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University of Michigan Museum of Zoology
User Collection- Creator:
- University of Michigan Museum of Zoology
- Description:
- The University of Michigan Museum of Zoology (UMMZ) is the center for the study of animal diversity on campus, focusing on the evolutionary origins of the planet’s animal species, the genetic information they contain and the communities and ecosystems they help form. Now an integral part of the Department of Ecology and Evolutionary Biology (EEB), the UMMZ houses world-class collections, containing more than 15 million specimens, span almost 200 years of regional and global biodiversity studies and that support a multi-faceted Departmental research and teaching program.
- Discipline:
- Science
4Sub-collections0Works -
- Creator:
- Hegedus, Alexander M
- Description:
- This is the README for the LunarSynchrotronArray package, maintained by Dr. Alex Hegedus alexhege@umich.edu This code repository corresponds to the Hegedus et al. 2020 (accepted) Radio Science paper, "Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array". The arxiv link for the paper is https://arxiv.org/abs/1912.04482. The DOI link is https://doi.org/10.1029/2019RS006891 , The Earth's Ionosphere is home to a large population of energetic electrons that live in the balance of many factors including input from the Solar wind, and the influence of the Earth's magnetic field. These energetic electrons emit radio waves as they traverse Earth's magnetosphere, leading to short‐lived, strong radio emissions from local regions, as well as persistent weaker emissions that act as a global signature of the population breakdown of all the energetic electrons. Characterizing this weaker emission (Synchrotron Emission) would lead to a greater understanding of the energetic electron populations on a day to day level. A radio array on the near side of the Moon would always be facing the Earth, and would well suited for measuring its low frequency radio emissions. In this work we simulate such a radio array on the lunar near side, to image this weaker synchrotron emission. The specific geometry and location of the test array were made using the most recent lunar maps made by the Lunar Reconnaissance Orbiter. This array would give us unprecedented day to day knowledge of the electron environment around our planet, providing reports of Earth's strong and weak radio emissions, giving both local and global information. , This set of codes should guide you through making the figures in the paper, as well as hopefully being accessible enough for changing the code for your own array. I would encourage you to please reach out to collaborate if that is the case! Requirements: , and CASA 4.7.1 (or greater?) built on python 2.7 Example link for Red Hat 7 https://casa.nrao.edu/download/distro/casa/release/el7/casa-release-4.7.1-el7.tar.gz Users may follow this guide to download and install the correct version of CASA for their system https://casa.nrao.edu/casadocs/casa-5.5.0/introduction/obtaining-and-installing CASA executables should be fairly straightforward to extract from the untarred files. gcc 4.8.5 or above (or below?) GCC installation instructions can be found here: https://gcc.gnu.org/install/ SPICE (I use cspice here) https://naif.jpl.nasa.gov/naif/toolkit_C.html As seen in lunar_furnsh.txt which loads the SPICE kernels, you also must download KERNELS_TO_LOAD = ( '/home/alexhege/SPICE/LunarEph/moon_pa_de421_1900-2050.bpc' '/home/alexhege/SPICE/LunarEph/moon_080317.tf' '/home/alexhege/SPICE/LunarEph/moon_assoc_me.tf' '/home/alexhege/SPICE/LunarEph/pck00010.tpc' '/home/alexhege/SPICE/LunarEph/naif0008.tls' '/home/alexhege/SPICE/LunarEph/de430.bsp' ) All of which can be found at https://naif.jpl.nasa.gov/pub/naif/generic_kernels/ SLDEM2015_128_60S_60N_000_360_FLOAT.IMG for the lunar surface data by LRO LOLA found at http://imbrium.mit.edu/DATA/SLDEM2015/GLOBAL/FLOAT_IMG/
- Citation to related publication:
- Hegedus, A., Nenon, Q., Brunet, A., Kasper, J., Sicard, A., Cecconi, B., MacDowall, R., & Baker, D. (2019). Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array. https://arxiv.org/abs/1912.04482 and Hegedus, A., Nenon, Q., Brunet, A., Kasper, J., Sicard, A., Cecconi, B., MacDowall, R., & Baker, D. (2020). Radio Science. https://doi.org/10.1029/2019RS006891
- Discipline:
- Engineering and Science
-
- Creator:
- Nelson, Arin D.
- Description:
- These MATLAB data files contain all the observations and model output used in the article Improved Internal Gravity Wave Spectral Continuum in a Regional Ocean Model by Nelson et al., recently submitted to Journal of Geophysical Research: Oceans.
- Keyword:
- Ocean, Ocean Mooring, Ocean Modeling, and Internal Waves
- Citation to related publication:
- Nelson, A. D., Arbic, B. K., Menemenlis, D., Peltier, W. R., Alford, M. H., Grisouard, N., & Klymak, J. M. (2020). Improved Internal Wave Spectral Continuum in a Regional Ocean Model. Journal of Geophysical Research: Oceans, 125(5), e2019JC015974. https://doi.org/10.1029/2019JC015974
- Discipline:
- Science
-
- Creator:
- Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research
- Description:
- Using the statistical programming package R ( https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler, http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015: https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM): https://www.glerl.noaa.gov/data/WaterBalanceModel/, and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
- Keyword:
- Water, Balance, Great Lakes, Laurentian, Machine, Learning, Lakes, Bayesian, and Network
- Citation to related publication:
- Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM). https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
- Discipline:
- Science and Engineering
-
- Creator:
- Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research
- Description:
- Using the statistical programming package R ( https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler, http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015: https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM): https://www.glerl.noaa.gov/data/WaterBalanceModel/ , and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
- Keyword:
- Water, Balance, Great Lakes, Laurentian, Machine, Learning, Lakes, Bayesian, and Network
- Citation to related publication:
- Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM). https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
- Discipline:
- Science and Engineering
-
- Creator:
- Bustamante, Angela C., Opron, Kristopher, Ehlenbach, William J., Crane, Paul K., Keene, Dirk, Standiford, Theodore J., and Singer, Benjamin H.
- Description:
- This study was conducted to detect and analyze modules, or clusters of genes, associated with sepsis, using RNAseq data obtained from 12 participants who died of sepsis and 12 participants who died of non-infectious critical illness while hospitalized. This deposit contains the input data and parameters needed to reproduce the weighted gene co-expression network analysis (WGCNA) and gene enrichment analysis performed on this data. This analysis requires the R packages "WGCNA" version 1.68 and "DESeq2" version 1.22.2 available for download from bioconductor ( http://bioconductor.org). The external bioinformatics tool DAVID version 6.8 ( https://david.ncifcrf.gov/) was used as an additional gene enrichment analysis. Please see the supplemental methods document within this deposit and published research letter for more detailed information.
- Keyword:
- Sepsis, RNAseq, Transcriptomics, Human, and Brain
- Citation to related publication:
- Bustamante, A.C., Opron, K., Ehlenbach, W.J., Larson, E.B., Crane, P.K., Keene, C.D., Standiford, T.J., Singer, B.H., 2020. Transcriptomic Profiles of Sepsis in the Human Brain. Am J Respir Crit Care Med. https://doi.org/10.1164/rccm.201909-1713LE
- Discipline:
- Science
-
- Creator:
- Niemi, Nathan A. and Abbey, Alyssa L.
- Description:
- These data were produced in the scope of research into the timing, rate, and magnitude of extensional exhumation along the length of the Rio Grande Rift in Colorado and New Mexico. 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 absolute timing, exhumation rate and total magnitude of exhumation on the normal faults that bound the Rio Grande Rift. and The QTQt program mentioned (Version QTQt64R5.6.2a was used for the data presented in this deposit) is not openly available for download, but is described in the Gallagher 2012 publication referenced, and can be requested from its author. For more information on the request process and a user guide, see http://www.iearth.org.au/codes/QTQt/
- Keyword:
- thermochronology, helium dating, (U-Th)/He, Rio Grande Rift, New Mexico, Colorado, and extensional tectonics
- Citation to related publication:
- Abbey, A. L., & Niemi, N. A. (2020). Perspectives on Continental Rifting Processes From Spatiotemporal Patterns of Faulting and Magmatism in the Rio Grande Rift, USA. Tectonics, 39(1), e2019TC005635. https://doi.org/10.1029/2019TC005635
- Discipline:
- Science
-
- Creator:
- Davis Rabosky, Alison R., Moore, Talia Y., Sánchez-Paredes, Ciara M., Westeen, Erin P., Larson, Joanna G., Sealey, Briana A., and Balinski, Bailey A.
- Description:
- Animals in nature use diverse strategies to evade or deter their predators, including many vivid behavioural displays only qualitatively described from field encounters with natural predators or humans. Within venomous snake mimicry, stereotyped anti-predator displays are suggested to be a critical component of the warning signal given by toxic models and thus under strong selection for independent convergence in mimetic species. However, no studies have systematically quantified variation in snake anti-predator displays across taxonomically broad clades to test how these behaviours evolve across species within a phylogenetic comparative methods framework. Here we describe a new, high-throughput approach for collecting and scoring snake anti-predator displays in the field that demonstrates both low observer bias and infinite extension across any species. Then, we show our method's utility in quantitatively comparing the behaviour of 20 highly-divergent snake species from the Amazonian lowlands of Peru. We found that a simple experimental setup varying simulated predator cues was very successful in eliciting anti-predator displays across species and that high-speed videography captured a greater diversity of behavioural responses than described in the literature. We also found that although different display components evolve at different rates with complicated patterns of covariance, there is clear evidence of evolutionary convergence in anti-predator displays among distantly related elapid coral snakes and their colubrid mimics. We conclude that our approach significantly advances opportunity for future analyses of snake behaviour, kinematics, and the evolution of anti-predator signals more generally, especially macroevolutionary analyses across clades with similarly intractable behavioural diversity.
- Keyword:
- Batesian mimicry, phylogenetic comparative methods, signal evolution, aposematism, simulated predator cues, coral snakes, and Peruvian Amazon
- Citation to related publication:
- Alison R. Davis Rabosky, Talia Y. Moore, Ciara M. Sanchez-Paredes, Erin P. Westeen, Joanna G. Larson, Briana A. Sealey, Bailey A. Balinski (2020) Convergence and divergence in anti-predator displays: A novel approach to quantitative behavioural comparison in snakes. Biological Journal of the Linnean Society http://dx.doi.org/10.1093/biolinnean/blaa222
- Discipline:
- Science
-
- Creator:
- Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research, University of Michigan
- Description:
- Using the statistical programming package R ( https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler, http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015: https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM): https://www.glerl.noaa.gov/data/WaterBalanceModel/, and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
- Keyword:
- Water, Balance, Great Lakes, Laurentian, Machine Learning, Machine, Learning, Lakes, Bayesian, and Network
- Citation to related publication:
- Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM). https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
- 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:
- Wittkopp, Patricia J and Massey, Jonathan H
- Description:
- Data provided in this record were collected in the course of studying the genetic basis of differences in wing pigmentation and wing display between Drosophila elegans and Drosophila gunungcola.
- Citation to related publication:
- Massey, J. H., Rice, G. R., Firdaus, A. S., Chen, C.-Y., Yeh, S.-D., Stern, D. L., & Wittkopp, P. J. (2020). Co-evolving wing spots and mating displays are genetically separable traits in Drosophila. Evolution, 74(6), 1098–1111. https://doi.org/10.1111/evo.13990
- Discipline:
- Science
-
- Creator:
- Liu, Meichen
- Description:
- We intend to figure out the difference of stress drops, which is a characteristic source parameter, between shallow and deep-focus earthquakes. Significant stress drop difference may shed light on the difference of physical mechanisms of shallow and deep-focus earthquakes, which has been a elusive question. We select from deep-focus earthquakes (> 400 km) in 2000-2018 and obtain their stress drops using P and S waves. We find that stress drops of deep-focus earthquakes are about one order of magnitude higher than that of shallow earthquakes, indicating about one order of magnitude higher shear strength of shallow faults than faults in the mantle. The wide range of stress drops further suggests coexistence of phase transformation and shear-induced melting mechanisms of deep-focus earthquakes.
- Citation to related publication:
- Liu, M., Huang, Y., & Ritsema, J. (2020, March 4). Stress drop variation of deep-focus earthquakes based on empirical Green's function [preprint]. Submitted to Geophysical Research Letters. https://doi.org/10.31223/osf.io/8jx6p and Liu, M., Huang, Y., & Ritsema, J. (2020). Stress Drop Variation of Deep-Focus Earthquakes Based on Empirical Green’s Functions. Geophysical Research Letters, 47(9), e2019GL086055. https://doi.org/10.1029/2019GL086055
- Discipline:
- Science
-
- Creator:
- Tye, Alexander R, Niemi, Nathan A, Safarov, Rafig T, Kadirov, Fakhraddin A, Babayev, Gulam R
- Description:
- The Eastern Greater Caucasus is a mountain belt in western Asia that formed as an accretionary prism above an active subduction zone. Because of the bedrock exposure in the range, it offers a unique opportunity to research deformation processes in accretionary prisms, which are ubiquitous above the Earth's many subduction zones but are typically submarine and difficult to investigate. The data presented here result from field geologic mapping in several swaths roughly perpendicular to the mountain range that together span the entire range across strike. The data serve will serve as the basis for inference of the deep structural architecture of the range and characterization of the styles of deformation present in the range.
- Keyword:
- structural geology, Greater Caucasus, tectonics, geologic mapping, and accretionary prism
- 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:
- Tye, Alexander R, Niemi, Nathan A, Safarov, Rafig T, Kadirov, Fakhraddin A, Babayev, Gulam R
- Description:
- The dataset contains U-Pb radiometric ages of zircon grains from sedimentary rocks and modern river sands from the Caucasus region of western Asia. The data were collected as part of a research project investigating the effects of continental collision in the Caucasus region on regional erosion and sedimentary systems. The data are presented using the standard quantities reported for zircon U-Pb age analyses at the University of Arizona Laserchron Center.
- Keyword:
- detrital zircon, provenance, and U-Pb
- 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:
- Carlson, Zachary
- Description:
- Data repository for supplemental data for manuscript. Article and data set are currently under review by publisher. Email for more information.
- Citation to related publication:
- Carlson, Z., Hafner, H., Mulcahy, M., Bullock, K., Zhu, A., Bridges, D., Bernal-Mizrachi, E., & Gregg, B. (2020). Lactational metformin exposure programs offspring white adipose tissue glucose homeostasis and resilience to metabolic stress in a sex-dependent manner. American Journal of Physiology-Endocrinology and Metabolism, 318(5), E600–E612. https://doi.org/10.1152/ajpendo.00473.2019
- 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:
- 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:
- 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:
- Bougher, S. W. (CLaSP Department, U. of Michigan), Roeten, K. J. (CLaSP Department, U. of Michigan), and Sharrar, R. (Astronomy Department, U. of Michigan)
- 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 the first 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 and 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). Nine reference measurement intervals during this global dust storm (1-June through 30-August 2018) are selected for detailed study (Elrod et al. 2019). The Mars conditions for these 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. The M-GITM datacubes used to extract the density, temperature and neutral winds, along the trajectory of each orbit path between 140 and 240 km, are provided in this Deep Blue Data archive. README files are provided for each datacube, detailing the contents of each file. A general README file is also provided that summarizes the inputs and outputs of the M-GITM code simulations for this study.
- Keyword:
- Mars, MAVEN Spacecraft, Mars Thermosphere, and Mars Global Dust Storm of 2018
- 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 Jain, S. K., Bougher, S. W., Deighan, J., Schneider, N. M., Gonzalez‐Galindo, F., Stewart, A. I. F., et al. ( 2020). Martian thermospheric warming associated with the Planet Encircling Dust Event of 2018. Geophysical Research Letters, 47, e2019GL085302. https://doi.org/10.1029/2019GL085302
- Discipline:
- Engineering and Science
-
- Creator:
- Allen, David N, Vandermeer, John, Dick, Christopher W, Perfecto, Ivette, and Burnham, Robyn J
- Description:
- These data are in the standard ForestGEO format. Each of the three censuses has its own text file. Within that file each row represents a stem measured in that census. Species information can be found in the species file. The personnel responsible for this work can be found in the personnel file. See the readme file for more information.
- Keyword:
- Forest ecology, Oak-hickory forest, Mesophication, and Invasive species
- Citation to related publication:
- Allen, D, CW Dick, RJ Burnham, I Perfecto, and J Vandermeer. The Michigan Big Woods research plot at the Edwin S. George Reserve, Pinckney, MI, USA. Occasional Papers of the Museum of Zoology. In review.
- Discipline:
- Science
-
- Creator:
- Moore, Talia Y., Danforth, Shannon M., Larson, Joanna G., and Davis Rabosky, Alison R.
- Description:
- Warning signals in chemically defended organisms are critical components of predator-prey interactions, often requiring multiple coordinated display components for a signal to be effective. When threatened by a predator, venomous coral snakes (genus Micrurus) display a vigorous, non-locomotory thrashing behaviour that has been only qualitatively described. Given the high-contrast and often colourful banding patterns of these snakes, this thrashing display is hypothesized to be a key component of a complex aposematic signal under strong stabilizing selection across species in a mimicry system. By experimentally testing snake response across simulated predator cues, we analysed variation in the presence and expression of a thrashing display across five species of South American coral snakes. Although the major features of the thrash display were conserved across species, we found significant variation in the propensity to perform a display at all, the duration of thrashing, and the curvature of snake bodies that was mediated by predator cue type, snake body size, and species identity. We also found an interaction between curve magnitude and body location that clearly shows which parts of the display vary most across individuals and species. Our results suggest that contrary to the assumption in the literature that all species and individuals perform the same display, a high degree of variation persists in thrashing behaviour exhibited by Micrurus coral snakes despite presumably strong selection to converge on a common signal. This quantitative behavioural characterization presents a new framework for analysing the non-locomotory motions displayed by snakes in a broader ecological context, especially for signalling systems with complex interaction across multiple modalities.
- Keyword:
- aposematism, biomechanics, coral snake mimicry, curvature, Elapidae, non-locomotory motion, Peruvian Amazon, and snake behaviour
- Citation to related publication:
- Moore, T. Y., Danforth, S. M., Larson, J. G., & Davis Rabosky, A. R. (2020). A Quantitative Analysis of Micrurus Coral Snakes Reveals Unexpected Variation in Stereotyped Anti-Predator Displays Within a Mimicry System. Integrative Organismal Biology, 2(1). https://doi.org/10.1093/iob/obaa006
- Discipline:
- Science
-
- Creator:
- Hodgins-Davis, Andrea, Duveau, Fabien, Walker, Elizabeth, and Wittkopp, Patricia J
- Description:
- Understanding how phenotypes evolve requires disentangling the effects of mutation generating new variation from the effects of selection filtering it. Tests for selection frequently assume that mutation introduces phenotypic variation symmetrically around the population mean, yet few studies have tested this assumption by deeply sampling the distributions of mutational effects for particular traits. Here, we examine distributions of mutational effects for gene expression in the budding yeast Saccharomyces cerevisiae by measuring the effects of thousands of point mutations introduced randomly throughout the genome. We find that the distributions of mutational effects differ for the ten genes surveyed and are inconsistent with normality. For example, all ten distributions of mutational effects included more mutations with large effects than expected for normally distributed phenotypes. In addition, some genes also showed asymmetries in their distribution of mutational effects, with new mutations more likely to increase than decrease the gene’s expression or vice versa. Neutral models of regulatory evolution that take these empirically determined distributions into account suggest that neutral processes may explain more expression variation within natural populations than currently appreciated.
- Keyword:
- gene expression, evolution, mutation, mutagenesis, regulatory evolution, YFP, reporter construct, yeast, TDH1, TDH2, TDH3, GPD1, OST1, PFY1, STM1, RNR1, and RNR2
- Citation to related publication:
- Hodgins-Davis, A., Duveau, F., Walker, E. A., & Wittkopp, P. J. (2019). Empirical measures of mutational effects define neutral models of regulatory evolution in Saccharomyces cerevisiae. BioRxiv, 551804. https://doi.org/10.1101/551804
- 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:
- Ridley, Aaron and Cnossen, Ingrid
- Description:
- These are modeling results of the thermospheric and ionospheric response to the solar eclipse of August 21, 2017. The results are discussed in a research paper published in the Journal of Geophysical Research (doi: 10.1029/2018JA026402) .
- Citation to related publication:
- Cnossen, I., Ridley, A. J., Goncharenko, L. P., and Harding, B. J.. ( 2019), The response of the ionosphere‐thermosphere system to the August 21, 2017 solar eclipse. J. Geophys. Res. Space Physics, 124. https://doi.org/10.1029/2018JA026402
- Discipline:
- Science
-
- Creator:
- Wang, Yi and Hendy, Ingrid L.
- Description:
- The dataset contains bulk sedimentary d15N, TOC, and TN data measured every 2 mm on the core SPR0901-03KC. Flood and turbidite layers are shaded with blue and orange in the files. and This work is supported by NSF OCE-1304327.
- Keyword:
- d15N, total organic carbon, nitrogen isotopes, SPR0901-03KC, and Santa Barbara Basin
- Citation to related publication:
- Wang, Y. , Hendy, I. L. and Thunell, R. (2019), Local and remote forcing of denitrification in the Northeast Pacific for the last 2000 years. Paleoceanography and Paleoclimatology. Volume 34, issue 8, pages 1517-1533. https://doi.org/10.1029/2019PA003577
- Discipline:
- Science
-
- Creator:
- Jialei Zhu and Joyce E. Penner
- Description:
- The dataset contains the Fortran programs applied in the latest CESM/IMPACT model as well as the data created from this model, which are used in the referenced paper.
- Keyword:
- Second organic aerosol, Radiative effect, and Cirrus cloud
- Citation to related publication:
- Zhu, J and Penner, J. E.: Indirect effects of secondary organic aerosol on cirrus clouds, (2019), Journal of Geophysical Research: Atmospheres, https://doi.org/10.1029/2019JD032233
- Discipline:
- Science
-
- Creator:
- Chen, Yang and Manchester, Ward IV
- Description:
- GOES_flare_list: contains a list of more than 10,000 flare events. The list has 6 columns, flare classification, active region number, date, start time end time, emission peak time, GOES_B_flare_list: contains time series data of SDO/HMI SHARP parameters for B class solar flares , GOES_MX_flare_list: contains time series data of SDO/HMI SHARP parameters for M and X class solar flares, SHARP_B_flare_data_300.hdf5 and SHARP_MX_flare_data_300.hdf5 files contain time series more than 20 physical variables derived from the SDO/HMI SHARP data files. These data are saved at a 12 minute cadence and are used to train the LSTM model., and B_HARPs_CNNencoded_part_xxx.hdf5 and M_X HARPs_CNNencoded_part_xxx.hdf5 include neural network encoded features derived from vector magnetogram images derived from the Solar Dynamics Observatory (SDO) Helioseismic and Magnetic Imager (HMI). These data files typically contains one or two sequences of magnetograms covering an active region for a period of 24h with a 1 hour cadence. We encode each magnetogram with frames of a fixed size of 8x16 with 512 channels.
- Keyword:
- machine learning, data science, and solar flare prediction
- Citation to related publication:
- Chen, Y., Manchester, W., Hero, A., Toth, G., DuFumier, B. Zhou, T., Wang, X., Zhu, H., Sun, Zeyu, Gombosi, T., Identifying Solar Flare Precursors Using Time Series of SDO/HMI Images and SHARP Parameters, Space Weather, 17, 1404–1426. https://doi.org/10.1029/2019SW002214 and Jiao, Z., Chen, Y., Manchester, W. (2020). Data for Solar Flare Intensity Prediction with Machine Learning Models [Data set]. University of Michigan - Deep Blue. https://doi.org/10.7302/b07j-bj08
- Discipline:
- Engineering and 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:
- Huang, Yihe (University of Michigan); De Barros, Louis (Université Côte d’Azur)
- Description:
- Numerous small and moderate injection-induced earthquakes have been recorded in North America, Europe and Asia. Here we present a detailed analysis about microearthquakes in an in-situ injection-induced earthquake experiment, which provides an unprecedented opportunity to investigate the mechanisms of induced earthquakes. Our analysis illuminates meter-scale earthquake sources distributed in a network of preexisting rock fractures. The majority of induced earthquakes in our analysis happened when injection pressure reached a peak, indicating a direct response of rock fractures to fluid pressure perturbation. But the relatively low ratio of stress drop to crustal strength reveals that a very small fraction of the crustal shear strength is released by earthquakes, supporting the previous notion that fluid injection induces large aseismic deformation during the experiment. and Citation for dataset: Huang, Y., De Barros, L. (2019). Seismograms of earthquake pairs in the injection experiment [Data set]. University of Michigan - Deep Blue.
- Keyword:
- Induced seismicity
- Citation to related publication:
- Huang, Y., De Barros, L., Cappa, F. (2019). Illuminating the Rupturing of Microseismic Sources in an Injection‐Induced Earthquake Experiment. Geophysical Research Letters, 46(16), 9563-9572. https://doi.org/10.1029/2019GL083856
- Discipline:
- Science
-
- Creator:
- Hall, Ryan J. and Larson, Ronald G.
- Description:
- This is data is a large assortment of over 50 1,4-polybutadiene star-linear blends that can be used for assessing and developing predictive models. The data are presented in CSV files.
- Keyword:
- polymers, rheology, star-linear polymer blends, and shear rheology
- Citation to related publication:
- Hall, R., Desai, P. S., Kang, B.-G., Huang, Q., Lee, S., Chang, T., Venerus, D. C., Mays, J., Ntetsikas, K., Polymeropoulos, G., Hadjichristidis, N., & Larson, R. G. (2019). Assessing the Range of Validity of Current Tube Models through Analysis of a Comprehensive Set of Star–Linear 1,4-Polybutadiene Polymer Blends. Macromolecules, 52(20), 7831–7846. https://doi.org/10.1021/acs.macromol.9b00642
- Discipline:
- Science and Engineering
-
- Creator:
- Basile, Samantha, Lin, Xin, and Keppel-Aleks, Gretchen
- Description:
- Files contain the atmospheric CO2 mole fraction responses to land flux type (HRcasa, HRcorpse, HRmimics) and land flux region (latband variable). Land flux regions are categorized as: Northern Hemisphere high latitudes (NHL; 61 to 90°N), midlatitudes (NML; 24 to 60°N), tropics (NT; 1 to 23°N), Southern Hemisphere tropics (ST; 0 to 23°S), and extratropics (SE; 24 to 90°S). See the README file for how these land flux region definitions relate to the file's latband variable. and To cite dataset: Basile, S., Lin, X., Keppel-Aleks, G. (2019). Simulated CO2 dataset using the atmospheric transport model GEOSChem v12.0.0: Response to regional land carbon fluxes [Data set]. University of Michigan - Deep Blue. https://doi.org/10.7302/xjzc-xy05
- Keyword:
- carbon dioxide, soil heterotrophic respiration, GEOSChem, HR, CO2, CASA-CNP, CORPSE, and MIMICS
- Discipline:
- Science
-
- Creator:
- Zhu, Jialei and Penner, Joyce E.
- Description:
- The dataset contains the Fortran programs applied in the latest CESM/IMPACT model as well as the data created from this model, which are used in the referenced paper.
- Keyword:
- Organic nucleation, CESM/IMPACT, and SOA
- Citation to related publication:
- Zhu, J. and Penner, J. E.: Global modelling of secondary organic aerosol (SOA) with organic nucleation, (2019), Journal of Geophysical Research: Atmospheres, 124, 8260– 8286, https://doi.org/10.1029/2019JD030414
- Discipline:
- Science
-
- Creator:
- dos Santos, Thiago, Steiner, Allison, Keppel-Aleks, Gretchen, and De Roo, Roger
- Description:
- Model simulations were conducted to investigate the role of soil moisture on the terrestrial carbon and water cycles. The data are composed of NetCDF files generated by the simulations that contain the data variables analyzed in the paper. and CLM5 Documentation - http://www.cesm.ucar.edu/models/cesm2/land/.
- Keyword:
- Soil moisture, Community Land Model 5, Latent heat, GPP, Gross primary productivity, and Fluxnet
- Citation to related publication:
- Santos, T. dos, Keppel-Aleks, G., Roo, R. D., & Steiner, A. L. (2021). Can Land Surface Models Capture the Observed Soil Moisture Control of Water and Carbon Fluxes in Temperate-To-Boreal Forests? Journal of Geophysical Research: Biogeosciences, 126(4), e2020JG005999. https://doi.org/10.1029/2020JG005999
- Discipline:
- Science
-
- Creator:
- Wang, Zihan
- Description:
- SWMF is used to study the segmentation of SED plume into polar cap patches during the geomagnetic storm on Sep 7, 2017. The database includes the 3D output in the upper atmosphere from GITM, the 2D output from Ionospheric Electrodynamics (IE) and 3D output from BATSRUS. The output from GITM can be read with thermo_batch_new.pro. The output from IE can be opened with Spacepy at https://pythonhosted.org/SpacePy/. The output from BATSRUS can be opened with tecplot. More details can be found in Readme.txt.
- Keyword:
- MHD and Ionosphere
- Citation to related publication:
- Wang, Z., Zou, S., Coppeans, T., Ren, J., Ridley, A., & Gombosi, T. (2019). Segmentation of SED by Boundary Flows Associated With Westward Drifting Partial Ring current. Geophysical Research Letters, 46(14), 7920–7928. https://doi.org/10.1029/2019GL084041
- Discipline:
- Science
-
- Creator:
- Trung, Huy-Sinh, Liemohn, Michael W, and Ilie, Raluca
- Description:
- This research is from the last time step of a 12 hour simulation. The files that are attached with this simulation require the raw data from (doi:10.7302/fwq2-ey41). The python files generate various plots for the paper.
- Keyword:
- Space Physics, Magnetospheres, and Magnetohydrodynamics
- Citation to related publication:
- Trung, H.-S., Liemohn, M. W., & Ilie, R. (2019). Steady State Characteristics of the Terrestrial Geopauses. Journal of Geophysical Research: Space Physics, 124(7), 5070–5081. https://doi.org/10.1029/2019JA026636
- Discipline:
- Science
-
- Creator:
- Johnson, Jena E., Webb, Samuel M., Condit, Cailey B., Beukes, Nicolas J., and Fischer, Woodward W.
- Description:
- Manganese in the sedimentary record has been interpreted by many as a powerful redox proxy for paleoenvironments, and yet very little work has been done to ensure that the manganese-rich minerals in the rock record are actually recording primary signals. In the accompanying manuscript, we present an in-depth characterization of the manganese mineralogy from two correlated regions recording the Transvaal Supergroup in South Africa with markedly different alteration histories to investigate if there can be post-depositional emplacement of manganese-rich minerals. The data uploaded here are X-ray absorption spectra of (1) manganese standard minerals that were useful in our analyses and (2) minerals from an important well-characterized sample that may be useful as comparative standards in future studies.
- Keyword:
- manganese and X-ray absorption spectroscopy
- Citation to related publication:
- J.E. Johnson, S.M. Webb, C.B. Condit, N.J. Beukes, W.W. Fischer; Effects of metamorphism and metasomatism on manganese mineralogy: Examples from the Transvaal Supergroup. South African Journal of Geology doi: https://doi.org/10.25131/sajg.122.0034
- Discipline:
- Science
-
- Creator:
- Ruas, Terry, Ferreira, Charles H. P., Grosky, William, França, Fabrício O., and Medeiros, Débora M. R,
- Description:
- The relationship between words in a sentence often tell us more about the underlying semantic content of a document than its actual words, individually. Recent publications in the natural language processing arena, more specifically using word embeddings, try to incorporate semantic aspects into their word vector representation by considering the context of words and how they are distributed in a document collection. In this work, we propose two novel algorithms, called Flexible Lexical Chain II and Fixed Lexical Chain II that combine the semantic relations derived from lexical chains, prior knowledge from lexical databases, and the robustness of the distributional hypothesis in word embeddings into a single decoupled system. In short, our approach has three main contributions: (i) unsupervised techniques that fully integrate word embeddings and lexical chains; (ii) a more solid semantic representation that considers the latent relation between words in a document; and (iii) lightweight word embeddings models that can be extended to any natural language task. Knowledge-based systems that use natural language text can benefit from our approach to mitigate ambiguous semantic representations provided by traditional statistical approaches. The proposed techniques are tested against seven word embeddings algorithms using five different machine learning classifiers over six scenarios in the document classification task. Our results show that the integration between lexical chains and word embeddings representations sustain state-of-the-art results, even against more complex systems. Github: https://github.com/truas/LexicalChain_Builder
- Keyword:
- document classification, lexical chains, word embeddings, synset embeddings, chain2vec, and natural language processing
- Citation to related publication:
- Terry Ruas, Charles Henrique Porto Ferreira, William Grosky, Fabrício Olivetti de França, Débora Maria Rossi de Medeiros, "Enhanced word embeddings using multi-semantic representation through lexical chains", Information Sciences, 2020, https://doi.org/10.1016/j.ins.2020.04.048
- Discipline:
- Other, Science, and Engineering
-
- Creator:
- Hongyang Zhou
- Description:
- The outputs include the steady state solutions for all Galileo flybys, the particle information for plotting the distribution functions near the reconnection site, the particle and field data for mapping the energetic flux densities, and 3D files for visualizing the whole simulation domain. More details can be found in Readme.txt.
- Keyword:
- MHD and PIC
- Citation to related publication:
- Zhou, H., Tóth, G., Jia, X., Chen, Y., & Markidis, S. (2019). Embedded kinetic simulation of Ganymede's magnetosphere: Improvements and inferences. Journal of Geophysical Research: Space Physics, 124, 5441– 5460. https://doi.org/10.1029/2019JA026643
- Discipline:
- Science
-
- 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:
- Trung, Huy-Sinh, Liemohn, Michael W, and Ilie, Raluca
- Description:
- The goal of this research was to understand structures where the solar wind plasma contribution to the total plasma was equal to the ionospheric plasma. This simulation was performed over a simulation time of 12 hours for 4 different plasma compositions for 2 different solar wind profiles., The SWMF used the Block Adaptive Tree Solar wind Roe-type Upwind Scheme version 9.20. It can be found at http://csem.engin.umich.edu/tools/swmf/downloads.php. These data can be processed using the simulation code deposited at the Deep Blue Data record indicated in the "Citation to related material" field., and To cite this data set: Trung, H.-S., Liemohn, M., W., Ilie, R. (2019). 12 hour data for magnetospheric simulations for a multifluid plasma for 8 different configurations [Data set]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/fwq2-ey41
- Keyword:
- Space Physics, Magnetospheres, and 3D
- Citation to related publication:
- Trung, H.-S., Liemohn, M.W. Ilie, R. (2019). Steady State Characteristics of the Terrestrial Geopause [Data set]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/7w13-kq27
- Discipline:
- Science
-
R/V Melville Core Retrieval Campaign (MV0811), November 2008
User Collection- Creator:
- Wang, Yi and Hendy, Ingrid
- Description:
- This collection represents various raw data and analysis of cores extracted during the November 2008 mission of R/V Melville in the Santa Barbara Basin., The core included is the jumbo piston core MV0811-14JC. Core photos, physical properties and magnetic susceptibility from the multisensor track (MST), and the scanning X-ray fluorescence (XRF) data are included in the collection., and Cruise DOI: 10.7284/903459 The research is funded by NSF OCE-1304327.
- Keyword:
- Santa Barbara Basin, Southern California, core photos, physical properties, scanning XRF, MV0811, and Earth Science
- Discipline:
- Science
3Works -
- 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:
- Ingrid L. Hendy and Yi Wang
- Description:
- This dataset includes core physical properties (e.g., bulk density, porosity, P-wave velocity) and magnetic susceptibility data for SPR0901-04BC (34.2816°N, 120.0415°W, 588 m water depth) measured on the multisensor track (MST). SPR0901-04BC was collected by the research vessel R/V Sproul off Southern California in 2009.1. The study is supported by NSF OCE-0752093.
- Keyword:
- physical properties, magnetic susceptibility, Santa Barbara Basin, and SPR0901-04BC
- Citation to related publication:
- "Recover MT Receivers offshore Morro Bay/Deploy and Recover EM Sensor in the San Diego Trough." Cruise ID: SP0901. 2009. Accessible at Rolling Deck to Repository at https://doi.org/10.7284/901085
- Discipline:
- Science
-
- Creator:
- Folz, Jeff
- Description:
- This data set includes four zipped files each containing unprocessed cell images from a single cell line collected as raw data, the scripts used to process these images and tabular files with the processed data outputs. This data set supports the PLOS ONE publication, "Cell-morphodynamic phenotype classification with application to cancer metastasis using cell magnetorotation and machine-learning."
- Discipline:
- Science
-
- Creator:
- Crisp, Dakota N., Saggio, Maria L., Scott, Jared, Stacey, William C., Nakatani, Mitsuyoshi, Gliske, Stephen V., and Lin, Jack
- Description:
- This data and scripts are meant to test and show seizure differentiation based on bifurcation theory. A zip file is included which contains real and simulated seizure waveforms, Matlab scripts, and metadata. The matlab scripts allow for visual review validation and objective feature analysis. The file “README.txt” provides more detail about each individual file within the zip file. and Data citation: Crisp, D.N., Saggio, M.L., Scott, J., Stacey, W.C., Nakatani, M., Gliske, S.F., Lin, J. (2019). Epidynamics: Navigating the map of seizure dynamics - Code & Data [Data set]. University of Michigan Deep Blue Data Repository. https://doi.org/10.7302/ejhy-5h41
- Keyword:
- Bifurcation, Epilepsy, Seizure, and Divergence
- Citation to related publication:
- Saggio, M.L., Crisp, D., Scott, J., Karoly, P.J., Kuhlmann, L., Nakatani, M., Murai, T., Dümpelmann, M., Schulze-Bonhage, A., Ikeda, A., Cook, M., Gliske, S.V., Lin, J., Bernard, C., Jirsa, V., Stacey, W., 2020. In pre-print. Epidynamics characterize and navigate the map of seizure dynamics. bioRxiv 2020.02.08.940072. https://doi.org/10.1101/2020.02.08.940072
- Discipline:
- Engineering, Science, and Health Sciences
-
- Creator:
- Mitchell, R.L. and Sheldon, Nathan D.
- Description:
- Samples from a road cut section were analyzed. New paleosols were discovered.
- Keyword:
- Paleosols, Precambrian, Keweenawan, Paleoenvironments, and Midcontinental Rift
- Citation to related publication:
- Mitchell, R.L., Sheldon, N.D., 2009, Weathering and paleosol formation in the 1.1. Ga Keweenawan Rift: Precambrian Research 168, p. 271–283. https://doi.org/10.1016/j.precamres.2008.09.013
- Discipline:
- Science
-
- Creator:
- Cotton, Jennifer M. and Sheldon, Nathan D.
- Description:
- These spreadsheets contain all data and data by diet type, meat consumption, gender, and British comparison for the classroom activity described in the accompanying paper.
- Keyword:
- Sustainable agriculture , Active learning, Stable isotopes, and Large enrollment
- Citation to related publication:
- Cotton, J.M., and Sheldon, N.D., 2013, Using stable carbon and nitrogen isotopes of hair to teach about sustainable agriculture through active learning: Journal of Geoscience Education 61, 59–67. https://doi.org/10.5408/12-309.1
- Discipline:
- Science
-
- Creator:
- Ingrid L. Hendy and Yi Wang
- Description:
- This dataset includes scanning X-ray fluorescence (XRF) data for the core MV0811-14JC (34.2818°N 120.0360°W, water depth: 582 m), which was collected by the research vessel R/V Melville off Southern California in 2008.11. The research is funded by NSF OCE-1304327.
- Keyword:
- scanning X-ray fluorescence, XRF, Santa Barbara Basin, and MV0811-14JC
- Citation to related publication:
- "BOLT Expedition, Leg 2/A Test for Extending the High-Resolution Climate Record Back to 1.2 Ma." Cruise ID: BOLT02MV. 2008. Accessible at Rolling Deck to Repository at https://doi.org/10.7284/903459
- Discipline:
- Science
-
- Creator:
- Ingrid L. Hendy and Yi Wang
- Description:
- This dataset includes scanning X-ray fluorescence (XRF) data for the core SPR0901-03KC (34.2832°N, 120.0401°W, 586 m water depth). SPR0901-03KC was collected by the research vessel R/V Sproul off Southern California in 2009.1. The research is funded by NSF OCE-0752093.
- Keyword:
- scanning X-ray fluorescence, XRF, Santa Barbara Basin, and SPR0901-03KC
- Citation to related publication:
- "Recover MT Receivers offshore Morro Bay/Deploy and Recover EM Sensor in the San Diego Trough." Cruise ID: SP0901. 2009. Accessible at Rolling Deck to Repository at https://doi.org/10.7284/901085
- Discipline:
- Science
-
- Creator:
- Ingrid L. Hendy and Yi Wang
- Description:
- This dataset includes scanning X-ray fluorescence (XRF) data for the core SPR0901-04BC (34.2816°N, 120.0415°W, 588 m water depth). SPR0901-04BC was collected by the research vessel R/V Sproul off Southern California in 2009.1. This research is funded by NSF OCE-0752093.
- Keyword:
- scanning X-ray fluorescence, XRF, Santa Barbara Basin, and SPR0901-04BC
- Citation to related publication:
- "Recover MT Receivers offshore Morro Bay/Deploy and Recover EM Sensor in the San Diego Trough." Cruise ID: SP0901. 2009. Accessible at Rolling Deck to Repository at https://doi.org/10.7284/901085
- Discipline:
- Science