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- 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:
- Benjamin Leffel
- Description:
- Time series dataset of adoption by year of climate action plans by 177 U.S. cities, 2010-2019, with links to plans included. This dataset is intended for use by researchers and practitioners investigating both individual climate action plans and time series patterns of adoption at the municipal level.
- Keyword:
- climate change, climate action plan, municipal, and Urban Sustainability Research Group
- Discipline:
- Social Sciences and Government, Politics and Law
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- 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
-
An analysis of recorded and simulated SH wave reverberations in the upper mantle beneath the USArray
- Creator:
- Meichen Liu
- Description:
- We use waveform data from the USArray and spectral-element method synthetics for 3-D seismic models. The recorded waveform data are downloaded from Incorporated Research Institutions for Seismology (IRIS) which is open to everyone. The synthetic waveform data are generated by the SPECMFEM3D_Globe software that was downloaded from the Computational Infrastructure for Geodynamics ( https://geodynamics.org/). This dataset includes the scripts we use to automatically download data from IRIS, the selection of data, and the application of the CRP method. In doing this, we use the TauP toolkit which is free to download ( https://www.seis.sc.edu/taup/) to compute the travel time.
- Keyword:
- seismology
- Discipline:
- Science
-
- Creator:
- Troesch, Armin, W. and Kang, C.-G.
- Description:
- This scaled acceleration time series has been used in the graduate class, NA540, as an example of hydrodynamic impact. For a more detailed description of the tests, please see: Troesch, A.W. and Kang, C.-G., "Hydrodynamic Impact Loads on Three Dimensional Bodies," Proceedings of the 16th Symposium on Naval Hydrodynamics, Berkeley, July 1986, National Academy Press, Washington, D.C., 1987, pp. 537-558.
- Keyword:
- hydrodynamic impact
- Citation to related publication:
- Troesch, A.W. and Kang, C.-G., "Hydrodynamic Impact Loads on Three Dimensional Bodies," Proceedings of the 16th Symposium on Naval Hydrodynamics, Berkeley, July 1986, National Academy Press, Washington, D.C., 1987, pp. 537-558. This item is not available online due to copyright restrictions, but the text can be searched using Hathi Trust: https://babel.hathitrust.org/cgi/pt?id=mdp.39015040312475
- Discipline:
- Engineering and Science
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Bounce-Averaged Quasi-Linear Diffusion Model Simulation Input/Output on Mars’ Crustal Magnetic Field
- Creator:
- Alexander Shane
- Description:
- To study the effect of whistler mode waves on the superthermal electron velocity space at Mars, a numerical model was built to solve the bounce-averaged quasi-linear diffusion equation on a crustal field. This dataset includes the input and output variables to this model for the simulations performed in Shane and Liemohn, 2022. The studies using this dataset were conducted by Alex Shane in the Climate and Space Sciences and Engineering Department at the University of Michigan. This research was supported by the National Aeronautics and Space Administration (NASA) Grant NNX16AQ04G to the University of Michigan and the Rackham Predoctoral Fellowship.
- Keyword:
- Mars, Electron, and Crustal Fields
- Citation to related publication:
- Shane, A. D., & Liemohn, M. W. (2022). Modeling wave-particle interactions with photoelectrons on the dayside crustal fields of Mars. Geophysical Research Letters, 49, e2021GL096941. https://doi.org/10.1029/2021GL096941
- Discipline:
- Science
-
- Creator:
- Benjamin Leffel
- Description:
- Data were gathered to test three hypotheses on the impact economic growth has on environmental conditions in urban areas. The three hypotheses are: 1. Income will be associated with reductions in PM2.5, PM10, NO2 and SO2. 2. Public Administration GVA will be associated with reductions in PM2.5, PM10, NO2 and SO2. 3. Urban density will be associated with reductions in PM2.5, PM10, NO2 and SO2. More information about the research and the data can be found in: Benjamin Leffel, Nikki Tavasoli, Brantley Liddle, Kent Henderson & Sabrina Kiernan (2021) Metropolitan air pollution abatement and industrial growth: Global urban panel analysis of PM10, PM2.5, NO2 and SO2, Environmental Sociology, DOI: 10.1080/23251042.2021.1975349.
- Keyword:
- global cities, environment, urban, air pollution, income, Urban Sustainability Research Group, and student-friendly
- Citation to related publication:
- Benjamin Leffel, Nikki Tavasoli, Brantley Liddle, Kent Henderson & Sabrina Kiernan (2021) Metropolitan air pollution abatement and industrial growth: Global urban panel analysis of PM10, PM2.5, NO2 and SO2, Environmental Sociology, DOI: 10.1080/23251042.2021.1975349
- Discipline:
- Social Sciences
-
- Creator:
- Zongyu Li, Yuni K. Dewaraja, and Jeffrey A. Fessler
- Description:
- Current methods for patient-specific voxel-level dosimetry in radionuclide therapy suffer from a trade-off between accuracy and computational efficiency. Monte Carlo (MC) radiation transport algorithms are considered the gold standard for voxel-level dosimetry but can be computationally expensive, whereas faster dose voxel kernel (DVK) convolution can be sub-optimal in the presence of tissue heterogeneities. Furthermore, the accuracies of both these methods are limited by the spatial resolution of the reconstructed emission image. To overcome these limitations, this paper considers a single deep convolutional neural network (CNN) with residual learning (named DblurDoseNet) that learns to produce dose-rate maps while compensating for the limited resolution of SPECT images. We took the novel approach of constructing a convolutional neural network with residual learning to handle the accuracy-efficiency tradeoff while compensating for the limited resolution of SPECT images. We then test our CNN on clinically relevant phantoms and patients undergoing Lu-177 DOTATATE therapy in our clinic. Our network demonstrated superior results than Monte Carlo, the current gold standard for voxel dosimetry, but only takes a fraction of time. Thus, the DblurDoseNet has the potential for real-time patient-specific dosimetry in clinical treatment planning due to its demonstrated improvement in accuracy, resolution, noise and speed over the DVK/MC approaches. Matlab is needed to access the phantoms and Python (with Numpy package installed) is needed to access the DVKs.
- Keyword:
- Deep learning, Voxel-level dosimetry, Lu-177 therapy, SPECT resolution effects
- Citation to related publication:
- "DblurDoseNet: A Deep Residual Learning Network for Voxel Radionuclide Dosimetry Compensating for SPECT Imaging Resolution" by Zongyu Li, Jeffrey A. Fessler, Justin K. Mikell, Scott J. Wilderman and Yuni K. Dewaraja. Accepted by Medical Physics, 2021. DOI: 10.1002/mp.15397
- Discipline:
- Health Sciences
-
- 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:
- 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:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for a left dentary of Carpodaptes stonleyi (University of Michigan Museum of Paleontology catalog number UMMP VP 85286) as a series of TIFF images. Raw projections are not included in this dataset.
- Keyword:
- Paleontology, Fossil, CT, Carpolestidae, UMMP, University of Michigan Museum of Paleontology, Paleocene, CTEES, and ed7da511-d04c-fd32-09ef-0ea552966545
- Discipline:
- Science
-
- Creator:
- Yadav, Rajeev, Widom, Julia R, Chauvier, Adrien, and Walter, Nils G
- Description:
- These data were generated to study the conformational dynamic of fluoride riboswitch as an isolated RNA and in presence of RNA polymerase at different transcript lengths.
- Keyword:
- Fluoride riboswitch, smFRET, and conformational dynamics
- Citation to related publication:
- Yadav, R., Widom, J.R., Chauvier, A. et al. An anionic ligand snap-locks a long-range interaction in a magnesium-folded riboswitch. Nat Commun 13, 207 (2022). https://doi.org/10.1038/s41467-021-27827-y
- Discipline:
- Science
-
- Creator:
- Hawes, Jason K, Johnson, Rebecca, Payne, Lindsey, Ley, Christian, Grady, Caitlin A., Domenech, Jennifer, Evich, Carly D., Kanach, Andrew, Koeppen, Allison, Roe, Kristen, Caprio, Audrey, Puente Castro, Jessica, LeMaster, Paige, and Blatchley, Ernest R. III
- Description:
- Global service-learning brings students, instructors, and communities together to support learning and community development across borders. In doing so, global service-learning practitioners act at the intersection of two fields: service-learning and international development. Critical scholarship in all three domains has highlighted the tensions inherent in defining and tracking “success” in community development. In response, service-learning and international development have turned considerable attention to documenting project characteristics, also known as best practices or success factors, which support equitable, sustainable community development. This database accompanies the article "Global Service-Learning - A systematic review of principle and practice," which presents a systematic synthesis of these fields’ best practices in the context of global service-learning. We propose 18 guiding principles for project design which aim to support practitioners in creating and maintaining justice-oriented, stakeholder-driven projects. This database contains the necessary reference material to trace the path of our analysis from abstract review to thematic synthesis. It also contains the final results of the thematic synthesis. To respect copyright restrictions, we have not made PDFs of all articles analyzed publicly accessible. Please contact the authors of this database or of the original article if you seek to access one of the articles we reference. For more information, see: Hawes, J. K., et al. “Global Service-Learning - A Systematic Review of Principle and Practice.” International Journal of Research on Service-Learning and Community Engagement 10, no. 1 (2022).
- Keyword:
- service-learning, international development, global service-learning, best practices, equitable development, higher education, community engagement, and student-friendly
- Citation to related publication:
- Hawes, J. K. (2021). Global Service-Learning—A systematic review of principle and practice. International Journal of Research on Service-Learning and Community Engagement, 10(1). https://doi.org/10.37333/001c.31383
- Discipline:
- International Studies and Other
-
- 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
-
- Creator:
- Bhaumik, Deesha
- Description:
- This cross-sectional analysis included 584 participants in the Center for Oral Health Research in Appalachia cohort 1 (COHRA1). We sequenced the V4 region of the 16S rRNA of supragingival plaque from 185 caries-active and 565 caries-free teeth using the Illumina MiSeq platform. Sequences were filtered using the R DADA2 package and assigned taxonomy using the Human Oral Microbiome Database ( http://www.homd.org/).
- Keyword:
- Amplicon Sequence Variant
- Citation to related publication:
- In press
- Discipline:
- Health Sciences
-
- Creator:
- Xiantong Wang
- Description:
- We perform a geomagnetic event simulation using a newly developed magnetohydrodynamic with adaptively embedded particle-in-cell (MHD-AEPIC) model. We have developed effective criteria to identify reconnection sites in the magnetotail and cover them with the PIC model. The MHD-AEPIC simulation results are compared with Hall MHD and ideal MHD simulations to study the impacts of kinetic reconnection at multiple physical scales. At the global scale, the three models produce very similar SYM-H and SuperMag Electrojet (SME) indexes, which indicates that the global magnetic field configurations from the three models are very close to each other. At the mesoscale we compare the simulations with in situ Geotail observations in the tail. All three models produce reasonable agreement with the Geotail observations. The MHD-AEPIC and Hall MHD models produce tailward and earthward propagating fluxropes, while the ideal MHD simulation does not generate flux ropes in the near-earth current sheet. At the kinetic scales, the MHD-AEPIC simulation can produce a crescent shape distribution of the electron velocity space at the electron diffusion region which agrees very well with MMS observations near a tail reconnection site. These electron scale kinetic features are not available in either the Hall MHD or ideal MHD models. Overall, the MHD-AEPIC model compares well with observations at all scales, it works robustly, and the computational cost is acceptable due to the adaptive adjustment of the PIC domain.
- Keyword:
- MHD, PIC, and Magnetosphere
- Discipline:
- Science
-
- Creator:
- Ding, J, Moore, TY, and Gan, Z
- Description:
- Jerboas (Jaculus jaculus) are bipedal hopping rodents that frequently transition between gaits (running, hopping, and skipping) throughout their entire speed range. It has been hypothesized that these non-cursorial bipedal gait transitions are likely to enhance their maneuverability and predator evasion ability. However, it is difficult to use the underlying dynamics of these locomotion patterns to predict gait transitions due to the large number of degrees of freedom expressed by the animals. To this end, we used empirical jerboa kinematics and dynamics to develop a unified Spring Loaded Inverted Pendulum model with defined passive swing leg motions. The simulated trajectories from the model precisely matched the experimental data. Jerboas were observed to apply different neutral swing leg angles during locomotion. By investigating the gait structure of the model with coupled and uncoupled neutral swing leg, we found two set of mechanism may explain the frequent gait transitions of jerboas.
- Keyword:
- jerboa, legged locomotion, gait transition, Legged Robots, Dynamics, Bipedal locomotion, and Non-cursorial locomotion
- Citation to related publication:
- Ding, Moore, Gan (submitted) A template model explains jerboa gait transitions across a broad range of speeds. Frontiers in Bioengineering And Biotechnology
- Discipline:
- Science and Engineering
-
- Creator:
- BIRDS Lab U. Michigan
- Description:
- This dataset contains the videos used for https://doi.org/10.7302/m05a-0d90 (the "raw" motion tracking dataset), and is intended to be unpacked into the same directory tree. The data were produced for ARO W911NF-14-1-0573 "Morphologically Modulated Dynamics" and ARO MURI W911NF-17-1-0306 "From Data-Driven Operator Theoretic Schemes to Prediction, Inference, and Control of Systems" to explore the trade-offs between various oscillator coupling models in modeling multilegged locomotion. The data were also used extensively in examining multi-contact slipping, in the studying the influence of number of legs on otherwise identical locomotion patterns, and in the use of geometric mechanics models for multilegged locomotion. Folder and file names encode the meta-data, with names following an informative naming convention documented in the README.
- Keyword:
- phase, multilegged, robot, and locomotion
- Citation to related publication:
- BIRDS Lab U. Michigan. BIRDS Lab Multipod robot motion tracking data - RAW dataset [Data set], University of Michigan - Deep Blue Data. https://doi.org/10.7302/m05a-0d90, Zhao, D. Ph.D. Thesis "Locomotion of low-DOF multi-legged robots" University of Michigan 2021 https://deepblue.lib.umich.edu/handle/2027.42/169985, and Zhao, D. & Revzen, S. Multi-legged steering and slipping with low DoF hexapod robots Bioinspiration & biomimetics, 2020, 15, 045001 https://doi.org/10.1088/1748-3190/ab84c0
- Discipline:
- Science and Engineering
-
- Creator:
- Valeriy Tenishev
- Description:
- Here we present an investigation of the variability of Venus' extended oxygen corona. For that, we employ a combination of a fluid model VTGCM for simulating Venus' ionosphere and thermosphere and kinetic model AMPS. We have found excellent agreement of the model results with PVO observations of the corona when the modeling is done assuming the solar maximum conditions, which corresponds to the solar conditions during the observations. We also found that the oxygen density strongly depends on the solar conditions and varies by order of magnitude over a solar cycle. That explains why the extended oxygen corona was observed only at the solar maximum. The result presented in this paper will be used in a later study of the planet's interaction with the ambient solar wind, where the corona model defines the mass loading coefficient.
- Keyword:
- Venus, VTGCM, AMPS, and Venus extended corona
- Discipline:
- Science
-
- Creator:
- BIRDS Lab, U. Michigan
- Description:
- These data were produced for ARO W911NF-14-1-0573 "Morphologically Modulated Dynamics" and ARO MURI W911NF-17-1-0306 "From Data-Driven Operator Theoretic Schemes to Prediction, Inference, and Control of Systems" to explore the trade-offs between various oscillator coupling models in modeling multilegged locomotion of Multipod robots with 6,8,10 and 12 legs. The data is stored in .csv.gz files, one file for each robot morphology. Details of how to run the processing code on the raw dataset to generate the processed files found here, as well as example code for loading the data found here, are in the README. This dataset is self contained and can be used on its own without running any of the provided code.
- Citation to related publication:
- Zhao, D. & Revzen, S. Multi-legged steering and slipping with low DoF hexapod robots Bioinspiration & biomimetics, 2020, 15, 045001 https://doi.org/10.1088/1748-3190/ab84c0, Zhao, D. Ph.D. Thesis "Locomotion of low-DOF multi-legged robots" University of Michigan 2021 https://deepblue.lib.umich.edu/handle/2027.42/169985, and BIRDS Lab Multipod robot motion tracking data - RAW data, doi:10.7302/m05a-0d90
- Discipline:
- Engineering 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:
- BIRDS Lab U. Michigan
- Description:
- These data were produced for ARO W911NF-14-1-0573 "Morphologically Modulated Dynamics" and ARO MURI W911NF-17-1-0306 "From Data-Driven Operator Theoretic Schemes to Prediction, Inference, and Control of Systems" to explore the trade-offs between various oscillator coupling models in modeling multilegged locomotion. The data were also used extensively in examining multi-contact slipping, in the studying the influence of number of legs on otherwise identical locomotion patterns, and in the use of geometric mechanics models for multilegged locomotion. Folder and file names encode the meta-data, with names following an informative naming convention documented in the README.
- Keyword:
- phase, multilegged, robot, and locomotion
- Citation to related publication:
- Zhao, D. & Revzen, S. Multi-legged steering and slipping with low DoF hexapod robots Bioinspiration & biomimetics, 2020, 15, 045001 https://doi.org/10.1088/1748-3190/ab84c0 and Zhao, D. Ph.D. Thesis "Locomotion of low-DOF multi-legged robots" University of Michigan 2021 https://deepblue.lib.umich.edu/handle/2027.42/169985
- Discipline:
- Science and Engineering
-
- 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:
- Shi, Yining
- Description:
- Statistical study of Swarm observations and two Earth magnetic field models: IGRF-12 and CHAOS-6 categorized by Kp*10 index. Data analysis done on https://viresclient.readthedocs.io/en/latest/ JupyterLab.
- Discipline:
- Engineering
-
- Creator:
- Malhotra, Garima and Ridley, Aaron J.
- Description:
- The goal of this research study is to understand the sensitivity of the IT region to the spatial variation of Kzz. This is done using the IT model, GITM, with different settings and spatial distributions for Kzz. We introduce latitudinal bands (longitudinally uniform) of 30 degrees width at equatorial and polar latitudes during different seasons similar to the previous observations in literature. We investigate the mechanisms through which a non-uniform global distribution of Kzz can alter the dynamics and thermal structure of the thermosphere, and how these effects compare to when a globally uniform value of Kzz is used.
- Keyword:
- Mesosphere and Lower Thermosphere, Eddy Diffusion, Thermospheric Dynamics, Thermospheric composition and mixing, Lower-Upper Thermosphere Vertical Coupling, Global Ionosphere Thermosphere Model, and Eddy Mixing
- Citation to related publication:
- Malhotra, G., Ridley, A.J. (2021). Impacts of Spatially Varying Eddy Diffusion in the Lower Thermosphere on the Ionosphere and Thermosphere using GITM - Sensitivity Study. and A.J. Ridley, Y. Deng, G. Tóth, The global ionosphere–thermosphere model, Journal of Atmospheric and Solar-Terrestrial Physics, Volume 68, Issue 8, 2006, Pages 839-864, ISSN 1364-6826, https://doi.org/10.1016/j.jastp.2006.01.008.
- 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:
- Kort, Eric A. and Smith, Mackenzie L.
- Description:
- Data collected by Mooney aircraft over Houston and Denver in Summer 2020. Flights typically were designed to measure within the boundary layer in a raster pattern perpendicular to wind direction, thus sampling the urban plume repeatedly. Vertical profiles are 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.
- Keyword:
- Atmospheric Chemistry, Air Quality, Houston, Denver, and Covid-19
- 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
-
- Creator:
- Auteri, Giorgia G., Knowles, L. Lacey, Marchán-Rivadeneira, Raquel M., and Olson, Deanna H.
- Description:
- This data was collected as part of a study to study population dynamics of coastal giant salamanders in Oregon. The study uses genetics to answer questions related to conservation concerns including population connectivity, sensitivity to habitat disturbances (such as logging and fires), and genetic diversity of populations.
- Keyword:
- salamander, Dicamptodon tenebrosus, conservation genetics, microsatellite , landscape genetics, population connectivity, and bottleneck
- Citation to related publication:
- Auteri, Giorgia G., M. Raquel Marchán-Rivadeneira, Deanna H. Olson, L. Lacey Knowles. Connectivity in coastal giant salamanders (Dicamptodon tenebrosus) shows no association with land-use, fire frequency, or river drainage but does not offset negative consequences of locally unstable population sizes. PLoS ONE. In review.
- Discipline:
- Science
-
- Creator:
- Song, Siliang and Zhang, Jianzhi
- Description:
- Fitness landscapes map genotypes to their corresponding fitness under given environments and allow explaining and predicting evolutionary trajectories. Of particular interest is the landscape ruggedness or the unevenness of the landscape, because it impacts many aspects of evolution such as the likelihood that a population is trapped in a local fitness peak. Although the ruggedness has been inferred from a number of empirically mapped fitness landscapes, it is unclear to what extent this inference is affected by fitness estimation error, which is inevitable in the experimental determination of fitness landscapes. Here we address this question by simulating fitness landscapes under various theoretical models, with or without fitness estimation error. We find that all eight examined measures of landscape ruggedness are overestimated due to imprecise fitness quantification, but different measures are affected to different degrees. We devise a method to use replicate fitness measures to correct this bias and show that our method performs well under realistic conditions. We conclude that previously reported fitness landscape ruggedness is likely upward biased owing to the negligence of fitness estimation error and advise that future fitness landscape mapping should include at least three biological replicates to permit an unbiased inference of the ruggedness.
- Keyword:
- adaptation, estimation error, evolution, NK model, Rough Mount Fuji model, and polynomial model
- Discipline:
- Science
-
- Creator:
- Brandt, Daniel, A. and Ridley, Aaron, J.
- Description:
- The research that produced this data focused on conducting a statistical comparison between horizontal winds modeled with GITM and those derived from the accelerometer aboard the GOCE satellite. The winds from GITM and GOCE were compared by constructing their respective probability densities under different levels of geomagnetic activity, and by distributing them as a function of geomagnetic activity, magnetic latitude, magnetic local time, day-of-the-year, and solar radio flux.
- Keyword:
- Thermosphere, GITM, GOCE, Neutral winds, and Thermospheric modeling
- Discipline:
- Science and Engineering
-
- Creator:
- Saylor, Kate M., Arring, Noël M., Aduse-Poku, Livingstone, Jiagge, Evelyn, Walker, Eleanor, White-Perkins, Denise, Israel, Barbara, Hinebaugh, Analise, Harb, Rayya, DeWitt, Jillian, Molnar, Maxim, Wilson-Powers, Eliza, and Brush, Barbara L.
- Description:
- The search data supports a literature review project on Strategies to Increase Black Enrollment and Retention in Cancer Clinical Trials. This dataset includes the reproducible search strategies (txt file) and the exported results of all citations from all databases (txt, ris, and.nbib files). These searches and exported result files contain all citations originating from the database searches that were considered for inclusion.
- Keyword:
- African American, Cancer, Neoplasm, clinical trials, and Minority Recruitment
- Discipline:
- Health Sciences
-
- Creator:
- Adler, Jeremy
- Description:
- Data comparing the Simplified Endoscopic Mucosal Assessment for Crohn's Disease (SEMA-CD) from video recordings of colonoscopies to SEMA-CD scoring of their corresponding colonoscopy reports from pediatric patients with Crohn's disease.
- Keyword:
- Crohn's disease and colonoscopy
- Discipline:
- Health Sciences
-
- Creator:
- Wu, Ziyou, Brunton, Steven L, and Revzen, Shai
- Description:
- These codes were produced as part of the Army Research Office Multi-University Research Initiative ARO MURI W911NF-17-1-0306 "From Data-Driven Operator Theoretic Schemes to Prediction, Inference, and Control of Systems" The code can be run using the runAll.sh shell script (in Linux and OS-X); code should work similarly under windows.
- Keyword:
- DMD, dimensionality reduction, dynamical systems, and nonlinear dynamics
- Discipline:
- Engineering and Science
-
- Creator:
- Revzen, Shai
- Description:
- This repository contains both the data and python3 code that reads this data and reproduces the relevant figures. The code depends on NumPy >1.17 and matplotlib >3.1 and was tested on python 3.8
- Keyword:
- locomotion, slipping, low Reynolds number, walking, and slithering
- Discipline:
- Science and Engineering
-
- Creator:
- BIRDS Lab, U. Michigan
- Description:
- These data were produced in an attempt to characterize the turning and steering behaviors of 1-DoF multi-legged (hexpedal in this case) robots. Such turning behaviors require sliding contact points. All the data is provided in a single, large .csv.gz file (416256 rows); additional details and example code in the README
- Keyword:
- robot, multilegged, and steering
- Citation to related publication:
- BIRDS Lab, U. BigAnt v6 robot motion tracking data - RAW dataset [Data set], University of Michigan - Deep Blue Data. https://doi.org/10.7302/024q-kk06, Revzen, S., & Guckenheimer, J. (2008). Estimating the phase of synchronized oscillators. Phys. Rev. E, 78, 051907. http://dx.doi.org/10.1103/PhysRevE.78.051907, and Dan Zhao and Shai Revzen 2020 Bioinspir. Biomim. 15 045001 https://doi.org/10.1088/1748-3190/ab84c0
- Discipline:
- Engineering
-
- 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:
- 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:
- BIRDS Lab, U. Michigan
- Description:
- These data were produced in an attempt to characterize the turning and steering behaviors of 1-DoF multi-legged (hexpedal in this case) robots. Such turning behaviors require sliding contact points. The .tar file contains multiple trials in .csv.gz format, with names following an informative naming convention documented in the README. Additional metadata for the trials is given in the metadata.py file in both machine and human readable form.
- Keyword:
- robot, multilegged, and steering
- Citation to related publication:
- Dan Zhao and Shai Revzen 2020 Bioinspir. Biomim. 15 045001 https://doi.org/10.1088/1748-3190/ab84c0
- Discipline:
- Engineering
-
- Creator:
- Saylor, Kate M., Hicks, Patrice M., Kang, Linda, Stagg, Brian C., Newman-Casey, Paula-Anne, and Woodward, Maria A.
- Description:
- The search data supports a scoping literature review project on Loss to follow-up barriers in care for Cornea Ulcers and Glaucoma. The data included are the reproducible search strategies (txt file) and the exported results of all citations from all databases (txt, ris, and.nbib files). Both the original search files and updated search files have been included in the deposit.
- Keyword:
- Cornea, Glaucoma, Loss to follow, and ophthalmology
- Discipline:
- Health Sciences
-
- Creator:
- Hille, Madeline M., Clark, Marin K., Gronewold, Andrew D., West, A. Joshua, Zekkos, Dimitrios , and Chamlagain, Deepak
- Description:
- This dataset supports the findings of Hille et al. (2021, in review) in Geophysical Research Letters. In this article, we present a multivariate analysis of extreme storm events that occur during the Indian summer monsoon over the Himalayan Range in central Nepal. We resolve storm events at sub daily durations by merging NASA’s Global Precipitation Mission (GPM) Integrated Multi-satellitE Retrievals for GPM (IMERG) 30-minute, gridded 0.1x0.1-degree precipitation product with local rain gauges operated by the Nepal Department of Hydrology and Meteorology (DHM) and the International Centre for Integrated Mountain Development (ICIMOD). We quantify spatial variability in extreme rainfall by isolating storms over a specific intensity threshold and pairing a principal components analysis with a K-means clustering approach to group storms of similar characteristics. and We find that frequent and intense storms occur over the forefront of the central Himalayan range and coincide with a locus of monsoon-driven landslide density. This pattern agrees with observations of elevated annual precipitation volumes near the Himalayan physiographic transition from low to high relief (Bookhagen and Burbank, 2010), and is consistent with orographically-influenced rainfall over other mountain ranges (Marra et al., 2021). In addition to presenting novel methodology to quantifying storm variability, our results highlight the strong orographic effect on precipitation intensity and duration, as well as an association of shallow bedrock landsliding frequency with intense precipitation.
- Keyword:
- orographic rainfall, multivariate analysis, extreme rainfall events, and rainfall-triggered landslides
- Citation to related publication:
- Hille et al. (2021, in review). The orographic influence on storm variability, extreme rainfall characteristics and rainfall-triggered landsliding. Geophysical Research Letters. Forthcoming
- Discipline:
- Science
-
- Creator:
- Bougher, S. W. (CLaSP Department, University of Michigan)
- 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 inert light species helium is used to trace the circulation patterns and constrain wind magnitudes throughout the Mars thermosphere. Presently, more than 6 years of Neutral Gas and Ion Mass Spectrometer (NGIMS) measurements of helium densities have been obtained by the MAVEN team (e.g. Elrod et al., 2017; 2021; Gupta et al., 2021). Measured helium 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 helium distributions and how the atmosphere behaves as a whole system. Three dimensional M-GITM simulations for the Mars four cardinal seasons (Ls = 0, 90, 180, 270, for Mars Year 33) were conducted for detailed comparisons with NGIMS helium and CO2 distributions (Gupta et al. 2021). The M-GITM datacubes used to extract these densities (plus winds) along the trajectory of each orbit path between 140 and 240 km, are provided in this Deep Blue Data archive. README files are also provided for each datacube, 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, MAVEN Spacecraft Mission, Mars Thermosphere, Helium Density Distributions, and Neutral Gas and Ion Mass Spectrometer (NGIMS)
- Citation to related publication:
- Gupta, N., N. V. Rao, S. W. Bougher, and M. K. Elrod, Latitudinal and Seasonal Asymmetries of the Helium Bulge in the Martian Upper Atmosphere J. Geophys. Res., 126, XXXX-XXXX. doi:10.1002/2021JEXXXXXX
- Discipline:
- Engineering and Science
-
Biologically Inspired Robotics and Dynamical Systems (BIRDS) Lab
User Collection- Creator:
- Revzen, Shai
- Description:
- Professor Revzen and his team at the Biologically Inspired Robotics and Dynamical Systems (BIRDS) Lab are working on discovering, modeling, and reproducing the strategies animals use when interacting with physical objects. This work consists of collaboration with biomechanists to analyze experimental data, developing new mathematical tools for modeling and estimation of model parameters, and construction of robots which employ the new principles.
- Discipline:
- Science
7Works -
- Creator:
- Nason, Samuel R., Mender, Matthew J., Vaskov, Alex K., Willsey, Matthew S., Ganesh Kumar, N., Kung, Theodore A., Patil, Parag G., and Chestek, Cynthia A.
- Description:
- This data is a subset of the data used to generate components of all figures in the manuscript and supplement in Nason et al., 2021, Neuron. The purpose of the study was to demonstrate the first-ever simultaneous brain-control of two independent groups of fingers in one hand with some analysis of cortical tuning to finger movements in nonhuman primates. This advises future brain-machine interfaces for the control of finger movements with humans. All of the data is contained in .mat files, which can be commonly opened by Matlab and the Python scipy library. The Matlab packages (and versions) used for the manuscript are: MATLAB (9.4), Signal Processing Toolbox (8.0), Statistics and Machine Learning Toolbox (11.3), and Curve Fitting Toolbox (3.5.7).
- Keyword:
- Brain-machine interface, Prosthesis, and Upper extremity
- Citation to related publication:
- Nason, S.R., Mender, M.J., Vaskov, A.K., Willsey, M.S., Ganesh Kumar, N., Kung, T.A., Patil, P.G., and Chestek, C.A. (2021). Real-Time Linear Prediction of Simultaneous and Independent Movements of Two Finger Groups Using an Intracortical Brain-Machine Interface. Neuron (accepted).
- Discipline:
- Engineering
-
- 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:
- Nason, Samuel R., Vaskov, Alex K., Willsey, Matthew S., Welle, Elissa J., An, Hyochan, Vu, Philip P., Bullard, Autumn J., Nu, Chrono S., Kao, Jonathan C., Shenoy, Krishna V., Jang, Taekwang, Kim, Hun-Seok, Blaauw, David, Patil, Parag G., and Chestek, Cynthia A.
- Description:
- This data is a subset of the data used to generate figures similar to figures 1, 2, 3, and 4 in Nason et al., 2020, Nature Biomedical Engineering. The purpose of the study was to demonstrate the benefits of using spiking band power, a low-power but single unit specific recording signal, for brain-machine interfaces with nonhuman primates with the potential to impact low-power brain-machine interfaces with humans. All of the data is contained in .mat files, which can be commonly opened by Matlab and the Python scipy library.
- Keyword:
- Brain-machine interface, Prosthesis, and Neural recording
- Citation to related publication:
- Nason, S.R., Vaskov, A.K., Willsey, M.S., Welle, E.J., An, H., Vu, P.P., Bullard, A.J., Nu, C.S., Kao, J.C., Shenoy, K.V., Jang, T., Kim, H.-S., Blaauw, D., Patil, P.G., and Chestek, C.A. (2020). A low-power band of neuronal spiking activity dominated by local single units improves the performance of brain–machine interfaces. Nat. Biomed. Eng. 4, 973–983. https://doi.org/10.1038/s41551-020-0591-0
- Discipline:
- Engineering
-
- Creator:
- Liu, Meichen
- Description:
- The Brune source model is widely used in studies of complex earthquakes with multiple episodes of high moment release (i.e., multiple subevents). In this study, we investigate how corner frequency estimates of earthquakes with multiple subevents are biased if they are based on the Brune source model. By assuming complex sources as a sum of multiple Brune sources, we analyze 1,640 source time functions (STFs) of Mw 5.5-8.0 earthquakes in the SCARDEC catalog to estimate the corner frequencies, onset times, and seismic moments of subevents. We identify more subevents for strike-slip earthquakes than dip-slip earthquakes, and the number of resolvable subevents increases with magnitude. We find that earthquake corner frequency correlates best with the corner frequency of the subevent with the highest moment release (i.e., the largest subevent). This suggests that, when the Brune model is used, the estimated corner frequency and therefore the stress drop of a complex earthquake is determined primarily by the largest subevent rather than the total rupture area. and Our results imply that the stress variation of asperities, rather than the average stress change of the whole fault, contributes to the large variance of stress drop estimates.
- Citation to related publication:
- Meichen Liu, Yihe Huang, Jeroen Ritsema. 2021. Characterizing Multi-Subevent Earthquakes Using the Brune Source Model [Preprint]. https://essoar.org (2021) DOI: doi.org/10.1002/essoar.10507564.1
- Discipline:
- Science
-
- Creator:
- Weng, Andrew, Mohtat, Peyman, Attia, Peter, Less, Greg, Lee, Suhak, and Stefanopoulou, Anna
- Description:
- The goal of this research is to investigate the impact of fast formation protocol on battery lifetime. The dataset has also been used to explore data-driven approaches in battery lifetime estimation (manuscript under review). Source code used to generate the results for this work has been included. The file contents contain a detailed README.md file which describes the organization of the files.
- Citation to related publication:
- Weng et al., Predicting the impact of formation protocols on battery lifetime immediately after manufacturing, Joule (2021), https://doi.org/10.1016/j.joule.2021.09.015
- Discipline:
- Engineering
-
- Creator:
- Vo, Thi and Glotzer, Sharon C.
- Description:
- The goal of this project is to develop a first principle driven approach for predicting the self-assembly behavior of entropically driven crystallization. We first developed a set of mean-field theoretical framework that captures the relevant energetic contributions to the assembly process and then evaluate relevant terms within our framework to determine the excess free energy of formation for each lattice (matlab/octave codes). We then validate theoretical predictions of relevant features like shape and bonding orbitals using standard MD simulations using HOOMD-Blue (simulation scripts). and This research was supported by the Office of the Undersecretary of Defense for Research and Engineering (OUSD(R&E)), Newton Award for Transformative Ideas during the COVID-19 Pandemic, Award number HQ00342010030.
- Keyword:
- Self-Assembly, Entropy, Thermodynamics, Simulations, and Theory
- Citation to related publication:
- Vo, T., & Glotzer, S. C. (2021). Microscopic Theory of Entropic Bonding for Colloidal Crystal Prediction. ArXiv:2107.02081 [Cond-Mat]. http://arxiv.org/abs/2107.02081
- Discipline:
- Science
-
- Creator:
- Yuan, Ye, Currie, William S., Sharp, Sean J. , Martina, Jason P. , and Elgersma, Kenneth J.
- Description:
- This archived dataset includes all of the input files that were used to run the model for all the runs in this set, including files containing model parameters and drivers. This dataset also includes all of the model output files from model runs in this set.
- Keyword:
- wetland, Great Lakes, greenhouse gas, climate change, and ecosystem model
- Citation to related publication:
- Yuan, Y., S. J. Sharp, J. P. Martina, K. J. Elgersma, and W. S. Currie. Sustained-flux global warming potential driven by nitrogen inflow and hydroperiod in a model of Great Lakes coastal wetlands. JGR Biogeosciences in review.
- Discipline:
- Science
-
- Creator:
- Umaña, María Natalia, Zambrano, Jenny, Weemstra, Monique, and Allen, Dave
- Description:
- The objective of this research was to improve our understanding of tree growth from underlying variation in leaf and root functional traits. This knowledge ultimately enhances our knowledge of the above- and belowground processes that are involved in structuring forest communities. To this end, we determine which, how and to what degree (combinations of) leaf and root traits influence growth rates across ten temperate tree species along a soil carbon (C) and N gradient growing at the Big Woods plot at the E.S. George Reserve, Pickney, MI. This plot is part of the Smithsonian Institution's Forest Global Earth Observatory (ForestGEO) global network of forest research sites. https://forestgeo.si.edu/ and This dataset contains data on the leaf and root traits of several individuals from tree species, as well as on the soil properties at the Big Woods plots at the E.S. George Reserve, Pickney, MI. Data were collected in June 2019, and used to explain and predict the growth rates of the trees at Big Woods. [Growth data were obtained from Allen et al., 2019, https://doi.org/10.7302/wx55-kt18]. Each file contains data on leaf traits, root traits, and soil properties. Trait data are presented per individual tree for each of the 10 study species. Soil data are represented per soil sample, with four soil samples collected per subplot throughout the Big Woods plot (see legend, and publication for explanation). Descriptions and units per variable/column are provided in the legend tab in each file.
- Keyword:
- ecology, forests, Michigan, ForestGEO, Big Woods, Roots, Leaves, Tree growth, and Forest soils
- Citation to related publication:
- M. Weemstra, J. Zambrano, D. Allen, MN Umaña. (In press) Tree growth increases through opposing above- and belowground resource strategies. Journal of Ecology. https://doi.org/10.1111/1365-2745.13729
- Discipline:
- Science
-
- Creator:
- Gliske, Stephen V and Stacey, William C
- Description:
- This data repository includes the quantitative features of high frequency, intracranial EEG along with all necessary scripts to reproduce the figures of the accompanying manuscript.
- Keyword:
- high frequency oscillation, HFO, high frequency activity, and epilepsy
- Citation to related publication:
- (under review)
- Discipline:
- Science, Engineering, and Health Sciences
-
- Creator:
- MacEachern, Mark P; Sun, Gordon H; Chen, Stephanie W; Wang, Jing
- Description:
- The dataset includes all citations considered for inclusion in the systematic review. The citations are accessible in Endnote (Clarivate), as well as through the primary citation export files from each database. The literature search strategies are included for reproducibility and transparency purposes. See the published methods for more information.
- Keyword:
- Tracheostomy, Decannulation, Spinal Cord Injury, Scoping Review, and Literature Searches
- Citation to related publication:
- Gordon H. Sun, Stephanie W. Chen, Mark P. MacEachern & Jing Wang (2020) Successful decannulation of patients with traumatic spinal cord injury: A scoping review, The Journal of Spinal Cord Medicine, DOI: 10.1080/10790268.2020.1832397
- Discipline:
- Health Sciences
-
- 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:
- 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:
- 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:
- Pasquinelli, Rennie, Hu, Xiaosu, Tessier, Anne-Michelle, Kovelman, Ioulia, Zwolan, Terry A., Karas, Zachary E., and Wagley, Neelima
- Description:
- This data is from a project examining prosodic processing in children and adults using functional near-infrared spectroscopy (fNIRS) neuroimaging. fNIRS data is optical data collected using a cap with an array of source and detector fibers that emit and detect infrared light, respectively. We used fNIRS neuroimaging to explore prosodic processing, rhyme judgement, and the "oddball" paradigm in children, adults, and a small sample of children with cochlear implants. Matlab scripts, including Ted Huppert's Nirs Toolbox, were used to process the neuroimaging data. The children also took a battery of behavioral assessments (OWLS, Digit Span, PPVT, CTOPP).
- Keyword:
- Prosodic Processing, fNIRS neuroimaging, Development, Cochlear Implants, and Rhyming
- 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
-
Neotropical Snake Photo and Video Data
User Collection- Creator:
- University of Michigan, Division of Herpetology, Davis Rabosky, Alison R, Moore, Talia Y., Larson, Joanna G., Curlis, John David, Westeen, Erin P., Sealey, Briana A., and Balinski, Bailey A.
- Description:
- All animal-related procedures were approved by the University of Michigan Institutional Animal Care and Use Committee (Protocols #PRO00006234 and #PRO00008306) and the Peruvian government SERFOR (Servicio Nacional Forestal y de Fauna Silvestre. and Data were collected during five field expeditions in the Amazonian lowlands of Peru from March 2016 to December 2018.
- Keyword:
- snake behavior, coral snake mimicry, serpentes, Peruvian Amazon, and Elapidae
- Discipline:
- Science
3Works -
- Creator:
- Saylor, Kate M., McCormick, Amanda D., Wilde, Megan M., Charpie, Christine E., Yu, Sunkyung, and Cousino, Melissa K.
- Description:
- The search data supports a literature review project on Psychological Functioning in Pediatric Patients with Single Ventricle Congenital Heart Disease. The data included are the reproducible search strategies (txt file) and the exported results of all citations from all databases (txt, ris, and.nbib files). Both the original search files and updated search files have been included in the deposit.
- Keyword:
- pediatrics, univent, Single Ventricle Congenital Heart Disease, and psychological
- Discipline:
- Health Sciences
-
Geotechnical observations of weathered rock across a tectonic and climatic gradient in Central Nepal
- Creator:
- Medwedeff, William, G (University of Michigan Earth & Environmental Science), Clark, Marin, K (University of Michigan Earth & Environmental Science), Zekkos, Dimitrios (University of California, Berkeley), West, A., Joshua (University of Southern California), and Chamlagain, Deepak (Tribhuvan University, Kathmandu Nepal)
- Description:
- These datasets support the findings of Medwedeff et al. (2021) in JGR: Earth Surface. In this article, we present seismic and geotechnical characterizations of the shallow subsurface across a 200 km by 50 km swath of the central Himalayan Range, in Nepal. By pairing widely-distributed 1D shear wave velocity surveys and engineering outcrop descriptions per the Geological Strength Index classification system, we evaluate landscape-scale patterns in near-surface mechanical characteristics and their relation to environmental factors known to affect rock strength. We find that near-surface strength is more dependent on the degree of weathering, rather than the mineral and textural differences between the metamorphic lithologies found in the central Himalaya. Furthermore, weathering varies systematically with topography. Bedrock ridge top sites are highly weathered and have S-wave seismic velocities and shear strength characteristics that are more typical of engineering soils, whereas sites near the bedrock channel bottom tend to be less weathered and characterized by high S-wave velocities and shear strength estimates typical of hard rock. Weathering of bedrock on hillslopes is significantly more variable, resulting in S-wave velocities that range between the ridge and channel endmembers. We hypothesize variability in the hillslope environment may be partly explained by the stochastic nature of mass wasting, which clears away weathered material where landslide scars are recent. These results underscore the mechanical heterogeneity in the shallow subsurface and highlight the need to account for bedrock weathering when estimating strength parameters for regional landslide hazard analysis.
- Keyword:
- rock strength, critical zone, shallow seismic, and chemical weathering
- Discipline:
- Science
-
- Creator:
- Mosley, Jennifer and Park, Sunggeun
- Description:
- This data set is comprised of publicly available data from three HUD websites and the 2014 National Continuum of Care (CoC) Survey questionnaire and protocol. The HUD data sets are comprised of Community Planning and Development (CPD) Awards information from 2005-2014, Demographic information on areas served by CoC sites (sub-region estimates from the 2006-2010 American Community Survey), and Housing Inventory Count (HIC) and Point-in-Time (PIT) counts per CoC from 2015-2007. The data are associated with the article "Service Providers' Influence in Collaborative Governance Networks: Effectiveness in Reducing Chronic Homelessness" conditionally accepted for publication in the Journal of Public Administration Research and Theory (JPART).
- Discipline:
- Social Sciences
-
- Creator:
- Mohtat, Peyman, Siegel, Jason B., Stefanopoulou, Anna G., and Lee, Suhak
- Description:
- The focus of this research effort is to systematically study the capability of aging diagnostics using cell expansion under variety of aging conditions and states. The data collection campaign is very important to cover various degradation modes to extract the degradation features that will be used to inform, parameterize, and validate the models developed earlier. In the data collection campaign, we are documenting the evolution of the electrical and mechanical characteristics and especially the reversible mechanical measurement. It is important to note that we collect data using newly developed fixtures that enables the simultaneous measurement of mechanical and electrical response under pseudo-constant pressure.
- Keyword:
- Lithium-ion batteries, Mechanical response, Aging, NMC, and Pouch cells
- Citation to related publication:
- Peyman Mohtat et al. (2021). Reversible and Irreversible Expansion of Lithium-ion Batteries Under a Wide Range of Stress Factors. J. Electrochem. Soc. 168 100520 https://doi.org/10.1149/1945-7111/ac2d3e
- Discipline:
- Engineering
-
- Creator:
- Amir Salaree
- Description:
- We carry out a set of exploratory numerical experiments based on ocean bottom pressure and seismic data from a simulated linear array of SMART (Scientific Monitoring And Reliable Telecommunication) cable stations off the trench in the Sumatra-Java region. We use a set of earthquake rupture as well as submarine landslide scenarios to calculate tsunami propagation via hydrodynamic simulations. We also investigate the contribution of SMART stations to improvement of earthquake early warning by calculating the arrival times of seismic phases. Existing telecom cables can also contribute to the SMART network, if they are equipped with scientific sensors and repeaters. In this study we use the MOST (Method of Splitting Tsunami; Titov et al, 2016) to simulate tsunamis, and the TauP toolkit (Crotwell et al, 1999) to calculate seismic arrival times. This study was supported by grants from National Science Foundation (PREEVENTS geosciences directorate No. 1663769) and NASA JPL (Award NNN13D462T). - Crotwell, H.P., Owens, T.J. and Ritsema, J., 1999. The TauP Toolkit: Flexible seismic travel-time and ray-path utilities. Seismological Research Letters, 70(2), pp.154-160. Titov, V., Kânoğlu, U. and Synolakis, C.E., 2016, Development of MOST for real-time tsunami forecasting. J Waterw Port Coast Ocean Eng 142:03116004-1–03116004-16
- Keyword:
- SMART Cables, Tsunami, Earthquake, Landslide, Early Warning, Indian Ocean, Indonesia, Sumatra, Java, and Simulation
- Discipline:
- Science
-
- Creator:
- Majeed, Tariq
- Description:
- We use our 1-D chemical diffusive model to quantify the physical processes necessary to interpret the day-side ionospheric measurements acquired with radio occultation techniques at the southern high-latitude region of Mars, where the crustal magnetic field is strong and near-vertical in orientation. To interpret the measured ionospheric structure at altitudes where plasma transport dominates, we find it is necessary to impose field-aligned vertical plasma drifts caused by the motion of neutral winds. The most interesting finding of this study is that both upward (between 110 m/s and 150 m/s) and downward (between -55 m/s and -120 m/s) drifts are required to maintain the topside Ne distribution comparable with the measured distribution. We also find that a fixed velocity boundary condition at the upper boundary with a sizeable upward ion velocity is needed to encounter any unexpected ion accumulation in the topside ionosphere to limit the Martian ion outflow. Given the complex nature of neutral dynamics and its relationship to plasma transport processes over magnetic anomalies, we consider that a simple model, such as we have developed, is still capable of yielding valuable insights relating to the neutral wind system at Mars.
- Keyword:
- Ionosphere of Mars
- Discipline:
- Science
-
- Creator:
- Arthurs, Christopher J., Khlebnikov, Rostislav, Melville, Alexander, Marčan, Marija, Gomez, Alberto, Dillon-Murphy, Desmond, Cuomo, Federica, Vieira, Miguel, Schollenberger, Jonas, Lynch, Sabrina, Tossas-Betancourt, Christopher, Iyer, Kritika, Hopper, Sara, Livingston, Elizabeth, Youssefi, Pouya, Noorani, Alia, Ben Ahmed, Sabrina, Nauta, Foeke J.N., van Bakel, Theodorus M.J., Ahmed, Yunus, van Bakel, Petrus A.J., Mynard, Jonathan, Di Achille, Paolo, Gharahi, Hamid, Lau, Kevin D., Filonova, Vasilina, Aguirre, Miquel, Nama, Nitesh, Xiao, Nan, Baek, Seungik, Garikipati, Krishna, Sahni, Onkar, Nordsletten, David, and Figueroa, Carlos A.
- Description:
- This repository includes the following:, - Example Case A: complete process of creating a model, running the simulation and examining the results., - Example Case B: segmenting and imposing a patient-specific aortic inflow velocity profile from a provide PC-MRI dataset., - Example Case C: simulation of a patient under rest conditions, and then of the same patient under post-liver-transplant conditions., - GUI Windows Binary Executable (version 2019.11.01), and - Flow Solver Windows Binary Executable (version 1.4.4, 2019.11.01)
- Keyword:
- Blood Flow Simulation, Patient-specific, Open-source Software, Image-based simulation, Cardiovascular Medical Image, Segmentation, and Finite Element Simulation
- Citation to related publication:
- CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation C.J. Arthurs, R. Khlebnikov, A. Melville, M. Marčan, A. Gomez, D. Dillon-Murphy, F. Cuomo, M.S. Vieira, J. Schollenberger, S.R. Lynch, C. Tossas-Betancourt, K. Iyer, S. Hopper, E. Livingston, P. Youssefi, A. Noorani, S. Ben Ahmed, F.J.H. Nauta, T.M.J. van Bakel, Y. Ahmed, P.A.J. van Bakel, J. Mynard, P. Di Achille, H. Gharahi, K. D. Lau, V. Filonova, M. Aguirre, N. Nama, N. Xiao, S. Baek, K. Garikipati, O. Sahni, D. Nordsletten, C.A. Figueroa bioRxiv 2020.10.14.339960; doi: https://doi.org/10.1101/2020.10.14.339960
- Discipline:
- Engineering and Health Sciences
-
- Creator:
- Saylor, Kate M., King, Wesley M., and Gamarel, Kristi E.
- Description:
- The search data supports a literature review project on Firearm violence among LGBTQ+ communities. The data included in the dataset are the reproducible search strategies (txt file) and the exported results of all citations from all databases (txt, ris, and.nbib files). These searches and exported result files contain all citations originating from the database searches that were considered for inclusion.
- Keyword:
- LGBTQ, Transgender, Firearms
- Discipline:
- Health Sciences
-
- Creator:
- Surajit Chatterjee, Adrien Chauvier, Shiba S. Dandpat, Irina Artsimovitch, and Nils G. Walter
- Description:
- These data were generated to study the dynamics of RNAP-ribosome interactions on a nascent mRNA with a preQ1-sensing translational riboswitch in its 5’ untranslated region (UTR). Using single-molecule fluorescence co-localization, we monitored direct transient binding of 30S ribosomal subunit to the individual nascent mRNA molecules in surface-immobilized paused elongation complexes (PECs). Also, using a novel protein-induced fluorescence enhancement assay we monitored the real-time transcription rate of RNA polymerase (RNAP) under different experimental conditions. The DNA template including the preQ1 riboswitch from B. anthracis under the control of the T7A1 promoter was cloned into pUC19 plasmid. Transcription templates for in vitro transcription were generated by PCR.
- Citation to related publication:
- Chatterjee, S., Chauvier, A., Dandpat, S.S., Artsimovitch, I., & Walter, N.G. (2021). A translational riboswitch coordinates nascent transcription-translation coupling. Proc. Natl. Acad. Sci., 118 (16), e2023426118; DOI: 10.1073/pnas.2023426118
- Discipline:
- Science
-
- Creator:
- Hinz, Isaac and Johnson, Jena
- Description:
- Laboratory experiments were conducted to compare iron precipitation under completely ferruginous conditions with solutions that contain a low amount of oxidized iron, which can be seen as a proxy for iron oxidation in the environment. and Some XRD files are from a copper source (Cu_XRD) and others are from a cobalt source (Co_XRD).
- Keyword:
- Iron silicates, Greenalite, and Archean
- Citation to related publication:
- Isaac L. Hinz, Christine Nims, Samantha Theuer, Alexis S. Templeton, Jena E. Johnson; Ferric iron triggers greenalite formation in simulated Archean seawater. Geology 2021; doi: https://doi.org/10.1130/G48495.1
- Discipline:
- Science
-
- Creator:
- Saylor, Kate M., Sirihorachai, Rattima , and Manojlovich, Milisa
- Description:
- The search data supports a literature review project on counting interventions to reduce the incidence of retained surgical instruments. The data included in the dataset are the reproducible search strategies (txt file) and the exported results of all citations from all databases (txt, ris, and.nbib files). These searches and exported result files contain all citations originating from the database searches that were considered for inclusion.
- Keyword:
- literature search , retained surgical instruments, counting, and nursing
- Discipline:
- Health Sciences
-
- Creator:
- Chun-Seok Cho, Jingyue Xi, Hyun Min Kang, and Jun Hee Lee
- Description:
- There are three experimental outputs from Seq-Scope. (1) High definition map coordinate identifier (HDMI) sequence, tile and spatial coordinate information from 1st-Seq, (2) HDMI sequence, coupled with cDNA sequence from 2nd-Seq, and (3) Histological image obtained from Hematoxylin and Eosin (H&E) staining of the tissue slice. (1) and (2) were uploaded to GEO ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE169706). (3) is deposited here. In addition, this deposit includes the processed RDS (single R object) data files.
- Keyword:
- Seq-Scope, scRNA-seq, and spatial transcriptomics
- Citation to related publication:
- Chun-Seok Cho, Jingyue Xi, Sung-Rye Park, Jer-En Hsu, Myungjin Kim, Goo Jun, Hyun-Min Kang, Jun Hee Lee “Seq-Scope: Submicrometer-resolution spatial transcriptomics for single cell and subcellular studies” (preprint) bioRxiv https://doi.org/10.1101/2021.01.25.427807 and Related data sets in NCBI’s Gene Expression Omnibus (GEO) repository: Cho C, Xi J, Si Y, Lee JH, Kang HM, Park S, Hsu J, Kim M, Jun G “Seq-Scope: Submicrometer-resolution spatial barcoding technology that enables microscopic examination of tissue transcriptome at single cell and subcellular levels” https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE169706
- Discipline:
- Health Sciences
-
- Creator:
- Salaree, Amir
- Description:
- Study of the effect of various rupture scenarios in Cascadia on tsunami hazard
- Keyword:
- Earthquake, Tsunami, Simulation, and Bathymetry
- Discipline:
- Science
-
- Creator:
- Ramos, Marlon D., Yihe, H., Ulrich, T., Gabriel, A. A., and Thomas, A.
- Description:
- This study used three-dimensional, dynamic earthquake simulations to investigate how stress and friction levels on the Cascadia megathrust fault influence the final earthquake size and coastal subsidence patterns from the 1700 A.D. earthquake.
- Discipline:
- Science
-
- Creator:
- Umberfield, Elizabeth, Ford, Kathleen, Stansbury, Cooper, and Harris, Marcelline R.
- Description:
- Research Overview: This dataset is clinical consent forms, collected as part of Dr. Elizabeth Umberfield's dissertation research of at the University of Michigan. 134 consent forms are used in the analysis, 102 of which are shared here (not all are shared due to data protection agreements with participating sites). The research aimed to enable representation of clinical consent forms and their permissions within the Informed Consent Ontology. These efforts were supported by the Rackham Graduate Student Research Grant, and Dr. Umberfield's doctoral training was supported by the Robert Wood Johnson Foundation Future of Nursing Scholars Program.
- Keyword:
- Consent, Consent Form, Informed Consent, Health Care, and Healthcare
- Citation to related publication:
- Umberfield, E., Jiang, Y., Fenton, S., Stansbury, C., Ford, K., Crist, K., Kardia, S., Thomer, A., & Harris, M. R. (In Press). Lessons Learned for Identifying and Annotating Permissions in Clinical Consents. Applied Clinical Informatics. and Umberfield, E., Stansbury, C., Ford, K., Jiang, Y., Kardia, S. L. R., Thomer, A., & Harris, M. R. (Under Review). Evaluating and Extending the Informed Consent Ontology for Representing Permissions from the Clinical Domain.
- Discipline:
- Health Sciences
-
- 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:
- Xian Li
- Description:
- Low-velocity accretionary wedges and sedimentary layers overlaying continental plates are widely observed in the subduction zones where historical large earthquakes have occurred. It was observed that rupture of the 2011 Mw 9.0 Tohoku-Oki earthquake propagated to the trench with large coseismic slip on the shallow fault, but what caused the huge shallow slip remains a prominent problem., Here we explore how the two low-velocity structures, accretionary wedge and sedimentary layer, affect the coseismic slip and near-fault ground motions during the 2011 Tohoku-Oki earthquake. Constrained by the observed seafloor deformation, we present a 2-D dynamic rupture model of the 2011 Tohoku-Oki earthquake with an accretionary wedge and a sedimentary layer. Compared to a homogeneous model with the same friction and stress parameters on the fault, we find that the co-existence of the accretionary wedge and sedimentary layer significantly enhances the shallow coseismic slip and amplifies ground accelerations near the accretionary wedge. We then investigate a plausible scenario of a smaller Tohoku-Oki earthquake when its rupture does not reach the accretionary wedge. The sedimentary layer slightly enhances the coseismic slip while the accretionary wedge has almost no influence for the smaller earthquake scenario, but both structures significantly amplify the ground accelerations on the overriding plate. , and By simulating a suite of earthquake scenarios, we suggest that the co-existence of an accretionary wedge and sedimentary layers tend to enhance coseismic slip, but the enhancement effect decreases as the up-dip limit of rupture zones terminates at a larger depth. The numerical simulations were solved using SEM2DPACK _2.3.8 ( http://www.sourceforge.net/projects/sem2d/), and simulation results were visualized by Matlab. This folder includes the input files to reproduce our simulation results and plot scripts.
- Keyword:
- 2011 Tohoku-Oki earthquake, Dynamic rupture simulation, Accretionary wedge, and Sedimentary layer
- Citation to related publication:
- Li, X., & Huang, Y. (2021). The enhancement of coseismic slip and ground motion due to the accretionary wedge and sedimentary layer in the 2011 Tohoku-Oki earthquake (world) [Preprint]. Earth and Space Science Open Archive. https://doi.org/10.1002/essoar.10506336.1
- Discipline:
- Science
-
- Creator:
- Figueroa, Carlos A., Computational Vascular Biomechanics Lab, University of Michigan, and et al.
- Description:
- This collection concerns the CRIMSON (CardiovasculaR Integrated Modelling and SimulatiON) software environment. CRIMSON provides a powerful, customizable and user-friendly system for performing three-dimensional and reduced-order computational haemodynamics studies via a pipeline which involves: 1) segmenting vascular structures from medical images; 2) constructing analytic arterial and venous geometric models; 3) performing finite element mesh generation; 4) designing, and 5) applying boundary conditions; 6) running incompressible Navier-Stokes simulations of blood flow with fluid-structure interaction capabilities; and 7) post-processing and visualizing the results, including velocity, pressure and wall shear stress fields. , The minimum specifications to run CRIMSON are: Any AMD64 CPU (note: Intel Core i series are AMD64), Windows (only tested on Windows 10 but might work on Windows 7), 8 GB of RAM , If you are running non-trivial models you will want to have: Quad core CPU or higher, Solid state drive for storing data, Windows, 16 GB of RAM, Dedicated discrete GPU for rendering models. , and Software in this collection is a snapshot; please visit https://github.com/carthurs/CRIMSONGUI & www.crimson.software for more general information and the most up to date version of the software.
- Keyword:
- Blood Flow Simulation, Patient-specific, Open-source Software, Image-based simulation, Cardiovascular Medical Image, Segmentation, and Finite Element Simulation
- Citation to related publication:
- CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation C.J. Arthurs, R. Khlebnikov, A. Melville, et al. bioRxiv 2020.10.14.339960; doi: https://doi.org/10.1101/2020.10.14.339960
- Discipline:
- Health Sciences and Engineering
4Works -
- Creator:
- Computational Vascular Biomechanics Lab @ the University of Michigan and other collaborators, The Qt Company, NSIS Team and contributors, PostgreSQL Global Development Group, Oracle Corporation, and Kitware
- Description:
- This repository contains several open-source components as well as software developed by our own lab that are required to build the GUI of the open source CRIMSON software from scratch using Visual Studio 2013 update 5:, cmake-3.13.5-win64-x64.zip: build tool; nsis-3.05-setup.exe: packaging tool; postgresql-9.5.21-1-windows-x64-binaries.zip: Qt dependency; presolver_win.zip: windows binary for CRIMSON Presolver built using MinGW; qt-opensource-windows-x86-msvc2013_64-5.7.0.exe: Qt GUI library; mysql-5.7.29-winx64.zip: Qt dependencies, Software in this repository is a snapshot; please visit https://github.com/carthurs/CRIMSONGUI & www.crimson.software for more general information and the most up to date version of the software., and This repository completes the following Deep Blue repository: GUI repository: https://doi.org/10.7302/679b-dw96
- Citation to related publication:
- CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation C.J. Arthurs, R. Khlebnikov, A. Melville, M. Marčan, A. Gomez, D. Dillon-Murphy, F. Cuomo, M.S. Vieira, J. Schollenberger, S.R. Lynch, C. Tossas-Betancourt, K. Iyer, S. Hopper, E. Livingston, P. Youssefi, A. Noorani, S. Ben Ahmed, F.J.H. Nauta, T.M.J. van Bakel, Y. Ahmed, P.A.J. van Bakel, J. Mynard, P. Di Achille, H. Gharahi, K. D. Lau, V. Filonova, M. Aguirre, N. Nama, N. Xiao, S. Baek, K. Garikipati, O. Sahni, D. Nordsletten, C.A. Figueroa bioRxiv 2020.10.14.339960; doi: https://doi.org/10.1101/2020.10.14.339960 and Arthurs, C., Khlebnikov, R., Melville, A., Marčan, M., Gomez, A., Dillon-Murphy, D., Cuomo, F., Vieira, M., Schollenberger, J., Lynch, S., Tossas-Betancourt, C., Iyer, K., Hopper, S., Livingston, E., Youssefi, P., Noorani, A., Ben Ahmed, S., Nauta, F., van Bakel, T., Ahmed, Y., van Bakel, P., Mynard, J., Di Achille, P., Gharahi, H., Lau, K., Filonova, V., Aguirre, M., Nama, N., Xiao, N., Baek, S., Garikipati, K., Sahni, O., Nordsletten, D., Figueroa, C. (2021). CRIMSON open source project - Graphical User Interface (GUI) Source Code for PLOS Computational Biology [Data set]. University of Michigan - Deep Blue. https://doi.org/10.7302/679b-dw96
- Discipline:
- Health Sciences and Engineering
-
- Creator:
- University of Michigan, Division of Herpetology, Davis Rabosky, Alison R, Larson, Joanna G, Moore, Talia Y, and Curlis, John David
- Description:
- This dataset includes dorsal and ventral photographs of Neotropical snakes collected in the Peruvian Amazon. These data were collected to survey and examine the diversity in color pattern evolution in Neotropical snakes.
- Keyword:
- snake, color, serpentes, and Peru
- Citation to related publication:
- (work in progress, not yet submitted)
- Discipline:
- Science
-
- Creator:
- Dewaraja, Yuni, K and Van, Benjamin J
- Description:
- This publication contains the anonymized SPECT/CT scans of two patients. Patient scans were taken at 4 different time points in the week following a therapeutic dose of Lu-177 DOTATATE. Each of the scans contains 5 subfolders, 3 of which contain SPECT projection data used for reconstructing SPECT images, and 2 contain the linear attenuation coefficient maps for the CT scans that correspond to each patients SPECT projections. All images are in DICOM format.
- Keyword:
- Lu-177, Dosimetry, Radionuclide, SPECT, and CT
- Discipline:
- Health Sciences
-
- Creator:
- Lamb, Abigail M.
- Description:
- This Work contains Supplemental File S3-1, Supplemental File S3-2, Supplemental Table S4-1, Supplemental Table S4-2, and Supplemental Table S4-3 from the dissertation entitled "Genetic Determinants of the Development and Evolution of Drosophila Pigmentation" by Abigail M. Lamb. Supplemental File S3-1 is entitled "Raw data measuring CHC abundance" and contains the measurements of cuticular hydrocarbons used for analysis in Chapter 3 of the dissertation. These data are meant to be read into the R code contained in Supplemental File S3-2, "R code used for analyzing CHC data" to reproduce the results reported in Chapter 3 of the dissertation. Supplemental Tables S4-1, S4-2, and S4-3 contain original phenotyping data, notes, and summary data from the miRNA overexpression and competitive inhibition experiments described in Chapter 4 of the dissertation.
- Citation to related publication:
- Lamb, A. M., Wang, Z., Simmer, P., Chung, H., & Wittkopp, P. J. (2020). Ebony Affects Pigmentation Divergence and Cuticular Hydrocarbons in Drosophila americana and D. novamexicana. Frontiers in Ecology and Evolution, 8. https://doi.org/10.3389/fevo.2020.00184
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:177463 (LEIOPELMA HOCHSTETTERI) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 659 x 1423 x 1 voxel at 0.023619 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:177463 (LEIOPELMA HOCHSTETTERI) - WholeBody. Raw Dataset includes 1601 TIF images (each 659 x 1423 x 1 voxel at 0.02361855 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Amphibia, ANURA, LEIOPELMATIDAE, LEIOPELMA HOCHSTETTERI, 1987038228, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987038228
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:177463 (LEIOPELMA HOCHSTETTERI) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 506 x 1232 x 1 voxel at 0.026167 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:177463 (LEIOPELMA HOCHSTETTERI) - WholeBody. Raw Dataset includes 3141 TIF images (each 506 x 1232 x 1 voxel at 0.02616705 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Amphibia, ANURA, LEIOPELMATIDAE, LEIOPELMA HOCHSTETTERI, 1987038228, computed tomography, X-ray, 3D, and DiceCT
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987038228
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:246849 (THAMNODYNASTES PALLIDUS) - WholeBody. Raw Dataset includes 1601 TIF images (each 2000 x 2000 x 1 voxel at 0.0327439804971583 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:246849 (THAMNODYNASTES PALLIDUS) - WholeBody. Reconstructed Dataset includes 1240 TIF images (each 2000 x 2000 x 1 voxel at 0.032744 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, THAMNODYNASTES PALLIDUS, 1987213257, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987213257
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:246849 (THAMNODYNASTES PALLIDUS) - Skull. Raw Dataset includes 1601 TIF images (each 1416 x 914 x 1 voxel at 0.0150099083890765 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:246849 (THAMNODYNASTES PALLIDUS) - Skull. Reconstructed Dataset includes 654 TIF images (each 1416 x 914 x 1 voxel at 0.015010 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, THAMNODYNASTES PALLIDUS, 1987213257, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987213257
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:181698 (CHRYSOPELEA PARADISI) - Skull. Raw Dataset includes 1601 TIF images (each 378 x 682 x 1 voxel at 0.01542104 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:181698 (CHRYSOPELEA PARADISI) - Skull. Reconstructed Dataset includes 927 TIF images (each 378 x 682 x 1 voxel at 0.015421 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, CHRYSOPELEA PARADISI, 1987124862, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987124862
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:181698 (CHRYSOPELEA PARADISI) - WholeBody. Raw Dataset includes 1601 TIF images (each 1703 x 1701 x 1 voxel at 0.03202086 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:181698 (CHRYSOPELEA PARADISI) - WholeBody. Reconstructed Dataset includes 1402 TIF images (each 1703 x 1701 x 1 voxel at 0.032021 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, CHRYSOPELEA PARADISI, 1987124862, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987124862
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:mammals:154693 (Blarina brevicauda brevicauda) - WholeBody. Raw Dataset includes 3141 TIF images (each 1611 x 1121 x 1 voxel at 0.03882457 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:mammals:154693 (Blarina brevicauda brevicauda) - WholeBody. Reconstructed Dataset includes 1959 TIF images (each 1611 x 1121 x 1 voxel at 0.038825 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Soricomorpha, Soricidae, Blarina brevicauda brevicauda, 1987337719, computed tomography, X-ray, 3D, and DiceCT
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987337719
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:116965 (CHRYSOPELEA PARADISI) - Skull. Raw Dataset includes 1601 TIF images (each 760 x 1231 x 1 voxel at 0.01844824 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:116965 (CHRYSOPELEA PARADISI) - Skull. Reconstructed Dataset includes 751 TIF images (each 760 x 1231 x 1 voxel at 0.018448 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, CHRYSOPELEA PARADISI, 1987085793, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987085793
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:116965 (CHRYSOPELEA PARADISI) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 2000 x 846 x 1 voxel at 0.049512 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:116965 (CHRYSOPELEA PARADISI) - WholeBody. Raw Dataset includes 1601 TIF images (each 2000 x 846 x 1 voxel at 0.04951242 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, OPHIDIA, COLUBRIDAE, CHRYSOPELEA PARADISI, 1987085793, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987085793
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:90288 (SEPSINA TETRADACTYLA) - Skull. Reconstructed Dataset includes 1479 TIF images (each 687 x 924 x 1 voxel at 0.010001 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:90288 (SEPSINA TETRADACTYLA) - Skull. Raw Dataset includes 1601 TIF images (each 687 x 924 x 1 voxel at 0.01000145 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, SAURIA, SCINCIDAE, SEPSINA TETRADACTYLA, 1987065539, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987065539
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:herps:90288 (SEPSINA TETRADACTYLA) - WholeBody. Reconstructed Dataset includes 1983 TIF images (each 241 x 360 x 1 voxel at 0.053454 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:herps:90288 (SEPSINA TETRADACTYLA) - WholeBody. Raw Dataset includes 1601 TIF images (each 241 x 360 x 1 voxel at 0.05345412 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Reptilia, SAURIA, SCINCIDAE, SEPSINA TETRADACTYLA, 1987065539, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987065539
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:mammals:99103 (Desmodus rotundus) - Skull. Reconstructed Dataset includes 1464 TIF images (each 1443 x 1496 x 1 voxel at 0.023324 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:mammals:99103 (Desmodus rotundus) - Skull. Raw Dataset includes 3141 TIF images (each 1443 x 1496 x 1 voxel at 0.02332415 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Chiroptera, Phyllostomidae, Desmodus rotundus, 1987245972, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987245972
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:mammals:99103 (Desmodus rotundus) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 881 x 1326 x 1 voxel at 0.041457 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:mammals:99103 (Desmodus rotundus) - WholeBody. Raw Dataset includes 3141 TIF images (each 881 x 1326 x 1 voxel at 0.04145749 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Chiroptera, Phyllostomidae, Desmodus rotundus, 1987245972, computed tomography, X-ray, 3D, and DiceCT
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987245972
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:mammals:112964 (Desmodus rotundus) - Skull. Raw Dataset includes 3141 TIF images (each 1554 x 1520 x 1 voxel at 0.02332415 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:mammals:112964 (Desmodus rotundus) - Skull. Reconstructed Dataset includes 1656 TIF images (each 1554 x 1520 x 1 voxel at 0.023324 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Chiroptera, Phyllostomidae, Desmodus rotundus, 1987291741, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987291741
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:herps:130609 (PHAEOGNATHUS HUBRICHTI) - Skull. Raw Dataset includes 1601 TIF images (each 1324 x 1087 x 1 voxel at 0.01110375 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:herps:130609 (PHAEOGNATHUS HUBRICHTI) - Skull. Reconstructed Dataset includes 1951 TIF images (each 1324 x 1087 x 1 voxel at 0.011104 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Amphibia, CAUDATA, PLETHODONTIDAE, PHAEOGNATHUS HUBRICHTI, 1987157237, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987157237
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:mammals:112964 (Desmodus rotundus) - WholeBody. Raw Dataset includes 3141 TIF images (each 1047 x 1326 x 1 voxel at 0.04145749 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:mammals:112964 (Desmodus rotundus) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 1047 x 1326 x 1 voxel at 0.041457 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Chiroptera, Phyllostomidae, Desmodus rotundus, 1987291741, computed tomography, X-ray, 3D, and DiceCT
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987291741
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen UMMZ:herps:130609 (PHAEOGNATHUS HUBRICHTI) - WholeBody. Raw Dataset includes 1601 TIF images (each 373 x 372 x 1 voxel at 0.1000025 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen UMMZ:herps:130609 (PHAEOGNATHUS HUBRICHTI) - WholeBody. Reconstructed Dataset includes 2000 TIF images (each 373 x 372 x 1 voxel at 0.100002 mm resolution, derived from 1601 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Amphibia, CAUDATA, PLETHODONTIDAE, PHAEOGNATHUS HUBRICHTI, 1987157237, computed tomography, X-ray, and 3D
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987157237
- Discipline:
- Science
-
Computed tomography voxel dataset for ummz:mammals:154691-Blarina brevicauda brevicauda-Skull-DiceCT
- Creator:
- University of Michigan Museum of Zoology
- Description:
- Scan of specimen ummz:mammals:154691 (Blarina brevicauda brevicauda) - Skull. Reconstructed Dataset includes 1035 TIF images (each 1322 x 910 x 1 voxel at 0.027133 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction. and Scan of specimen ummz:mammals:154691 (Blarina brevicauda brevicauda) - Skull. Raw Dataset includes 3141 TIF images (each 1322 x 910 x 1 voxel at 0.02713322 mm resolution, derived from 3141 scan projections), xtek and vgi files for volume reconstruction.
- Keyword:
- Animalia, Chordata, Mammalia, Soricomorpha, Soricidae, Blarina brevicauda brevicauda, 1987241426, computed tomography, X-ray, 3D, and DiceCT
- Citation to related publication:
- For more information on the original UMMZ specimen, see: https://www.gbif.org/occurrence/1987241426
- Discipline:
- Science