbon dioxide, and water provides a promising path for carbon neutrality. The exploration of a catalyst to break the bottleneck of C-C coupling, for constructing a rational artificial photosynthesis integrated device, is at the core. Herein, based on operando spectroscopy measurements, theoretical calculations, and feedstock experiments, it is discovered that gold, in conjunction with iridium, can catalyze the reduction of CO2, achieving C-C coupling by insertion of CO2 into -CH3. Owing to a combination of optoelectronic and catalytic properties, the assembly of AuIr with InGaN nanowires on silicon (AuIr@InGaN NWs/Si) enables the achievement of a C2H6 activity of 58.8 mmol‧g-1‧h-1 with a turnover number of 54,595 over 60 hours. A light-to-fuels efficiency of ~0.59% for solar fuels production from CO2 and H2O is achieved without any other energy inputs. This work provides a carbon-negative path for producing higher order C compounds.
- Keyword:
- Carbon dioxide reduction and Photocatalysis
- Discipline:
- Science
-
- Creator:
- Ludlow, Andrew and Kim, Jeongjin
- Description:
- Part of the regulation of telomerase activity includes the alternative splicing (AS) of the catalytic subunit telomerase reverse transcriptase (TERT). Although a therapeutic window for telomerase/TERT inhibition exists between cancer cells and somatic cells, stem cells express TERT and rely on telomerase activity for physiological replacement of cells. Therefore, identifying differences in TERT regulation between stem cells and cancer cells is essential for developing telomerase inhibition-based cancer therapies that reduce damage to stem cells. In this study, we measured TERT splice variant expression and telomerase activity in induced pluripotent stem cells (iPSCs), neural progenitor cells (NPCs), and non-small cell lung cancer cells (NSCLC, Calu-6 cells). We observed that a NOVA1-PTBP1-PTBP2 axis regulates TERT alternative splicing (AS) in iPSCs and their differentiation into NPCs. We also found that splice-switching of TERT, which regulates telomerase activity, is induced by different cell densities in stem cells but not cancer cells. Lastly, we identified cell type-specific splicing factors that regulate TERT AS. Overall, our findings represent an important step forward in understanding the regulation of TERT AS in stem cells and cancer cells. These data and subsequent studies may reveal a splicing factor(s) or their binding site(s) that could be targeted with small molecule drugs or antisense oligonucleotides, respectively, to reduce telomerase activity in cancer cells and promote durable cancer remissions.
- Keyword:
- Telomere, telomerase, TERT, alternative RNA splicing
- Citation to related publication:
- Dynamics of TERT Regulation via Alternative Splicing in Stem Cells and Cancer Cells. Accepted in Plos One
- Discipline:
- Science
-
- Creator:
- Umaña, Maria, Swenson, Nathan G, and Arellano, Gabriel
- Description:
- Identifying the functional traits that enable recovery after extreme events is necessary for assessing forest persistence and functioning, yet this is a difficult task because the traits mediating the responses to disturbance may vary depending on the disturbance type and over time. This study investigates the effects of traits on tree growth –for short and longer terms– in response to two vastly different extreme climatic events, droughts, and hurricanes, in a Puerto Rican forest.
- Keyword:
- Tropical tree, relative growth rates , and Puerto Rico
- Citation to related publication:
- Umaña, M. N. In review. The interplay of drought and hurricanes on tree recovery: insights from dynamic and weak functional responses. Forthcoming and Umana, M. (2023). Functional trait data across an elevational gradient of six tree species in El Yunque National Park, Puerto Rico in 2015 [Data set], University of Michigan - Deep Blue Data. https://doi.org/10.7302/7962-4t98
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for tooth in bone fragment of Colognathus obscurus (University of Michigan Museum of Paleontology catalog number UMMP 7506) 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, Reptile, UMMP, University of Michigan Museum of Paleontology, Triassic, and bf7ead64-3fff-a3f2-6b15-d04548dae2da
- Discipline:
- Science