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  • Data for "Comparison of Anorectal Function Measured using Wearable Digital Manometry and a High Resolution Manometry System." article (PLOS ONE) PONE-D-20-01826R1

    Creator:
    Attari, Ali
    Description:
    Please refer to the "README.txt" for more details., MATLAB R2018a (Mathworks, Natick, MA, USA) was used to process this data., and Excel (Microsoft Office) was used to store survey data on the comfort of both systems and also to provide absolute and relative intraobserver variablities for the DM device.
    Keyword:
    Digital Manometry
    Citation to related publication:
    Comparison of anorectal function measured using wearable digital manometry and a high resolution manometry system Attari A, Chey WD, Baker JR, Ashton-Miller JA (2020) Comparison of anorectal function measured using wearable digital manometry and a high resolution manometry system. PLOS ONE 15(9): e0228761.  https://doi.org/10.1371/journal.pone.0228761
    Discipline:
    Engineering, Science, and Health Sciences
    Title:
    Data for "Comparison of Anorectal Function Measured using Wearable Digital Manometry and a High Resolution Manometry System." article (PLOS ONE) PONE-D-20-01826R1

  • [Updated] 2D Benchmark Reacting Flow Dataset for Reduced Order Modeling Exploration

    Creator:
    Huang, Cheng MI
    Description:
    A 2D planar representation of a generic laboratory-scale combustor is established to assess the capabilities of ROMs for representing realistic combustion flowfields. The purpose of this dataset is to provide a testbed to build reduced model for relevant challenging reacting flow problems using different methods. The dataset was generated under the Air Force Center of Excellence on Multi-Fidelity Modeling of Rocket Combustion Dynamics and the goal of the center is to advance the state-of-the-art in Reduced Order Models (ROMs) and enable efficient prediction of instabilities in liquid fueled rocket combustion systems. Instrument and/or Software specifications: - recommendation: Matlab and Tecplot 1. Data_150000to159999.tar: the unsteady flow field data from time step 150000 to 159999 (time increment, dt, between each time step is 1E-7 sec). 2. Data_160000to169999.tar: the unsteady flow field data from time step 160000 to 169999 (time increment, dt, between each time step is 1E-7 sec). 3. Data_170000to179999.tar: the unsteady flow field data from time step 170000 to 179999 (time increment, dt, between each time step is 1E-7 sec). 4. Data_180000to189999.tar: the unsteady flow field data from time step 180000 to 189999 (time increment, dt, between each time step is 1E-7 sec). 5. Data_190000to199999.tar: the unsteady flow field data from time step 190000 to 199999 (time increment, dt, between each time step is 1E-7 sec). 6. Data_200000to209999.tar: the unsteady flow field data from time step 200000 to 209999 (time increment, dt, between each time step is 1E-7 sec). 7. Data_210000to219999.tar: the unsteady flow field data from time step 210000 to 219999 (time increment, dt, between each time step is 1E-7 sec). 8. Data_220000to229999.tar: the unsteady flow field data from time step 220000 to 229999 (time increment, dt, between each time step is 1E-7 sec). 9. grid.dat: the topology of the CFD mesh used to generate this data (can be directly loaded in Tecplot). 10. the file "sample_code.zip" contains the sample Matlab scripts to load and output the .dat files to help the researchers to get started. To run the script, the software Matlab is required and the researchers can simply run sampleIO.m script in Matlab to test the code. Detailed documentation of how the data is generated can be found in:  https://afcoe.engin.umich.edu/benchmark-data
    Citation to related publication:
    Huang, C., Duraisamy, K., and Merkle, C.L., Investigations and Improvement of Robustness of Reduced-Order Models of Reacting Flow, AIAA Journal, 2019., Swischuk, R., Kramer, B., Huang, C., and Willcox, K., Learning Physics-Based Reduced-Order Models for a Single-Injector Combustion Process , AIAA Journal, 2020., and Harvazinski, M.E., Huang, C., Sankaran, V., Feldman, T.W., Anderson, W.E., Merkle, C.L., and Talley, D.G., Coupling between hydrodynamics, acoustics, and heat release in a self-excited unstable combustor, Physics of Fluids, 2015.
    Discipline:
    Engineering
    Title:
    [Updated] 2D Benchmark Reacting Flow Dataset for Reduced Order Modeling Exploration

  • Hierarchical Test Problems for Reduced Order Modeling Exploration

    User Collection
    Creator:
    Huang, Cheng MI
    Description:
    This collection contains a hierarchy of test problems for turbulent reacting flow simulations. It is meant to provide a testbed to build reduced model for relevant challenging reacting flow problems using different methods. In addition, this collection also serves to engage a broad community of experts in computational science and the field of engineering to address certain challenges in constructing reduced models for reacting flow simulations. All the datasets in this collection were generated under the Air Force Center of Excellence on Multi-Fidelity Modeling of Rocket Combustion Dynamics and the goal of the center is to advance the state-of-the-art in Reduced Order Models (ROMs) and enable efficient and accurate prediction of instabilities in liquid fueled rocket combustion systems.
    Discipline:
    Engineering
    2Works

  • .stl file of Circle of Willis Benchmark geometric model for hemodynamic simulation software

    Creator:
    Figueroa, C. Alberto
    Description:
    This .stl file represents the largest vessels of the cerebral circulation, specifically around the Circle of Willis. The file was created from a Computed Tomography Angiography (CTA) of a relatively healthy patient. It consisted of a 512 x 512 x 709 voxel image with a resolution of 0:35 mm x 0:35 mm x 0:5 mm. The model includes the basilar artery (1), left and right internal carotid arteries (2, and 3), left and right anterior cerebral arteries (4, and 5), left and right middle cerebral arteries (6, and 7), left and right posterior cerebral arteries (8, and 9), and various communicating arteries (10, 11, and 12).
    Keyword:
    Circle of Willis, Blood flow simulation, Hemodynamics, and Benchmarking blood flow
    Citation to related publication:
    N. Wilson, K. Wang, R. Dutton, C.A. Taylor, "A software framework for creating patient specific geometric models from medical imaging data for simulation based medical planning of vascular surgery", Medical Image Computing and Computer-Assisted Intervention MICCAI 2001, Springer, 2001, pp. 449–456. doi: 10.1007/3-540-45468-3_54 and N. Xiao, J.D. Humphrey, C.A. Figueroa, "Multi-Scale Computational Model of Three-Dimensional Hemodynamics within a Deformable Full-Body Arterial Network”, Journal of Computational Physics, 2013, Vol 244, pp. 22-40. doi: 10.1016/j.jcp.2012.09.016
    Discipline:
    Engineering and Health Sciences
    Title:
    .stl file of Circle of Willis Benchmark geometric model for hemodynamic simulation software

  • Topological transitions of spiral eutectics

    Creator:
    Moniri, Saman and Shahani, Ashwin J.
    Description:
    The data is comprised of 20 .hdf files of the X-ray projections recorded during isothermal annealing of Zn-Mg samples, at discrete time-steps shown below for files names ending in ‘...30141’ to ‘…30161’: 30141: prior to annealing; 30142: 1 min annealing; 30143: 3 min; 30144: 5 min; 30145: 7 min; 30146: 10 min; 30147: 15 min; 30148: 20 min; 30150: 31 min; 30151: 1 hr; 30152: 2 hr; 30153: 3 hr; 30154: 4 hr; 30155: 5 hr; 30156: 6 hr; 30157:7 hr; 30158: 8 hr; 30159:9 hr; 30160: 9 hr, 10 min; 30161: 10 hr The raw data file is in .hdf format and can be reconstructed into .tiff, e.g., by using the TomoPy toolbox in Python.
    Keyword:
    Spiral eutectics
    Discipline:
    Engineering
    Title:
    Topological transitions of spiral eutectics

  • Small Female Pelvis Geometry Model

    Creator:
    University of Michigan Transportation Research Institute, Rupp, Jonathan D., Klein, Katelyn F., and Reed, Matthew P.
    Description:
    The files include an Excel file with the x-, y-, and z- coordinates that make up the nodal coordinates for a surface model of small (5th percentle) female pelvis geometry, the finite element model (.k file) that represents the nodal coordinates, and two surface files that represent the geometry (.obj and .ply).
    Citation to related publication:
    Katelyn F. Klein, Matthew P. Reed, and Jonathan D. Rupp. "Development of Geometric Specifications for the Pelvis of a Small Female Anthropomorphic Test Device." IRCOBI Conference 2016, IRC-16-79.  http://www.ircobi.org/wordpress/downloads/irc16/pdf-files/79.pdf
    Discipline:
    Engineering
    Title:
    Small Female Pelvis Geometry Model

  • Data for "Using sensor data to dynamically map large-scale models to site-scale forecasts: A case study using the National Water Model"

    Creator:
    Fries, Kevin J
    Description:
    This data is in support of the publication in review "Using sensor data to dynamically map large-scale models to site-scale forecasts: A case study using the National Water Model". It is all the raw data extracted from the NWM flow forecasts for Iowa and the IFIS stage readings. For the NWM data, each date has it's own tab-delimited file with columns being the time (hrs) and rows being the NHD site. For the IFIS gages, each tab delimited file is for a single site for the period of record.
    Citation to related publication:
    Fries, K. J., & Kerkez, B. (2018). Using sensor data to dynamically map large-scale models to site-scale forecasts: A case study using the national water model. Water Resources Research, 54, 5636-5653.  https://doi.org/10.1029/2017WR022498
    Discipline:
    Engineering
    Title:
    Data for "Using sensor data to dynamically map large-scale models to site-scale forecasts: A case study using the National Water Model"

  • A Simple Method for Correcting Empirical Model Densities during Geomagnetic Storms Using Satellite Orbit Data

    Creator:
    Brandt, Daniel, A., Bussy-Virat, Charles, D., and Ridley, Aaron, J.
    Description:
    The Multifaceted Optimization Algorithm (MOA) is a tool for generating corrected empirical model thermospheric densities during geomagnetic storms. It consists of a suite of Python functions that operate around the Spacecraft Orbit Characterization Kit (SpOCK), an orbital propagator developed by Charles D. Bussy-Virat, PhD, Joel Getchius, and Aaron J. Ridley, PhD at the University of Michigan, and it estimates new densities for the NRLMSISE-00 atmospheric model. MOA generates new model densities by estimating modifications to inputs to the NLRMSISE-00 model that minimize the orbit error between modeled spacecraft in SpOCK, and their actual altitudes as described in publicly-available Two-Line Element Sets (TLEs), made available online via Space-track.org. MOA consists of three sub-process: (1) The Area Optimization Algorithm (AROPT), (2) the F10.7 Optimization Algorithm (FOPT), and (3) the Ap Optimization Algorithm (APOPT). AROPT computes the contribution to the drag of the modeled spacecraft due to their varying projected area. FOPT estimates modifications to the 10.7 cm solar radio flux in NRLMSISE-00, and APOPT estimates modifications to the Earth's magnetic activity in NRLMSISE-00. MOA finds these modifications across many spacecraft, and the medians of those modifications are then applied in NLRMSISE-00 along the orbit of another satellite to generate new densities for verification. In this instance, modifications are applied along the orbits of the Swarm spacecraft and compared to Swarm GPS-derived densities.
    Keyword:
    Orbit, Satellite, Two-line Element Set, Thermosphere, and Drag
    Discipline:
    Engineering
    Title:
    A Simple Method for Correcting Empirical Model Densities during Geomagnetic Storms Using Satellite Orbit Data

  • Dataset for 'Multi‑Step Crystallization of Self‑Organized Spiral Eutectics'

    Creator:
    Moniri, Saman, Bale, Hrishikesh , Volkenandt, Tobias, Wang, Yeqing, Gao, Jianrong, Lu, Tianxian, Sun, Kai, and Shahani, Ashwin J.
    Description:
    The data file contains (1) the grayscale images of the nano-tomography experiments that can be segmented into binary images and visualized to show the 3D morphology of spiral eutectics; and (2) crystallographic orientation maps of serial-sectioned sample, which can be processed in a variety of EBSD software packages.
    Keyword:
    crystallization, chirality, self-organization, and spiral eutectics
    Citation to related publication:
    Moniri, S., Bale, H., Volkenandt, T., Wang, Y., Gao, J., Lu, T., Sun, K., Ritchie, R.O., & Shahani, A.J. (23 January 2020). Multi‐Step Crystallization of Self‐Organized Spiral Eutectics. Small (1906146).  https://doi.org/10.1002/smll.201906146
    Discipline:
    Engineering
    Title:
    Dataset for 'Multi‑Step Crystallization of Self‑Organized Spiral Eutectics'

  • Data for Solar Flare Intensity Prediction with Machine Learning Models

    Creator:
    Jiao, Zhenbang, Chen, Yang, and Manchester, Ward
    Description:
    GOES_flare_list: contains a list of more than 12,013 flare events. The list has 6 columns, flare classification, active region number, date, start time end time, emission peak time. SHARP_data.hdf5 files contain time series of 20 physical variables derived from the SDO/HMI SHARP data files. These data are saved at a 12 minute cadence and are used to train the LSTM model.
    Keyword:
    Solar Flare Prediction and Machine Learning
    Citation to related publication:
    Jiao, Z., Sun, H., Wang, X., Manchester, W., Gombosi, T., Hero, A., Chen, Y., Solar Flare Intensity Prediction with Machine Learning Models, 2020, Space Weather Journal, in press
    Discipline:
    Science and Engineering
    Title:
    Data for Solar Flare Intensity Prediction with Machine Learning Models

  • A Simulated Wind-field Dataset for Testing Energy Efficient Path-Planning Algorithms for UAVs in Urban Environment

    Creator:
    Baskar, Deepika and Gorodetsky, Alex
    Description:
    Studying the effect of wind on urban air mobility typically requires comprehensive fluid dynamics simulations in a realistic urban geometry. Motivated to enable wide-spread autonomous drone activity in urban centers, such studies have indeed been considered by several authors in the recent literature. However, the accessibility of these approaches to those with less fluid dynamics experience and/or without access to purpose built simulation tools has limited validation and application of the resulting path planning strategies. and The .dat files contain the flow variables for each of the 402240 points sampled from the region under study. For flow visualization purposes, the .dat files are readable using Tecplot Software.
    Keyword:
    UAM, Energy efficient path planning , CFD, and City of Boston
    Citation to related publication:
    D. Baskar, A.A. Gorodetsky (2019). A Simulated Wind-field Dataset for Testing Energy Efficient Path-Planning Algorithms for UAVs in Urban Environment. Forthcoming.
    Discipline:
    Engineering and Other
    Title:
    A Simulated Wind-field Dataset for Testing Energy Efficient Path-Planning Algorithms for UAVs in Urban Environment

  • Data and Data products for machine learning applied to solar flares

    Creator:
    Chen, Yang and Manchester, Ward IV
    Description:
    GOES_flare_list: contains a list of more than 10,000 flare events. The list has 6 columns, flare classification, active region number, date, start time end time, emission peak time, GOES_B_flare_list: contains time series data of SDO/HMI SHARP parameters for B class solar flares , GOES_MX_flare_list: contains time series data of SDO/HMI SHARP parameters for M and X class solar flares, SHARP_B_flare_data_300.hdf5 and SHARP_MX_flare_data_300.hdf5 files contain time series more than 20 physical variables derived from the SDO/HMI SHARP data files. These data are saved at a 12 minute cadence and are used to train the LSTM model., and B_HARPs_CNNencoded_part_xxx.hdf5 and M_X HARPs_CNNencoded_part_xxx.hdf5 include neural network encoded features derived from vector magnetogram images derived from the Solar Dynamics Observatory (SDO) Helioseismic and Magnetic Imager (HMI). These data files typically contains one or two sequences of magnetograms covering an active region for a period of 24h with a 1 hour cadence. We encode each magnetogram with frames of a fixed size of 8x16 with 512 channels.
    Keyword:
    machine learning, data science, and solar flare prediction
    Citation to related publication:
    Chen, Y., Manchester, W., Hero, A., Toth, G., DuFumier, B. Zhou, T., Wang, X., Zhu, H., Sun, Zeyu, Gombosi, T., Identifying Solar Flare Precursors Using Time Series of SDO/HMI Images and SHARP Parameters, Space Weather, 17, 1404–1426.  https://doi.org/10.1029/2019SW002214
    Discipline:
    Science and Engineering
    Title:
    Data and Data products for machine learning applied to solar flares

  • The KSU-UMD Dataset for Benchmarking for Audio Forensic Algorithms

    Creator:
    Malik, Hafiz and Khan, Muhammad Khurran, King Saud University
    Description:
    Details of the microphone used for data collection, acoustic environment in which data was collected, and naming convention used are provided here. 1 - Microphones Used: The microphones used to collect this dataset belong to 7 different trademarks. Table (1) illustrates the number of used Mics of different trademarks and models. Table 1: Trademarks and models of Mics Mic Trademark Mic Model # of Mics Shure SM-58 3 Electro-Voice RE-20 2 Sennheiser MD-421 3 AKG C 451 2 AKG C 3000 B 2 Neumann KM184 2 Coles 4038 2 The t.bone MB88U 6 Total 22 2- Environment Description: A brief description of the 6 environments in which the dataset was collected is presented here: (i) Soundproof room: a small room (nearly 1.5m × 1.5m × 2m), which is closed and completely isolated. With an exception of a small window in the front side of the room which is made of glass, all the walls of the room are made of wood and covered by a layer of sponge from the inner side, and the floor is covered by carpet. (ii) Class room: standard class room (6m × 5m × 3m). (iii) Lab: small lab (4m × 4m × 3m). All the walls are made of glasses and the floor is covered by carpet. The lab contains 9 computers. (iv) Stairs: is in the second floor. The place of recording is 3m × 5m (v) Parking: is the college parking. (vi) Garden: is an open space outside the buildings. 3- Naming Convention: This set of rules were followed as a naming convention to give each file in the dataset a unique name: (i) The file name is 19 characters long, and consists of 5 sections separated by underscores. (ii) The first section is of 3 characters indicates the Microphone trademark. (iii) The second section of 4 characters indicates the microphone model as in table (2). (iv) The third section of 2 characters indicates a specific microphone within a set of microphones of the same trademark and model, since we have more than one microphone of the same trademark and model. (v) The fourth section of 2 characters indicates the environment, where Soundproof room --> 01 Class room --> 02 Lab --> 03 Stairs --> 04 Parking --> 05 Garden --> 06 (vi) The fifth section of 2 characters indicates the language, where Arabic --> 01 English --> 02 Chinese --> 03 Indonesian --> 04 (vii) The sixth section of 2 characters indicates the speaker. Table 2: Microphones Naming Criteria Original Mic Trademark and model --> Naming Convenient Shure SM-58 --> SHU_0058 Electro-Voice RE-20 --> ELE_0020 Sennheiser MD-421 --> SEN_0421 AKG C 451 --> AKG_0451 AKG C 3000 B --> AKG_3000 Neumann KM184 --> NEU_0184 Coles 4038 --> COL_4038 The t.bone MB88U --> TBO_0088 For example: SEN_0421_02_01_02_03 is an English file recorded by speaker number 3 in the soundproof room using microphone number 2 of Sennheiser MD-421
    Keyword:
    audio forensic, multimedia forensics, microphone identification, tamper detection, splicing detection, and codec identification
    Citation to related publication:
    Muhammad Khurram Khan, Mohammed Zakariah, Hafiz Malik & Kim-Kwang Raymond Choo (2018). A novel audio forensic data-set for digital multimedia forensics, Australian Journal of Forensic Sciences, 50:5, 525-542,  http://dx.doi.org/10.1080/00450618.2017.1296186
    Discipline:
    Government, Politics and Law, Science, and Engineering
    Title:
    The KSU-UMD Dataset for Benchmarking for Audio Forensic Algorithms

  • Computer Data from Ross Thesis

    Creator:
    Mathews, Elizabeth and Verhoff, Frank
    Description:
    Each pdf is an electronic version of the paper output for each experiment. Each text file is the electronic version of the data on the computer cards for each experiment. These text files are directly readable by Excel. Once in Excel, the data can be manipulated as desired. Additional information is in the theses.
    Keyword:
    Two Liquid Phase Processes, Droplet Size and Concentration, Population Balances, and Dispersed Phase Mixing
    Citation to related publication:
    Ross, S. L. (1971). Measurements and models of the dispersed phase mixing process (Doctoral dissertation). Retrieved from  http://hdl.handle.net/2027.42/136886 and Verhoff, F. H. (1969). A study of the bivariate analysis of dispersed phase mixing (Doctoral dissertation). Retrieved from  http://hdl.handle.net/2027.42/137651
    Discipline:
    Science and Engineering
    Title:
    Computer Data from Ross Thesis

  • Epileptogenesis modulates spontaneous and responsive brain state dynamics - Code & Data

    Creator:
    Crisp, Dakota N., Cheung, Warwick, Gliske, Stephen V., Lai, Alan, Freestone, Dean R., Grayden, David B., Cook, Mark J., and Stacey, William C.
    Description:
    The data and the scripts are to show that seizure onset dynamics and evoked responses change over the progression of epileptogenesis defined in this intrahippocampal tetanus toxin rat model. All tests explored in this study can be repeated with the data and scripts included in this repository. and Dataset citation: Crisp, D.N., Cheung, W., Gliske, S.V., Lai, A., Freestone, D.R., Grayden, D.B., Cook, MJ., Stacey, W.C. (2019). Epileptogenesis modulates spontaneous and responsive brain state dynamics [Data set]. University of Michigan Deep Blue Data Repository.  https://doi.org/10.7302/r6vg-9658
    Keyword:
    evoked response, stimulation, bifurcation, epilepsy, seizure, divergence, and dynamics
    Discipline:
    Health Sciences, Science, and Engineering
    Title:
    Epileptogenesis modulates spontaneous and responsive brain state dynamics - Code & Data

  • A taxonomy of seizure dynamotypes - Code & Data

    Creator:
    Crisp, Dakota N., Saggio, Maria L., Scott, Jared, Stacey, William C., Nakatani, Mitsuyoshi, Gliske, Stephen V., and Lin, Jack
    Description:
    This data and scripts are meant to test and show seizure differentiation based on bifurcation theory. A zip file is included which contains real and simulated seizure waveforms, Matlab scripts, and metadata. The matlab scripts allow for visual review validation and objective feature analysis. The file “README.txt” provides more detail about each individual file within the zip file. and Data citation: Crisp, D.N., Saggio, M.L., Scott, J., Stacey, W.C., Nakatani, M., Gliske, S.F., Lin, J. (2019). Epidynamics: Navigating the map of seizure dynamics - Code & Data [Data set]. University of Michigan Deep Blue Data Repository.  https://doi.org/10.7302/ejhy-5h41
    Keyword:
    Bifurcation, Epilepsy, Seizure, and Divergence
    Citation to related publication:
    Saggio, M.L., Crisp, D., Scott, J., Karoly, P.J., Kuhlmann, L., Nakatani, M., Murai, T., Dümpelmann, M., Schulze-Bonhage, A., Ikeda, A., Cook, M., Gliske, S.V., Lin, J., Bernard, C., Jirsa, V., Stacey, W., 2020. In pre-print. Epidynamics characterize and navigate the map of seizure dynamics. bioRxiv 2020.02.08.940072.  https://doi.org/10.1101/2020.02.08.940072
    Discipline:
    Health Sciences, Science, and Engineering
    Title:
    A taxonomy of seizure dynamotypes - Code & Data

  • Data and Code Set for "Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array"

    Creator:
    Hegedus, Alexander M
    Description:
    This is the README for the LunarSynchrotronArray package, maintained by Dr. Alex Hegedus  alexhege@umich.edu This code repository corresponds to the Hegedus et al. 2020 (accepted) Radio Science paper, "Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array". The arxiv link for the paper is  https://arxiv.org/abs/1912.04482. The DOI link is  https://doi.org/10.1029/2019RS006891 , The Earth's Ionosphere is home to a large population of energetic electrons that live in the balance of many factors including input from the Solar wind, and the influence of the Earth's magnetic field. These energetic electrons emit radio waves as they traverse Earth's magnetosphere, leading to short‐lived, strong radio emissions from local regions, as well as persistent weaker emissions that act as a global signature of the population breakdown of all the energetic electrons. Characterizing this weaker emission (Synchrotron Emission) would lead to a greater understanding of the energetic electron populations on a day to day level. A radio array on the near side of the Moon would always be facing the Earth, and would well suited for measuring its low frequency radio emissions. In this work we simulate such a radio array on the lunar near side, to image this weaker synchrotron emission. The specific geometry and location of the test array were made using the most recent lunar maps made by the Lunar Reconnaissance Orbiter. This array would give us unprecedented day to day knowledge of the electron environment around our planet, providing reports of Earth's strong and weak radio emissions, giving both local and global information. , This set of codes should guide you through making the figures in the paper, as well as hopefully being accessible enough for changing the code for your own array. I would encourage you to please reach out to collaborate if that is the case! Requirements: , and CASA 4.7.1 (or greater?) built on python 2.7 Example link for Red Hat 7  https://casa.nrao.edu/download/distro/casa/release/el7/casa-release-4.7.1-el7.tar.gz Users may follow this guide to download and install the correct version of CASA for their system  https://casa.nrao.edu/casadocs/casa-5.5.0/introduction/obtaining-and-installing CASA executables should be fairly straightforward to extract from the untarred files. gcc 4.8.5 or above (or below?) GCC installation instructions can be found here:  https://gcc.gnu.org/install/ SPICE (I use cspice here)  https://naif.jpl.nasa.gov/naif/toolkit_C.html As seen in lunar_furnsh.txt which loads the SPICE kernels, you also must download KERNELS_TO_LOAD = ( '/home/alexhege/SPICE/LunarEph/moon_pa_de421_1900-2050.bpc' '/home/alexhege/SPICE/LunarEph/moon_080317.tf' '/home/alexhege/SPICE/LunarEph/moon_assoc_me.tf' '/home/alexhege/SPICE/LunarEph/pck00010.tpc' '/home/alexhege/SPICE/LunarEph/naif0008.tls' '/home/alexhege/SPICE/LunarEph/de430.bsp' ) All of which can be found at  https://naif.jpl.nasa.gov/pub/naif/generic_kernels/ SLDEM2015_128_60S_60N_000_360_FLOAT.IMG for the lunar surface data by LRO LOLA found at  http://imbrium.mit.edu/DATA/SLDEM2015/GLOBAL/FLOAT_IMG/
    Citation to related publication:
    Hegedus, A., Nenon, Q., Brunet, A., Kasper, J., Sicard, A., Cecconi, B., MacDowall, R., & Baker, D. (2019). Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array.  https://arxiv.org/abs/1912.04482 and Hegedus, A., Nenon, Q., Brunet, A., Kasper, J., Sicard, A., Cecconi, B., MacDowall, R., & Baker, D. (2020). Radio Science.  https://doi.org/10.1029/2019RS006891
    Discipline:
    Science and Engineering
    Title:
    Data and Code Set for "Measuring the Earth's Synchrotron Emission from Radiation Belts with a Lunar Near Side Radio Array"

  • Data for Improvement of Plasma Sheet Neural Network Accuracy with Inclusion of Physical Information

    Creator:
    Swiger, Brian M., Liemohn, Michael W., and Ganushkina, Natalia Y.
    Description:
    We sampled the near-Earth plasma sheet using data from the NASA Time History of Events and Macroscale Interactions During Substorms mission. For the observations of the plasma sheet, we used corresponding interplanetary observations using the OMNI database. We used these data to develop a data-driven model that predicts plasma sheet electron flux from upstream solar wind variations. The model output data are included in this work, along with code for analyzing the model performance and producing figures used in the related publication. and Data files are included in hdf5 and Python pickle binary formats; scripts included are set up for use of Python 3 to access and process the pickle binary format data.
    Keyword:
    neural network, plasma sheet, solar wind, machine learning, keV electron flux, deep learning, and space weather
    Citation to related publication:
    Swiger, B. M. et al. 2020. Improvement of Plasma Sheet Neural Network Accuracy With Inclusion of Physical Information. Frontiers in Astronomy and Space Science doi:10.3389/fspas.2020.00042
    Discipline:
    Science and Engineering
    Title:
    Data for Improvement of Plasma Sheet Neural Network Accuracy with Inclusion of Physical Information

  • Data Pertaining to Initial Simulations Using the Conductance Model for Extreme Events

    Creator:
    Mukhopadhyay, Agnit, Daniel T Welling, Michael W Liemohn, Aaron J Ridley, Shibaji Chakrabarty, and Brian J Anderson
    Description:
    An updated auroral conductance module is built for global models, using nonlinear regression & empirical adjustments to span extreme events., Expanded dataset raises the ceiling of conductance values, impacting the ionospheric potential dB/dt & dB predictions during extreme events., and Application of the expanded model with empirical adjustments refines the conductance pattern, and improves dB/dt predictions significantly.
    Keyword:
    Space Weather Forecasting, Extreme Weather, Ionosphere, Magnetosphere, MI Coupling, Ionospheric Conductance, Auroral Conductance, Aurora, SWMF, SWPC, Nonlinear Regression, and dB/dt
    Citation to related publication:
    Mukhopadhyay, A., et al. (2020). Conductance Model for Extreme Events : Impact of Auroral Conductance on Space Weather Forecasts. Forthcoming.
    Discipline:
    Science and Engineering
    Title:
    Data Pertaining to Initial Simulations Using the Conductance Model for Extreme Events

  • 24 Cell Proton Exchange Membrane Fuel Cell stack, 300 square cm area voltage parameterization

    Creator:
    Siegel, Jason B. , Stefanopoulou, Anna G., and McKahn, Denise (McKay)
    Description:
    This section contains work related to the modeling of voltage degradation in a 24 cell PEM fuel cell stack with 300 cm2 cross-sectional area. The experimental hardware used to validate the model consists of a computer controlled system that coordinates air, hydrogen, cooling, and electrical subsystems to operate the stack. Dry hydrogen is pressure regulated for full utilization in the dead-ended anode. Using a solenoid valve, the anode is periodically purged to recover the gradual degradation in voltage. A membrane based humidifier controls the vapor content of the cathode gas stream while a mass flow controller is used to regulate the flow to the desired stoichiometry.
    Citation to related publication:
    Denise A. McKay, Jason B. Siegel, William Ott, and Anna G. Stefanopoulou. Parameterization and prediction of temporal fuel cell voltage behavior during flooding and drying conditions. Journal of Power Sources, 178(1):207 - 222, 2008.  https://doi.org/10.1016/j.jpowsour.2007.12.031
    Discipline:
    Engineering
    Title:
    24 Cell Proton Exchange Membrane Fuel Cell stack, 300 square cm area voltage parameterization

  • Inferring the behavior of distributed energy resources from incomplete measurements (project outputs)

    Creator:
    Ledva, Gregory S., Zhe, Du, Peterson, Sarah, Balzano, Laura, and Mathieu, Johanna L.
    Description:
    This is the code that resulted from NSF grant ECCS-1508943, "Inferring the behavior of distributed energy resources from incomplete measurements." The project focused on developing control, estimation, and modeling methods for residential demand response and electric distribution networks. The talks, papers, and poster in Deep Blue:  http://hdl.handle.net/2027.42/149480
    Keyword:
    online learning, energy disaggregation, residential demand response, networked control, Kalman filter, and frequency regulation
    Citation to related publication:
    Ledva, Gregory S., Laura Balzano, and Johanna L. Mathieu. "Inferring the behavior of distributed energy resources with online learning." 2015 53rd Annual Allerton Conference on Communication, Control, and Computing (Allerton). IEEE, 2015.  https://doi.org/10.1109/ALLERTON.2015.7447003, Ledva, Gregory S., and Johanna L. Mathieu. "A linear approach to manage input delays while supplying frequency regulation using residential loads." 2017 American Control Conference (ACC). IEEE, 2017.  https://doi.org/10.23919/ACC.2017.7963041, Ledva, Gregory S., Laura Balzano, and Johanna L. Mathieu. "Exploring Connections Between a Multiple Model Kalman Filter and Dynamic Fixed Share with Applications to Demand Response." 2018 IEEE Conference on Control Technology and Applications (CCTA). IEEE, 2018.  https://doi.org/10.1109/CCTA.2018.8511493, Ledva, Gregory S., et al. "Disaggregating Load by Type from Distribution System Measurements in Real Time." Energy Markets and Responsive Grids. Springer, New York, NY, 2018. 413-437.  https://doi.org/10.1007/978-1-4939-7822-9_17, Ledva, Gregory S., Sarah Peterson, and Johanna L. Mathieu. "Benchmarking of Aggregate Residential Load Models Used for Demand Response." 2018 IEEE Power & Energy Society General Meeting (PESGM). IEEE, 2018.  https://doi.org/10.1109/PESGM.2018.8585847, Ledva, Gregory S., et al. "Managing communication delays and model error in demand response for frequency regulation." IEEE Transactions on Power Systems 33.2 (2018): 1299-1308.  https://doi.org/10.1109/TPWRS.2017.2725834, Ledva, Gregory S., Laura Balzano, and Johanna L. Mathieu. "Real-time energy disaggregation of a distribution feeder's demand using online learning." IEEE Transactions on Power Systems 33.5 (2018): 4730-4740.  https://doi.org/10.1109/TPWRS.2018.2800535, and Talks, papers, and poster in Deep Blue:  http://hdl.handle.net/2027.42/149480
    Discipline:
    Engineering
    Title:
    Inferring the behavior of distributed energy resources from incomplete measurements (project outputs)

  • Data pertaining to Article: Air Quality Impacts at an E-Waste Site in Ghana using Flexible, Low-Cost and Quality Assured Measurements

    Creator:
    Batterman, Stuart; University of Michigan
    Description:
    We evaluated PM levels at the Agbogbloshie e-waste and scrap yard site in Accra, Ghana, and at upwind and downwind locations. This monitoring forms part of the West Africa-Michigan Charter II for GEOHealth cohort study, which is analyzing occupational exposures and health risks at this site.
    Keyword:
    Air pollution, particulate matter, e-waste, Fires, and monitoring
    Discipline:
    Engineering and Health Sciences
    Title:
    Data pertaining to Article: Air Quality Impacts at an E-Waste Site in Ghana using Flexible, Low-Cost and Quality Assured Measurements

  • Supporting data and scripts for the paper "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings"

    Creator:
    Gliske, Stephen V and Stacey, William C
    Description:
    This data is part of a large program to translate detection and interpretation of HFOs into clinical use. A zip file is included which contains hfo detections, metadata, and Matlab scripts. The matlab scripts analyze this input data and produce figures as in the referenced paper (note: the blind source separation method is stochastic, and so the figures may not be exactly the same). A file "README.txt" provides more detail about each individual file within the zip file.
    Keyword:
    hfo, high frequency oscillation, ripple, fast ripple, blind source separation, non-negative matrix factorization, and temporal variability
    Citation to related publication:
    Stephen V. Gliske, Zachary T. Irwin, Cynthia Chestek, Garnett L. Hegeman, Benjamin Brinkmann, Oren Sagher, Hugh J. L. Garton, Greg A. Worrell, William C. Stacey. "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings." Nature Communications.  https://doi.org/10.1038/s41467-018-04549-2
    Discipline:
    Science, Engineering, and Health Sciences
    Title:
    Supporting data and scripts for the paper "Variability in the location of High Frequency Oscillations during prolonged intracranial EEG recordings"

  • Mars Thermospheric Responses to a Global Dust Storm (PEDE-2018): Mars Global Ionosphere-Thermosphere Model (M-GITM) Simulated Datasets for Comparison to MAVEN Spacecraft Measurements

    Creator:
    Bougher, S. W. (CLaSP Department, U. of Michigan), Roeten, K. J. (CLaSP Department, U. of Michigan), and Sharrar, R. (Astronomy Department, U. of Michigan)
    Description:
    The NASA MAVEN (Mars Atmosphere and Volatile Evolution) spacecraft, which is currently in orbit around Mars, has been taking daily (systematic) measurements of the densities and temperatures in the upper atmosphere of Mars between about 140 to 240 km above the surface. Wind measurement campaigns are also conducted once per month for 5-10 orbits. These densities, temperatures and winds change with time (e.g. season, local time) and location, and sometimes fluctuate quickly. Global dust storm events are also known to significantly impact these density, temperature and wind fields in the Mars thermosphere. Such global dust storm period measurements can be compared to simulations from a computer model of the Mars atmosphere called M-GITM (Mars Global Ionosphere-Thermosphere Model), developed at U. of Michigan. This is the first detailed comparison between direct global dust storm period measurements in the upper atmosphere of Mars and simulated MGITM fields and is important because it can help to inform us what physical processes are acting on the upper atmosphere during such large dust events. Since the global circulation plays a role in the structure, variability, and evolution of the atmosphere, understanding the processes that drive the winds in the upper atmosphere of Mars also provides key context for understanding how the atmosphere behaves as a whole system. A basic version of the M-GITM code can be found on Github as follows: https:/github.com/dpawlows/MGITM and About 4 months of Neutral Gas and Ion Mass Spectrometer (NGIMS) measurements of densities and winds have been made by the MAVEN team during the summer of 2018 (Elrod et al., 2019). Nine reference measurement intervals during this global dust storm (1-June through 30-August 2018) are selected for detailed study (Elrod et al. 2019). The Mars conditions for these nine intervals have been used to launch corresponding M-GITM code simulations, yielding 3-D neutral density, temperature and wind fields for comparison to these NGIMS measurements. The M-GITM datacubes used to extract the density, temperature and neutral winds, along the trajectory of each orbit path between 140 and 240 km, are provided in this Deep Blue Data archive. README files are provided for each datacube, detailing the contents of each file. A general README file is also provided that summarizes the inputs and outputs of the M-GITM code simulations for this study.
    Keyword:
    Mars, MAVEN Spacecraft, Mars Thermosphere, and Mars Global Dust Storm of 2018
    Citation to related publication:
    Elrod, M. K., S. W. Bougher, K. Roeten, R. Sharrar, J. Murphy, Structural and Compositional Changes in the Upper Atmosphere related to the PEDE-2018 Dust Event on Mars as Observed by MAVEN NGIMS, Geophys. Res. Lett., (2019). doi: 10.1029/2019GL084378. and Jain, S. K., Bougher, S. W., Deighan, J., Schneider, N. M., Gonzalez‐Galindo, F., Stewart, A. I. F., et al. ( 2020). Martian thermospheric warming associated with the Planet Encircling Dust Event of 2018. Geophysical Research Letters, 47, e2019GL085302.  https://doi.org/10.1029/2019GL085302
    Discipline:
    Science and Engineering
    Title:
    Mars Thermospheric Responses to a Global Dust Storm (PEDE-2018): Mars Global Ionosphere-Thermosphere Model (M-GITM) Simulated Datasets for Comparison to MAVEN Spacecraft Measurements

  • Dataset for "Singly-twinned growth of Si crystals upon chemical modification"

    Creator:
    Moniri, Saman, Xiao, Xianghui, and Shahani, Ashwin J.
    Description:
    The data is comprised of 22 directories, each housing a .hdf file of the X-ray projections recorded during solidification of Al-Si-Cu-Sr. The flat and dark projections are also included as two separate .hdf files (total file count: 24). The raw data file is in .hdf format and can be reconstructed into .tiff, e.g., by using the TomoPy toolbox in Python.
    Keyword:
    Crystallization, growth modifiers, silicon, in situ, X-ray tomography
    Discipline:
    Engineering
    Title:
    Dataset for "Singly-twinned growth of Si crystals upon chemical modification"

  • Large Lake Statistical Water Balance Model - 12 month time window - 1980 through 2015 monthly summary data and model output

    Creator:
    Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research, University of Michigan
    Description:
    Using the statistical programming package R ( https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler,  http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015:  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM):  https://www.glerl.noaa.gov/data/WaterBalanceModel/, and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
    Keyword:
    Water, Balance, Great Lakes, Laurentian, Machine Learning, Machine, Learning, Lakes, Bayesian, and Network
    Citation to related publication:
    Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM).  https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
    Discipline:
    Science and Engineering
    Title:
    Large Lake Statistical Water Balance Model - 12 month time window - 1980 through 2015 monthly summary data and model output

  • Enhanced word embeddings using multi-semantic representation through lexical chains

    Creator:
    Ruas, Terry, Ferreira, Charles H. P., Grosky, William, França, Fabrício O., and Medeiros, Débora M. R,
    Description:
    The relationship between words in a sentence often tell us more about the underlying semantic content of a document than its actual words, individually. Recent publications in the natural language processing arena, more specifically using word embeddings, try to incorporate semantic aspects into their word vector representation by considering the context of words and how they are distributed in a document collection. In this work, we propose two novel algorithms, called Flexible Lexical Chain II and Fixed Lexical Chain II that combine the semantic relations derived from lexical chains, prior knowledge from lexical databases, and the robustness of the distributional hypothesis in word embeddings into a single decoupled system. In short, our approach has three main contributions: (i) unsupervised techniques that fully integrate word embeddings and lexical chains; (ii) a more solid semantic representation that considers the latent relation between words in a document; and (iii) lightweight word embeddings models that can be extended to any natural language task. Knowledge-based systems that use natural language text can benefit from our approach to mitigate ambiguous semantic representations provided by traditional statistical approaches. The proposed techniques are tested against seven word embeddings algorithms using five different machine learning classifiers over six scenarios in the document classification task. Our results show that the integration between lexical chains and word embeddings representations sustain state-of-the-art results, even against more complex systems. Github:  https://github.com/truas/LexicalChain_Builder
    Keyword:
    document classification, lexical chains, word embeddings, synset embeddings, chain2vec, and natural language processing
    Citation to related publication:
    Terry Ruas, Charles Henrique Porto Ferreira, William Grosky, Fabrício Olivetti de França, Débora Maria Rossi de Medeiros, "Enhanced word embeddings using multi-semantic representation through lexical chains", Information Sciences, 2020,  https://doi.org/10.1016/j.ins.2020.04.048
    Discipline:
    Other, Engineering, and Science
    Title:
    Enhanced word embeddings using multi-semantic representation through lexical chains

  • Data for "Myelin Water Fraction Estimation Using Small-Tip Fast Recovery MRI"

    Creator:
    Whitaker, Steven T., Nataraj, Gopal, Nielsen, Jon-Fredrik, and Fessler, Jeffrey A.
    Description:
    File: P,jf06Sep2019,mese.7 The multi-echo spin echo (MESE) data was acquired using a 3D acquisition with an initial 90 degree excitation pulse followed by 32 refocusing (180 degree) pulses, resulting in 32 echoes with echo spacing of 10 ms. The repetition time of the sequence was 1200 ms. Each refocusing pulse was flanked by crusher gradients to impart 14 cycles of phase across the imaging volume. The initial excitation pulse had time-bandwidth product of 6, duration of 3 ms, and slab thickness of 0.9 cm, and each refocusing pulse had time-bandwidth product of 2, duration of 2 ms, and slab thickness of 2.1 cm. The scan took 36 min 11 s and covered a field of view (FOV) of 22 x 22 x 0.99 cm^3 with matrix size 200 x 200 x 9., File: P,jf06Sep2019,b1.7 The Bloch-Siegert (BS) scans were acquired using a 3D acquisition. The excitation pulse of these scans had time-bandwidth product of 8 and duration of 1 ms. The pair of scans used +/-4 kHz off-resonant Fermi pulses between excitation and readout. The BS scans took 2 min 40 s in total and covered a FOV of 22 x 22 x 0.99 cm^3 with matrix size 200 x 50 x 9., File: P,jf06Sep2019,mwf.7 The small-tip fast recovery (STFR) scans were acquired using a 3D acquisition. The first two and last two scans were pairs of spoiled gradient-recalled echo (SPGR) scans with echo time difference of 2.3 ms. (In the related paper, only the first set was used, i.e., only 11 of the 13 scans were used.) The remaining scans used scan parameters that were optimized to minimize the Cramer-Rao Lower Bound (CRLB) of estimates of myelin water fraction (MWF). The RF pulses had time-bandwidth product of 8 and duration of 1 ms. Each pair of SPGR scans took 58 s and the nine STFR scans took 3 min 36 s for a total scan time of 5 min 32 s (4 min 34 s if one pair of SPGR scans is ignored). The scans covered a field of view (FOV) of 22 x 22 x 0.99 cm^3 with matrix size 200 x 200 x 9., File: meseslice5.mat Contains the 32 echoes of the MESE image data for the middle slice of the imaging volume. Saved using Mathworks MATLAB R2019a., File: b1slice5.mat Contains the transmit field inhomogeneity map for the middle slice of the imaging volume., File: recon.jld Key "img" contains the 11 STFR images for the middle slice of the imaging volume. Key "b0map" contains a field map estimated from the two SPGR scans. Key "mask" contains a mask of the voxels for which to estimate MWF. Key "T1img" contains a T1-weighted image for anatomical reference., File: headmask.mat Contains a mask for visualizing just the brain (ignores the skull) for the middle slice of the imaging volume., File: rois.mat Contains masks for various regions of interest (ROIs), used for computing statistics. Keys "mtopleft", "mtopright", "mbottomleft", and "mbottomright" refer to the corresponding locations on the anatomical reference image (see related paper). Key "mic" refers to the internal capsules, and key "mgm" refers to a gray matter ROI., The raw data files (P-files) can be read into the Julia programming language using the Julia version of the Michigan Image Reconstruction Toolbox ( https://github.com/JeffFessler/MIRT.jl) or into MATLAB using TOPPE ( https://github.com/toppeMRI/toppe). The reconstructed slices used in the related paper are provided for convenience, and are stored in .mat files that can be loaded into Julia (using the package MAT.jl) or MATLAB, and a .jld file that can be loaded into Julia (using the package JLD.jl). The Julia code for processing the data to create MWF maps is hosted publicly on GitHub at  https://github.com/StevenWhitaker/STFR-MWF., and Files: toppe-master.zip and MIRT.jl-master.zip are archived versions of the TOPPE and Michigan Image Reconstruction Toolbox code sets from GitHub as of 2/28/2020.
    Keyword:
    myelin, machine learning, kernel learning, magnetic resonance imaging, and scan design
    Citation to related publication:
    Whitaker ST, Nataraj G, Nielsen JF, Fessler JA. Myelin water fraction estimation using small-tip fast recovery MRI. Mag Res Med 2020; Accepted.
    Discipline:
    Engineering and Health Sciences
    Title:
    Data for "Myelin Water Fraction Estimation Using Small-Tip Fast Recovery MRI"

  • Equilibrium Path Sampling Data for Two Glycosynthetic Reactions of Thermatoga maratima Alpha-L-Fucosidase D224G

    Creator:
    Burgin, Tucker and Mayes, Heather B.
    Description:
    This project aimed to discover and analyze the molecular mechanism of synthesis of two particular fucosylated oligosaccharide products in a mutant enzyme, Thermatoga maratima Alpha-L-Fucosidase D224G, whose wild type performs the opposite reaction (cleavage of fucosyl glycosidic bonds). Discovery of the mechanism was performed using an unbiased simulations method known as aimless shooting, whereas analysis of the mechanism in terms of the energy profile was performed using a separate method known as equilibrium path sampling. The data here concerns the latter method. and The contents of the atesa_master.zip are the ATESA GitHub project. A Python program for automating transition path sampling with aimless shooting using Amber.  https://github.com/team-mayes/atesa
    Keyword:
    Equilibrium Path Sampling, Transition Path Sampling, Enzymatic Mechanism, and GH29
    Citation to related publication:
    10.1039/C8RE00240A
    Discipline:
    Engineering
    Title:
    Equilibrium Path Sampling Data for Two Glycosynthetic Reactions of Thermatoga maratima Alpha-L-Fucosidase D224G

  • Data for "The Coda of the Transient Response in a Sensitive Cochlea"

    Creator:
    Grosh, Karl and Li, Yizeng
    Description:
    In a sensitive cochlea, the basilar membrane response to transient excitation of any kind--normal acoustic or artificial intracochlear excitation--consists of not only a primary impulse but also a coda of delayed secondary responses with varying amplitudes but similar spectral content around the characteristic frequency of the measurement location. The coda, sometimes referred to as echoes or ringing, has been described as a form of local, short term memory which may influence the ability of the auditory system to detect gaps in an acoustic stimulus such as speech. Depending on the individual cochlea, the temporal gap between the primary impulse and the following coda ranges from once to thrice the group delay of the primary impulse (the group delay of the primary impulse is on the order of a few hundred microseconds). The coda is physiologically vulnerable, disappearing when the cochlea is compromised even slightly. The multicomponent sensitive response is not yet completely understood. We use a physiologically-based, mathematical model to investigate (i) the generation of the primary impulse response and the dependence of the group delay on the various stimulation methods, (ii) the effect of spatial perturbations in the properties of mechanically sensitive ion channels on the generation and separation of delayed secondary responses. The model suggests that the presence of the secondary responses depends on the wavenumber content of a perturbation and the activity level of the cochlea. In addition, the model shows that the varying temporal gaps between adjacent coda seen in experiments depend on the individual profiles of perturbations. Implications for non-invasive cochlear diagnosis are also discussed.
    Citation to related publication:
    Li, Yizeng, and Karl Grosh. “The Coda of the Transient Response in a Sensitive Cochlea: A Computational Modeling Study.” PLOS Computational Biology 12, no. 7 (July 5, 2016): e1005015.  https://doi.org/10.1371/journal.pcbi.1005015
    Discipline:
    Engineering and Health Sciences
    Title:
    Data for "The Coda of the Transient Response in a Sensitive Cochlea"

  • Self-Discovery Module (GUI) for Singular Vectors: The"Greatest Stretch" Method for 2x2 Matrices

    Creator:
    James, David A. and Lokam, Nikhil
    Description:
    The object of this project is to provide researchers and students with a tool to allow them to develop an intuitive understanding of singular vectors and singular values. 2x2 matrices A with real entries map circles to ellipses; in particular, unit circles centered at the origin to ellipses centered at the origin. It is known that the points on the ellipse farthest from the origin correspond to the singular vectors of A. Users can use the GUI to enter matrices of their choice and explore to visually self-determine the singular vectors/values.
    Keyword:
    SVD, Singular Value Decomposition, Singular Vector, Singular Value, and Matrix
    Discipline:
    Science and Engineering
    Title:
    Self-Discovery Module (GUI) for Singular Vectors: The"Greatest Stretch" Method for 2x2 Matrices

  • Perturbative Sit-to-Stand Experiment Dataset and Stability Basin Code

    Creator:
    Holmes, Patrick
    Description:
    This work was collected to evaluate Stability Basins for characterizing the limits of human stability during Sit-to-Stand. and MATLAB code was used to process the data into individual trials. Trials are labeled by Sit-to-Stand type (Natural, Momentum-Transfer, or Quasi-Static) and experimental condition. MATLAB code for analyzing the data and computing Stability Basins is provided. A GUI is provided to animate a subject's movement and display projections of the Stability Basins in the horizontal and vertical planes.
    Keyword:
    biomechanics, mathematical model, locomotion, fall risk, reachability, and feedback control
    Citation to related publication:
     https://arxiv.org/abs/1908.01876
    Discipline:
    Engineering
    Title:
    Perturbative Sit-to-Stand Experiment Dataset and Stability Basin Code

  • Data for the manuscript titled "Scale-free, programmable design of morphable chain loops of kilobots and colloidal motors"

    Creator:
    Agrawal, Mayank and Glotzer, Sharon C
    Description:
    Micron-scale robots require systems that can morph into arbitrary target configurations controlled by external agents such as heat, light, electricity, and chemical environment. Achieving this behavior using conventional approaches is challenging because the available materials at these scales are not programmable like their macroscopic counterparts. To overcome this challenge, we propose a design strategy to make a robotic machine that is both programmable and compatible with colloidal-scale physics. Our strategy uses motors in the form of active colloidal particles that constantly propel forward. We sequence these motors end-to-end in a closed chain forming a two-dimensional loop that folds under its mechanical constraints. We encode the target loop shape and its motion by regulating six design parameters, each scale-invariant and achievable at the colloidal scale. The research dataset includes simulation, visualization, and analysis scripts and results generated for the 2D chain loops of self-propelling particles. File Description:, -- arrows_folding - Contains the data for the folded chain loop shapes resembling an arrowhead., -- bending_vs_variation - Contains the data to study the stability of a particular shape in simulations as one of the segments of the shape bends and/or the distribution of propulsion on it varies., -- curved_triangle - Contains the data to study motion and bending of a triangle shape made using chain loop., -- example_shapes - Contains data for various examples of shapes that can be generated by designing the chain loops., -- nskT_vs_fakT - Contains the data for a specific shape to study the effect of scaling up the number of particles (governed by ns) and the propulsion (governed by fa) in its chain., -- stability - Contains the data and theoretical model (stability.py) to study the stability of the six different shapes., -- tuning_design_forM - Contains the data for sequential tuning the design parameters to fold the shape "M" as described in the corresponding publication., and -- two_neighboring_cds_segments_ - Contains the data to study a system of two neighboring chain segments with respect to different parameters discussed in the publication.
    Keyword:
    active particles, colloidal robotics, design, kilobots, and morphological control
    Citation to related publication:
    Agrawal, M, Glotzer SC. (2020). Scale-free, programmable design of morphable chain loops of kilobots and colloidal motors. PNAS.  www.pnas.org/cgi/doi/10.1073/pnas.1922635117
    Discipline:
    Engineering
    Title:
    Data for the manuscript titled "Scale-free, programmable design of morphable chain loops of kilobots and colloidal motors"

  • Large Lake Statistical Water Balance Model - Laurentian Great Lakes - 6 month time window - 1980 through 2015 monthly summary data and model output

    Creator:
    Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research
    Description:
    Using the statistical programming package R (  https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler,  http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015:  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM):  https://www.glerl.noaa.gov/data/WaterBalanceModel/ , and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
    Keyword:
    Water, Balance, Great Lakes, Laurentian, Machine, Learning, Lakes, Bayesian, and Network
    Citation to related publication:
    Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM).  https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
    Discipline:
    Science and Engineering
    Title:
    Large Lake Statistical Water Balance Model - Laurentian Great Lakes - 6 month time window - 1980 through 2015 monthly summary data and model output

  • Simulation Parameters used in the Study titled "Efficient Estimation of Binding Free Energies between Peptides and an MHC Class II Molecule Using Coarse-Grained Molecular Dynamics Simulations with a Weighted Histogram Analysis Method"

    Creator:
    Larson, Ronald G., Wen, Fei, Huang, Wenjun, and Huang, Ming
    Description:
    We provide the parameters used in Umbrella Sampling simulations reported in our study "Efficient Estimation of Binding Free Energies between Peptides and an MHC Class II Molecule Using Coarse-Grained Molecular Dynamics Simulations with a Weighted Histogram Analysis Method", namely the set positions and spring constants for each window in simulations. Two tables are provided. Table 1 lists the names of the peptides and their corresponding sequences. Table 2 lists the parameters. The abstract of our work is the following: We estimate the binding free energy between peptides and an MHC class II molecule using molecular dynamics (MD) simulations with Weighted Histogram Analysis Method (WHAM). We show that, owing to its more thorough sampling in the available computational time, the binding free energy obtained by pulling the whole peptide using a coarse-grained (CG) force field (MARTINI) is less prone to significant error induced by biased-sampling than using an atomistic force field (AMBER). We further demonstrate that using CG MD to pull 3-4 residue peptide segments while leaving the remain-ing peptide segments in the binding groove and adding up the binding free energies of all peptide segments gives robust binding free energy estimations, which are in good agreement with the experimentally measured binding affinities for the peptide sequences studied. Our approach thus provides a promising and computationally efficient way to rapidly and relia-bly estimate the binding free energy between an arbitrary peptide and an MHC class II molecule.
    Keyword:
    Molecular Dynamics, Binding Free Energy, Protein, MHC, and Coarse-Grained
    Citation to related publication:
    M. Huang, W. Huang, F. Wen, R. G. Larson. J. Comput. Chem. 2017, 38, 2007–2019.  https://doi.org/10.1002/jcc.24845
    Discipline:
    Science and Engineering
    Title:
    Simulation Parameters used in the Study titled "Efficient Estimation of Binding Free Energies between Peptides and an MHC Class II Molecule Using Coarse-Grained Molecular Dynamics Simulations with a Weighted Histogram Analysis Method"

  • FVCOM-UGCICE source codes and model results for assessment of precipitation impact on Great Lakes ice cover and water temperature

    Creator:
    Ayumi Fujisaki-Manome
    Description:
    Precipitation impacts on ice cover and water temperature in the Laurentian Great Lakes were examined using state-of-art coupled ice-hydrodynamic models. Numerical experiments were conducted for the recent anomalously cold (2014-2015) and warm (2015-2016) winters that were accompanied by high and low ice coverage over the lakes, respectively. The results of numerical experiments showed that, snow cover on the ice, which is the manifestation of winter precipitation, reduced the total ice volume (or mean ice thickness) in all of the Great Lakes, shortened the ice duration, and allowed earlier warming of water surface. The reduced ice volume was due to the thermal insulation of snow cover. The surface albedo was also increased by snow cover, but its impact on the delay the melting of ice was overcome by the thermal insulation effect. During major snowstorms, snowfall over the open lake caused notable cooling of the water surface due to latent heat absorption. Overall, the sensible heat flux from rain in spring and summer was found to have negligible impacts on the water surface temperature. Although uncertainties remain in over-lake precipitation estimates and model’s representation of snow on the ice, this study demonstrated that winter precipitation, particularly snowfall on the ice and water surfaces, is an important contributing factor in Great Lakes ice production and thermal conditions from late fall to spring.
    Keyword:
    Great Lakes, lake ice, numerical modeling, and precipitation
    Citation to related publication:
    Fujisaki-Manome, A., E.J. Anderson, J.A. Kessler, P.Y. Chu, J. Wang, and A.D. Gronewold, Simulating impacts of precipitation on ice cover and surface water temperature across large lakes, Journal of Geophysical Research Oceans, in revision.
    Discipline:
    Science and Engineering
    Title:
    FVCOM-UGCICE source codes and model results for assessment of precipitation impact on Great Lakes ice cover and water temperature

  • Demand response algorithms to improve electric power system stability margins

    Creator:
    Yao, Mengqi, Mathieu, Johanna L., Hiskens, Ian A., Molzahn, Daniel K., Koorehdavoudi, Kasra , and Roy, Sandip
    Description:
    The files include all the published paper and presentation source codes. Please install Matpower before running the code. The Matpower version is 5.1, which can be found in  https://matpower.org/download/ Talks, papers, and poster in Deep Blue:  http://hdl.handle.net/2027.42/150104
    Keyword:
    Demand response, Optimal power flow, Power system voltage stability, and Power system small signal stability L
    Citation to related publication:
     https://ieeexplore.ieee.org/document/8686211,  https://ieeexplore.ieee.org/abstract/document/7980798,  https://pdfs.semanticscholar.org/a83a/cb9c9af878f8b5d77f4b4230dfb5bd8c5325.pdf,  https://ieeexplore.ieee.org/abstract/document/8619091, and  https://ieeexplore.ieee.org/abstract/document/8262731
    Discipline:
    Engineering
    Title:
    Demand response algorithms to improve electric power system stability margins

  • Simulation Data associated with the paper: Supercharging enables organized assembly of synthetic biomolecules

    Creator:
    Ramasubramani, Vyas
    Description:
    The goal of the work is to elucidate the stability of a complex experimentally observed structure of proteins. We found that supercharged GFP molecules spontaneously assemble into a complex 16-mer structure that we term a protomer, and that under the right conditions an even larger assembly is observed. The protomer structure is very well defined, and we performed simulations to try and understand the mechanics underlying its behavior. In particular, we focused on understanding the role of electrostatics in this system and how varying salt concentrations would alter the stability of the structure, with the ultimate goal of predicting the effects of various mutations on the stability of the structure. There are two separate projects included in this repository, but the two are closely linked. One, the candidate_structures folder, contains the atomistic outputs used to generate coarse-grained configurations. The actual coarse-grained simulations are in the rigid_protein folder, which pulls the atomistic coordinates from the other folder. All data is managed by signac and lives in the workspace directories, which contain various folders corresponding to different parameter combinations. The parameters associated with a given folder are stored in the signac_statepoint.json files within each subdirectory. The atomistic data uses experimentally determined protein structures as a starting point; all of these are stored in the ConfigFiles folder. The primary output is the topology files generated from the PDBs by GROMACS; these topologies are then used to parametrize the Monte Carlo simulations. In some cases, atomistic simulations were actually run as well, and the outputs are stored alongside the topology files. In the rigid_protein folder, the ConfigFiles folder contains MSMS, the software used to generate polyhedral representations of proteins from the PDBs in the candidate_structures folder. All of the actual polyhedral structures are also stored in the ConfigFiles folder. The actual simulation trajectories are stored as general simulation data (GSD) files within each subdirectory of the workspace, along with a single .pos file that contains the shape definition of the (nonconvex) polyhedron used to represent a protein. The logged quantities, such as energies and MC move sizes, are stored in .log files. The logic for the simulations in the candidate_structures project is in the Python scripts project.py, operations.py, and scripts/init.py. The rigid_protein folder also includes the notebooks directory, which contains Jupyter notebooks used to perform analyses, as well as the Python scripts used to actually perform the simulations and manage the data space. In particular, the project.py, operations.py and scripts/init.py scripts contain most of the logic associated with the simulations.
    Keyword:
    Protein assembly, Cryo TEM, Hierarchical Assembly, Monte Carlo simulation, and Coarse-grained simulation
    Citation to related publication:
    Anna J Simon, Vyas Ramasubramani, Jens Glaser, Arti Pothukuchy, Jillian Gerberich, Janelle Leggere, Barrett R Morrow, Jimmy Golihar, Cheulhee Jung, Sharon C Glotzer, David W Taylor, Andrew D Ellington,"Supercharging enables organized assembly of synthetic biomolecules," bioRxiv 323261; doi:  https://doi.org/10.1101/323261
    Discipline:
    Science and Engineering
    Title:
    Simulation Data associated with the paper: Supercharging enables organized assembly of synthetic biomolecules

  • Sensor data for "Radiation tolerance of the PNI RM3100 magnetometer for a Europa lander mission"

    Creator:
    Regoli, Leonardo H.
    Description:
    The research analyzed the response of nine PNI RM3100 magnetometers to radiation doses expected during a Europa lander mission. The radiation levels are drawn from the Europa Lander Science Definition Team report. The sensors were tested up to a total ionization dose (TID) level of 500 kRad.
    Keyword:
    Magnetometer, Magneto-inductive, Europa, and Radiation
    Discipline:
    Science and Engineering
    Title:
    Sensor data for "Radiation tolerance of the PNI RM3100 magnetometer for a Europa lander mission"

  • Equilibrium configurations of hard polygons near the melting transition

    Creator:
    Engel, Michael, Glotzer, Sharon C., Anderson, Joshua A., Antonaglia, James, and Millan, Jaime A.
    Description:
    This dataset was generated for our work "Shape and symmetry determine two-dimensional melting transitions of hard regular polygons". The dataset includes simulation results for 13 different polygons (equilateral triangles through regular tetradecagons and the 4-fold pentille) at a variety of packing fractions near the isotropic fluid to solid phase transition. Each trajectory contains the final 4 frames of each simulation run we conducted at system sizes of over one million particles. For each shape, there is a JSON file that describes the vertices of the polygon and a number of simulation trajectory files in GSD ( https://bitbucket.org/glotzer/gsd) format. The trajectory files contain the positions and orientations of all the polygons at each frame, along with the simulation box size. The trajectory file names identify the packing fraction of that simulation run.
    Citation to related publication:
    Anderson, J.A., Antonaglia, J., Millan, J.A., Engel, M., Glotzer, S.C., 2017. Shape and Symmetry Determine Two-Dimensional Melting Transitions of Hard Regular Polygons. Phys. Rev. X 7, 021001.  https://doi.org/10.1103/PhysRevX.7.021001
    Discipline:
    Engineering
    Title:
    Equilibrium configurations of hard polygons near the melting transition

  • Patient-specific modeling of right coronary circulation vulnerability post-liver transplant in Alagille’s syndrome

    Creator:
    Figueroa, C. Alberto
    Description:
    This information provides the data and commands to manually setup the computational simulations used in the PLOS ONE paper 'Patient-specific modeling of right coronary circulation vulnerability post-liver transplant in Alagille’s syndrome' using CRIMSON (CARDIOVASCULAR INTEGRATED MODELLING & SIMULATION) a prototype simulation environment developed under the support of the European Research Council (( http://www.crimson.software/)., Note that a Windows version of the CRIMSON flowsolver is provided as part of the CRIMSON Windows installer, but you will need a very powerful Windows computer to run these simulations, as the models used in the present work are extremely computationally-demanding. It is recommended that you use a Linux version of the CRIMSON flowsolver on a high-performance computer., Option 1 (ready-to-use files to immediately start the simulation): 1. Please unzip the Ready-to-use files. 2. Copy the folders of each of the three conditions to the high performance computer. 3. In addition to different codes used, each folder provides the boundary conditions applied in the simulations described in the manuscript (e.g. LPN parameters). To run the 3D simulations for each condition simply launch the it using the CRIMSON flowsolver. In addition, the solver.inp file can be modified to run a 0D "real-time simulation" (please open solver.inp with a text editor and modify line 4 "Simulate in Purely Zero Dimensions:" to "True")., Option 2 (using the MITK files): 1. Please download and install Crimson software ( http://www.crimson.software/). 2. Please unzip the MITK files and the Ready-to-use files. 3. From amongst the provided MITK files, load the MITK file of interest to CRIMSON (using the MITK files, additional changes can be made to the computational model in case the user wants to explore different settings/boundary conditions e.g. change the vascular wall properties, introducing a change in the geometry to create a virtual stenosis). 3. Navigate to the tree in the "Data Manager" panel and select the "Pulmonaries", "CRIMSON SOLVER" and then "Solver study 3D" items, in the described order. 4. In the right hand panel select the "CRIMSON Solver setup" tab and scroll down the right hand bar until to find the "Setup Solver" box; click to output the simulation files (faceInfo.dat, geombc.dat.1, multidomain.dat, netlist_surface.dat,numstart.dat, presolver folder, solver.inp, restart.0.1). 5. Copy and replace the geombc.dat.1 and restart.0.1 generated by CRIMSON for each individual condition to the respective unziped folder in the Ready-to-use file (discard the remaining files that were output by CRIMSON). Note that if you have not changed anything about the model (e.g. vascular wall properties), then doing this will produce restart.0.1 and geombc.dat.1 files which are identical to the ready-to-use versions. 6. Finally copy each Condition folder to the high performance computer and simply launch the simulation using the CRIMSON flowsolver., and For technical queries please contact  crimson-users@googlegroups.com. --October 2018.
    Citation to related publication:
    Silva Vieira M, Arthurs CJ, Hussain T, Razavi R, Figueroa CA (2018) Patient-specific modeling of right coronary circulation vulnerability post-liver transplant in Alagille’s syndrome. PLOS ONE 13(11): e0205829.  https://doi.org/10.1371/journal.pone.0205829
    Discipline:
    Engineering and Health Sciences
    Title:
    Patient-specific modeling of right coronary circulation vulnerability post-liver transplant in Alagille’s syndrome

  • Dataset of test instances of Markov decision processes with multiple models

    Creator:
    Ahluwalia, Vinayak S., Steimle, Lauren N., and Denton, Brian T.
    Description:
    This repository includes test instances of infinite-horizon Markov decision processes with multiple models of parameters (i.e., "Multi-model Markov decision processes"). We generated each test instance in the dataset using a Python script. The test instances can be read in using the provided C++ and Python script. See the README for details.
    Keyword:
    Markov decision processes, mixed-integer programming, stochastic programming, and dynamic programming
    Citation to related publication:
    Ahluwalia, Steimle, and Denton. "Policy-based branch-and-bound for infinite-horizon Multi-model Markov decision processes". 2020.
    Discipline:
    Engineering
    Title:
    Dataset of test instances of Markov decision processes with multiple models

  • Simulation Code for "On the importance of the hip abductors during a clinical one legged balance test: a theoretical study"

    Creator:
    Payam Mirshams Shahshahani
    Description:
    The two R codes are related to the feasible balance region calculations for Figures 2, 3, and 4 in the paper. The MATLAB codes are related to the simulations of the recoverable initial quasi-static states, the results of which are shown in Figure 5 of the paper.
    Keyword:
    One-legged balance, Biomechanics, Hip Abductor, and Unipedal Stance
    Citation to related publication:
    On the importance of the hip abductors during a clinical one legged balance test: a theoretical study
    Discipline:
    Engineering and Health Sciences
    Title:
    Simulation Code for "On the importance of the hip abductors during a clinical one legged balance test: a theoretical study"

  • Belt fit Manikin Representing a Two-Year-Old Child

    Creator:
    Reed, Matthew P., Boyle, K.
    Description:
    This is the first physical anthropomorphic test device to be based both on statistical body shape models as well as 3D printing.
    Keyword:
    Child Belt Fit Manikin
    Citation to related publication:
    Reed, M.P. and Boyle, K.J. (2017). Development of a manikin representing a two‐year‐old child for belt‐fit measurement. Proc. 2017 IRCOBI Conference. Antwerp, Belgium.  https://trid.trb.org/view/1486130 and Kim, K.H., Jones, M.L.H., Ebert, S.M., Malik, L., Manary, M.A., Reed, M.P., and Klinich, K.D. (2015). Development of Virtual Toddler Fit Models for Child Safety Restraint Design. Technical Report UMTRI-2015-38. University of Michigan Transportation Research Institute, Ann Arbor, MI.
    Discipline:
    Engineering
    Title:
    Belt fit Manikin Representing a Two-Year-Old Child

  • Large Lake Statistical Water Balance Model - Laurentian Great Lakes - 1 month time window - 1980 through 2015 monthly summary data and model output

    Creator:
    Smith, Joeseph P., Gronewold, Andrew D., Read, Laura, Crooks, James L., School for Environment and Sustainability, University of Michigan, Department of Civil and Environmental Engineering, University of Michigan, and Cooperative Institute for Great Lakes Research
    Description:
    Using the statistical programming package R (  https://cran.r-project.org/), and JAGS (Just Another Gibbs Sampler,  http://mcmc-jags.sourceforge.net/), we processed multiple estimates of the Laurentian Great Lakes water balance components -- over-lake precipitation, evaporation, lateral tributary runoff, connecting channel flows, and diversions -- feeding them into prior distributions (using data from 1950 through 1979), and likelihood functions. The Bayesian Network is coded in the BUGS language. Water balance computations assume that monthly change in storage for a given lake is the difference between beginning of month water levels surrounding each month. For example, the change in storage for June 2015 is the difference between the beginning of month water level for July 2015 and that for June 2015., More details on the model can be found in the following summary report for the International Watersheds Initiative of the International Joint Commission, where the model was used to generate a new water balance historical record from 1950 through 2015:  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf. Large Lake Statistical Water Balance Model (L2SWBM):  https://www.glerl.noaa.gov/data/WaterBalanceModel/, and This data set has a shorter timespan to accommodate a prior which uses data not used in the likelihood functions.
    Keyword:
    Water, Balance, Great Lakes, Laurentian, Machine, Learning, Lakes, Bayesian, and Network
    Citation to related publication:
    Smith, J., Gronewald, A. et al. Summary Report: Development of the Large Lake Statistical Water Balance Model for Constructing a New Historical Record of the Great Lakes Water Balance. Submitted to: The International Watersheds Initiative of the International Joint Commission. Accessible at  https://www.glerl.noaa.gov/pubs/fulltext/2018/20180021.pdf, Large Lake Statistical Water Balance Model (L2SWBM).  https://www.glerl.noaa.gov/data/WaterBalanceModel/, and Gronewold, A.D., Smith, J.P., Read, L. and Crooks, J.L., 2020. Reconciling the water balance of large lake systems. Advances in Water Resources, p.103505.
    Discipline:
    Science and Engineering
    Title:
    Large Lake Statistical Water Balance Model - Laurentian Great Lakes - 1 month time window - 1980 through 2015 monthly summary data and model output

  • Supplementary Materials for "Crowdsourced Detection of Emotionally Manipulative Language"

    Creator:
    Huffaker, Jordan S., Kummerfeld, Jonathan K., Lasecki, Walter S., and Ackerman, Mark S.
    Description:
    The following files include supplementary materials for our CHI 2020 paper "Crowdsourced Detection of Emotionally Manipulative Language". Namely, these materials include the dataset that was used in the evaluation. See the paper for more details.
    Keyword:
    Crowdsourcing, Media Manipulation, Rhetoric, and Emotion
    Citation to related publication:
    J.S. Huffaker, J.K. Kummerfeld, W.S. Lasecki, M.S. Ackerman. Crowdsourced Detection of Emotionally Manipulative Language. In Proceedings of the ACM Conference on Human Factors in Computing Systems (CHI 2020). Honolulu, HI. 2020.
    Discipline:
    Engineering
    Title:
    Supplementary Materials for "Crowdsourced Detection of Emotionally Manipulative Language"

  • Downloaded IAAF Sprint Results in all Heats for 2004 - 2016 Olympics for both Men and Women

    Creator:
    Mirshams Shahshahani, Payam
    Description:
    Investigating minimum human reaction times is often confounded by the motivation, training, and state of arousal of the subjects. We used the reaction times of athletes competing in the shorter sprint events in the Athletics competitions in recent Olympics (2004-2016) to determine minimum human reaction times because there's little question as to their motivation, training, or state of arousal. The reaction times of sprinters however are only available on the IAAF web page for each individual heat, in each event, at each Olympic. Therefore we compiled all these data into two separate excel sheets which can be used for further analyses.
    Keyword:
    minimum reaction time, sprinter, Olympics, Athletics, sex difference, starting block, and false start
    Citation to related publication:
    Mirshams Shahshahani P, Lipps DB, Galecki AT, Ashton-Miller JA (2018) On the apparent decrease in Olympic sprinter reaction times. PLoS ONE 13(6): e0198633.  https://doi.org/10.1371/journal.pone.0198633
    Discipline:
    Science, General Information Sources, Engineering, Other, and Health Sciences
    Title:
    Downloaded IAAF Sprint Results in all Heats for 2004 - 2016 Olympics for both Men and Women

  • Statistics and Visualization of Point-Patterns

    Creator:
    Stoev, Stilian and Hu, Weifeng
    Description:
    Many data sets come as point patterns of the form (longitude, latitude, time, magnitude). The examples of data sets in this format includes tornado events, origins/destination of internet flows, earthquakes, terrorist attacks and etc. It is difficult to visualize the data with simple plotting. This research project studies and implements non-parametric kernel smoothing in Python as a way of visualizing the intensity of point patterns in space and time. A two-dimensional grid M with size mx, my is used to store the calculation result for the kernel smoothing of each grid points. The heat-map in Python then uses the grid to plot the resulting images on a map where the resolution is determined by mx and my. The resulting images also depend on a spatial and a temporal smoothing parameters, which control the resolution (smoothness) of the figure. The Python code is applied to visualize over 56,000 tornado landings in the continental U.S. from the period 1950 - 2014. The magnitudes of the tornado are based on Fujita scale.
    Citation to related publication:
    Hu, Weifeng. “Kernel-based Visualization of Point Patterns in Python with Application to Tornado Landing Data.” (2016). At  https://www.semanticscholar.org/paper/Kernel-based-Visualization-of-Point-Patterns-in-to-Hu/0de06a6db39da54fe28f8d0cb47c0d3270f2f831
    Discipline:
    Science and Engineering
    Title:
    Statistics and Visualization of Point-Patterns

  • Data Files for Real-Time Energy Disaggregation of a Distribution Feeder's Demand

    Creator:
    Mathieu, Johanna L, Balzano, Laura, and Ledva, Gregory S
    Description:
    This data set contains the relevant time series for constructing and testing electricity load models within the related paper. The files within are a '.mat' file that contains the data and a 'readme.txt' file detailing the contents of the data.
    Keyword:
    Output feedback, Online learning, Machine learning, Real-time filtering, and Energy disaggregation
    Citation to related publication:
    Ledva, G.S., Balzano, L., Mathieu, J.L., 2018. Real-Time Energy Disaggregation of a Distribution Feeder’s Demand Using Online Learning. IEEE Trans. Power Syst. 33, 4730–4740. Accessible at  https://arxiv.org/abs/1701.04389 and  https://doi.org/10.1109/TPWRS.2018.2800535
    Discipline:
    Engineering
    Title:
    Data Files for Real-Time Energy Disaggregation of a Distribution Feeder's Demand

  • FCAV Simulation Dataset

    Creator:
    Vasudevan, Ram, Barto, Charles, Rosaen, Karl, Mehta, Rounak, Matthew, Johnson-Roberson, and Nittur Sridhar, Sharath
    Description:
    A dataset for computer vision training obtained from long running computer simulations
    Keyword:
    autonomous driving, simulation, Computer Vision and Pattern Recognition, deep learning, Computer Science, object detection, and Robotics
    Citation to related publication:
    M. Johnson-Roberson, C. Barto, R. Mehta, S. N. Sridhar, K. Rosaen and R. Vasudevan, "Driving in the Matrix: Can virtual worlds replace human-generated annotations for real world tasks?," 2017 IEEE International Conference on Robotics and Automation (ICRA), Singapore, 2017, pp. 746-753. Available at  https://arxiv.org/abs/1610.01983 and  https://doi.org/10.1109/ICRA.2017.7989092
    Discipline:
    Engineering
    Title:
    FCAV Simulation Dataset

  • Big Ship Data: Pre- and Post-Processed Spatiotemporal Data for 2006-2014 for Great Lakes Air Temperature, Dew Point, Surface Water Temperature, and Wind Speed

    Creator:
    Fries, Kevin J.
    Description:
    This data is in support of the WRR paper by Fries and Kerkez: Big Ship Data: Using Vessel Measurements to Improve Estimates of Temperature and Wind Speed on the Great Lakes Code is also provided
    Keyword:
    Gaussian process regression, Data integration, Wind speed, Water surface temperature, and Air temperature
    Citation to related publication:
    Fries, K., and B. Kerkez (2017), Big Ship Data: Using vessel measurements to improve estimates of temperature and wind speed on the Great Lakes, Water Resour. Res., 53, 3662–3679,  http://doi.org/10.1002/2016WR020084.
    Discipline:
    Engineering
    Title:
    Big Ship Data: Pre- and Post-Processed Spatiotemporal Data for 2006-2014 for Great Lakes Air Temperature, Dew Point, Surface Water Temperature, and Wind Speed

  • Mars Thermospheric Neutral Winds: Mars Global Ionosphere-Thermosphere Model (M-GITM) Simulated Datasets for Comparison to MAVEN Spacecraft Measurements

    Creator:
    Bougher, Stephen W. (CLaSP Department, U. of Michigan) and Roeten, Kali J. (CLaSP Department, U. of Michigan)
    Description:
    The NASA MAVEN (Mars Atmosphere and Volatile Evolution) spacecraft, which is currently in orbit around Mars, has been taking monthly measurements of the speed and direction of the winds in the upper atmosphere of Mars between about 140 to 240 km above the surface. The observed wind speeds and directions change with time and location, and sometimes fluctuate quickly. These measurements 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. This is the first comparison between direct measurements of the winds in the upper atmosphere of Mars and simulated winds and is important because it can help to inform us what physical processes are acting on the observed winds. Some wind measurements have similar wind speeds or directions to those predicted by the M-GITM model, but sometimes, there are large differences between the simulated and measured winds. The disagreements between wind observations and model simulations suggest that processes other than normal solar forcing may become relatively more important during these observations and alter the expected circulation pattern. 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 provides key context for understanding how the atmosphere behaves as a whole system. A basic version of the M-GITM code can be found on Github as follows: https:/github.com/dpawlows/MGITM and About 30 Neutral Gas and Ion Mass Spectrometer (NGIMS) wind campaigns (of 5 to 10 orbits each) have been conducted by the MAVEN team (Benna et al., 2019). Five of these campaigns are selected for detailed study (Roeten et al. 2019). The Mars conditions for these five campaigns have been used to launch corresponding M-GITM code simulations, yielding 3-D neutral wind fields for comparison to these NGIMS wind observations. The M-GITM datacubes used to extract the zonal and meridional neutral winds, along the trajectory of each orbit path between 140 and 240 km, are provided in this Deep Blue Data archive. README files are provided for each datacube, detailing the contents of each file. A general README file is also provided that summarizes the inputs and outputs of the M-GITM code simulations for this study.
    Keyword:
    Mars, MAVEN spacecraft, Mars thermosphere, and Mars global upper atmosphere winds
    Citation to related publication:
    Roeten, K. J., Bougher, S. W., Benna, M., Mahaffy, P. R., Lee, Y., Pawlowski, D., et al. (2019). MAVEN/NGIMS thermospheric neutral wind observations: Interpretation using the M‐GITM general circulation model. Journal of Geophysical Research: Planets, 124, 3283– 3303.  https://doi.org/10.1029/2019JE005957
    Discipline:
    Science and Engineering
    Title:
    Mars Thermospheric Neutral Winds: Mars Global Ionosphere-Thermosphere Model (M-GITM) Simulated Datasets for Comparison to MAVEN Spacecraft Measurements

  • Magneto-inductive sensor characterization data

    Creator:
    Regoli, Leonardo H.
    Description:
    The data contained in the file comprises those collected during the characterization of the sensor as described in the article "Investigation of a low-cost magneto-inductive magnetometer for space science applications" (cited below). This includes:, Resolution , Stability , Linearity , and Frequency response
    Keyword:
    magnetometer, magnetic fields, CubeSat, and geomagnetic activity
    Citation to related publication:
    Regoli, L. H., Moldwin, M. B., Pellioni, M., Bronner, B., Hite, K., Sheinker, A., & Ponder, B. M.: Investigation of a low-cost magneto-inductive magnetometer for space science applications, Geosci. Instrum. Method. Data Syst., 7, 129-142,  https://doi.org/10.5194/gi-2017-53, 2018.
    Discipline:
    Engineering
    Title:
    Magneto-inductive sensor characterization data

  • UofM pouch cell voltage and expansion dataset and modeling code

    Creator:
    Mohtat, Peyman, Siegel, Jason B., and Stefanopoulou, Anna G.
    Description:
    The goal here is to study the voltage and expansion response of lithium-ion batteries at different charging rates. Specifically, the goal is to capture the observation of the smoothing of the peaks in dV/dQ and retention of the peaks in d^2 \delta/dQ^2 at higher C-rates. The retention of the peaks at higher charging rates enables better estimation of the cell capacity. To achieve this goal a reduced order electrochemical and mechanical model with multiple particles with a size distribution is developed. This allows us to capture the smoothing and preservation of the phase transitions in the voltage and expansion measurements at high C-rates, respectively. The model is written in Matlab software.
    Keyword:
    Lithium-ion batteries, Modeling, Multiparticle, Mechanical response, and Electrochemical
    Citation to related publication:
     https://doi.org/10.1149/1945-7111/aba5d1
    Discipline:
    Engineering
    Title:
    UofM pouch cell voltage and expansion dataset and modeling code

  • Data Fusion of AIS and LPMS data on the Great Lakes used to assess Maritime Transport Efficiency

    Creator:
    Sugrue, Dennis P.
    Description:
    This data was collected and processed as part of ongoing research to characterize waterway infrastructure performance in the Great Lakes. These dataset enable researchers to evaluate both travel time and vessel carrying capacity in the waterway., I assembled AIS data from the MarineCadastre website for UTM Zones 15-18 for the years 2015-2017 available in csv format. I combined files for Navigation Seasons, defined as March to January and clipped data for a set of predefined features using a python code (AIS Data Processor.ipynb). The code writes the appended and clipped files to csv for a single Navigation Year. The written files are submitted here: Trimmed_NY2015_new.csv (n=13,228,824); Trimmed_NY2016_new.csv (n=18,782,779); Trimmed_NY2017_new.csv (n=16,816,603), Data fusion of AIS and LPMS used the following algorithm for a subset of 30 vessels on the waterway. Let A be the original AIS data and let B be the subset of records for vessel i within geographic feature j. The script for this analysis is attached (Maritime Data Fusion.ipynb), For Connecting Channels and select segments of the Great Lakes: 1. Subset A for vessel i. Let B_i⊆A | 2. Subset B_i in geographic feature, Gj. Let B_ij⊆B_i | 3. Select tmin for each unique date or any consecutive dates, record as vessel i arrival to feature j, b_ijt | 4. IF feature j is a harbor or lock, select tmax for each unique date or any consecutive dates, record as departure from feature j, b_ijt | 5. Calculate time elapsed between features for each vessel, For vessel passage through the Soo Locks: 1. Subset A for vessel i. Let B_i⊆A | 2. Subset B_i in geographic boundaries (46.5<Lat<46.6, -84.4<Lon<-84.3). Let C_(i,lock)⊆B_i | 3. Select tmin for each unique date or any consecutive dates, record as arrival to Soo Locks | 4. Select tmax for each unique date or any consecutive dates, record as departure to Soo Locks | 5. Calculate time delta between arrival and departure times, and The merged dataset is included here along with the raw LPMS data: Merged_Data_new.csv (n=42,021), LPMS obscured.csv (n=55,342). VesselNames have been obscured in these datasets to protect proprietary information for shipping companies.
    Keyword:
    Maritime Transportation Efficiency, Data Fusion, Waterway Performance
    Citation to related publication:
    Sugrue, D., Adriaens, P. (in review) Multi-dimensional Data Fusion to Evaluate Waterway Performance: Maritime Transport Efficiency of Iron Ore on the Great Lakes. Water Resources Research.
    Discipline:
    Engineering
    Title:
    Data Fusion of AIS and LPMS data on the Great Lakes used to assess Maritime Transport Efficiency

  • Carbamazepine and GABA have distinct effects on seizure onset dynamics in mouse brain slices

    Creator:
    Crisp, Dakota N., Parent, Rachel, Nakatani, Mitsuyoshi, Murphy, Geoffrey G. , and Stacey, William C.
    Description:
    This data and scripts are meant to test and show that seizure onset dynamics can be modulated using anti-epileptic drugs. A zip file is included that contains all waveform data, MATLAB processing scripts, and metadata. The MATLAB scripts allow for visual review validation and objective feature analysis. The file includes various README files explaining the scripts and their relationships in greater detail.
    Keyword:
    Bifurcation, Epilepsy, Seizure, and Electrophysiology
    Discipline:
    Science, Engineering, and Health Sciences
    Title:
    Carbamazepine and GABA have distinct effects on seizure onset dynamics in mouse brain slices

  • Estimates of the water balance of the Laurentian Great Lakes using the Large Lakes Statistical Water Balance Model (L2SWBM)

    User Collection
    Creator:
    Smith, Joeseph P., Fry, Lauren M., Do, Hong X., and Gronewold, Andrew D.
    Description:
    This collection contains estimates of the water balance of the Laurentian Great Lakes that were produced by the Large Lakes Statistical Water Balance Model (L2SWBM). Each data set has a different configuration and was used as the supplementary for a published peer-reviewed article (see "Citations to related material" section in the metadata of individual data sets). The key variables that were estimated by the L2SWBM are (1) over-lake precipitation, (2) over-lake evaporation, (3) lateral runoff, (4) connecting-channel outflows, (5) diversions, and (6) predictive changes in lake storage. and Contact: Andrew Gronewold Office: 4040 Dana Phone: (734) 764-6286 Email:  drewgron@umich.edu
    Keyword:
    Great Lakes water levels, statistical inference, water balance, data assimilation, Great Lakes, Laurentian, Machine learning, Bayesian, and Network
    Citation to related publication:
    Smith, J. P., & Gronewold, A. D. (2017). Development and analysis of a Bayesian water balance model for large lake systems. arXiv preprint arXiv:1710.10161., Gronewold, A. D., Smith, J. P., Read, L., & Crooks, J. L. (2020). Reconciling the water balance of large lake systems. Advances in Water Resources, 103505., and Do, H.X., Smith, J., Fry, L.M., and Gronewold, A.D., Seventy-year long record of monthly water balance estimates for Earth’s largest lake system (under revision)
    Discipline:
    Engineering and Science
    5Works

  • Dataset for 'Formation of a three-phase spiral structure due to competitive growth of a peritectic phase with a metastable eutectic'

    Creator:
    Wang, Yeqing, Gao, Jianrong, Ren, Yang, De Andrade, Vincent, and Shahani, Ashwin J
    Description:
    The data file contains (1) the grayscale images of the nano-tomography experiments that can be segmented into binary images and visualized to show the 3D morphology of three-phase spiral eutectics; and (2) Scanning electron micro of solidified sample.
    Keyword:
    Zinc alloys, spiral structure, thermodynamic calculations, synchrotron X-ray diffraction, and synchrotron X-ray nano-tomography
    Discipline:
    Engineering
    Title:
    Dataset for 'Formation of a three-phase spiral structure due to competitive growth of a peritectic phase with a metastable eutectic'

  • Raw Rheology data in supplement to the 2019 Macromolecules publication: "Assessing the Range of Validity of Current Tube Models Through Analysis of a Comprehensive Set of Star-Linear 1,4-Polybutadiene Polymer Blends"

    Creator:
    Hall, Ryan J. and Larson, Ronald G.
    Description:
    This is data is a large assortment of over 50 1,4-polybutadiene star-linear blends that can be used for assessing and developing predictive models. The data are presented in CSV files.
    Keyword:
    polymers, rheology, star-linear polymer blends, and shear rheology
    Discipline:
    Science and Engineering
    Title:
    Raw Rheology data in supplement to the 2019 Macromolecules publication: "Assessing the Range of Validity of Current Tube Models Through Analysis of a Comprehensive Set of Star-Linear 1,4-Polybutadiene Polymer Blends"

  • X-ray tomography dataset for 'Caught in the act: The mechanism of eutectic modification by trace impurities'

    Creator:
    Moniri, Saman, Xiao, Xianghui, and Shahani, Ashwin J.
    Description:
    The data file is comprised of 22,500 X-ray projections (15 scans of 1500 projections each) recorded during solidification of Al-Ge-Na. The raw data file is in .hdf format and can be reconstructed into .tiff, e.g., by using the TomoPy toolbox in Python.
    Keyword:
    X-ray microtomography, synchrotron, in situ, 4D materials science, irregular eutectic, growth, and solidification
    Citation to related publication:
    Moniri, S., Xiao, X., & Shahani, A. J. (2019). The mechanism of eutectic modification by trace impurities. Scientific Reports, 9(1), 3381.  https://doi.org/10.1038/s41598-019-40455-3
    Discipline:
    Engineering
    Title:
    X-ray tomography dataset for 'Caught in the act: The mechanism of eutectic modification by trace impurities'

  • Three-Dimensional Body Shape Manikins of Young Children for Child Restraint Design

    Creator:
    Jones, Monica L.H.
    Description:
    These manikins represent body shape models for children weighing 9 to 23 kg in a seated posture relevant to child restraint design. The design of child restraints is guided in part by anthropometric data describing the distributions of body dimensions of children. However, three-dimensional body shape data have not been available for children younger than three years of age. These manikins will be useful for assessing child accommodation in restraints. The SBSM can also provide guidance for the development of anthropomorphic test devices and computational models of child occupants. The sampled manikins were predicted for a range of torso length and body weight dimensions. The SBSM model was exercised for two torso lengths and nine body weights to obtain 18 body shapes. The 3D shape models can be downloaded in a standard mesh format (PLY). Each body shape is accompanied by predicted landmark locations and standard anthropometric variables.
    Keyword:
    Child anthropometry, Child restraint system, Statistical body shape model, and Anthropomorphic testing device (ATD)
    Citation to related publication:
     http://childshape.org/toddler/manikins/ and Jones, M.L.H., Klinich, K.D., Ebert, S.M., Malik, L., Manary, M.A., and Reed, M.P. (2015). A Pilot Study of Toddler Anthropometry and Posture in Child Restraint Systems. Short Communications from AAAM's 59th Annual Scientific Conference, Traffic Injury Prevention, 16:sup2, S240-S243, DOI: 10.1080/15389588.2015.1073071  https://doi.org/10.1080/15389588.2015.1073071
    Discipline:
    Engineering
    Title:
    Three-Dimensional Body Shape Manikins of Young Children for Child Restraint Design

  • A Video-Based Intervention to Improve Belt Fit

    Creator:
    Jones, Monica L.H.
    Description:
    This study evaluated the performance of a video-based intervention for improving the belt fit obtained by drivers. Previous laboratory studies have demonstrated that some drivers position their seat belts suboptimally. Specifically, the lap portion of the belt may be higher and farther forward relative to the pelvis than best practice, and the shoulder portion of the belt may be outboard or inboard of mid-shoulder. A video was developed to present the most important aspects of belt fit best practices, with emphasis on the lap belt. The video demonstrated how a seat belt should be routed with respect to an individual’s anatomy to ensure a proper fit. The three key belt fit concepts conveyed in the video were: 1) Lap belt low on hips, touching the thighs. 2) Shoulder belt crossing middle of collarbone. 3) Belt snug, as close to bones as possible. Additional context about the ability to achieve to good belt fit, such as opening a heavy coat or adjusting the height adjusters on the B-pillar behind the windows, were also presented.
    Keyword:
    Safety, Seatbelt Fit, Intervention, and Evaluation
    Citation to related publication:
    Jones, M.L.H., Ebert, S.M., Buckley, L., Park, J., and Reed, M.P. (2016). Evaluating an Intervention to Improve Belt Fit for Drivers. Technical Report UMTRI 2016-12. University of Michigan Transportation Research Institute, Ann Arbor, MI. , Reed, M.P., Ebert-Hamilton, S.M. and Rupp, J.D. (2012). Effects of obesity on seat belt fit. Traffic Injury Prevention, 13(4):364-372.  https://doi.org/10.1080/15389588.2012.659363, Reed, M.P., Ebert, S.M. and Hallman, J.J. (2013). Effects of driver characteristics on seat belt fit. Stapp Car Crash Journal, 57:43-57.  https://pubmed.ncbi.nlm.nih.gov/24435726/, and Jones, M.L.H., Ebert, S.M., and Reed, M.P. (2015). Effects of High Levels of Obesity on Driver Seat Belt Fit. Advancing Transportation Leadership and Safety Technical Report ATLAS-2015-016. University of Michigan Transportation Research Institute, Ann Arbor, MI.  https://trid.trb.org/view/1427384  http://www.atlas-center.org/wp-content/uploads/2015/08/ATLAS-Final-Report-ATLAS-2016-15.pdf
    Discipline:
    Engineering
    Title:
    A Video-Based Intervention to Improve Belt Fit

  • Data-driven approaches to managing uncertain load control in sustainable power systems (project outputs)

    Creator:
    Bowen Li, Yiling Zhang, Siqian Shen, and Johanna Mathieu
    Description:
    The project outputs summarize all the publications, talks, and codes we accomplished under this NSF funding. In the project, we develop methodologies to manage uncertainty in future electric power systems and quantify how uncertainty affects power system sustainability. and Talks, papers, and poster in Deep Blue:  http://hdl.handle.net/2027.42/149653
    Keyword:
    chance constraint, distributionally robust optimization, optimal power flow, demand response, and unimodality
    Citation to related publication:
    B. Li and J. L. Mathieu, "Analytical reformulation of chance-constrained optimal power flow with uncertain load control," 2015 IEEE Eindhoven PowerTech, Eindhoven, 2015, pp. 1-6.  https://doi.org/10.1109/PTC.2015.7232803, B. Li, J. L. Mathieu and R. Jiang, "Distributionally Robust Chance Constrained Optimal Power Flow Assuming Log-Concave Distributions," 2018 Power Systems Computation Conference (PSCC), Dublin, 2018, pp. 1-7.  https://doi.org/10.23919/PSCC.2018.8442927, B. Li, M. Vrakopoulou and J. L. Mathieu, "Chance Constrained Reserve Scheduling Using Uncertain Controllable Loads Part II: Analytical Reformulation," in IEEE Transactions on Smart Grid, vol. 10, no. 2, pp. 1618-1625, March 2019.  https://doi.org/10.1109/TSG.2017.2773603, B. Li, R. Jiang and J. L. Mathieu, "Distributionally Robust Chance-Constrained Optimal Power Flow Assuming Unimodal Distributions With Misspecified Modes," in IEEE Transactions on Control of Network Systems, vol. 6, no. 3, pp. 1223-1234, Sept. 2019.  https://doi.org/10.1109/TCNS.2019.2930872, B. Li, R. Jiang and J. L. Mathieu, "Distributionally robust risk-constrained optimal power flow using moment and unimodality information," 2016 IEEE 55th Conference on Decision and Control (CDC), Las Vegas, NV, 2016, pp. 2425-2430.  https://doi.org/10.1109/CDC.2016.7798625, B. Li, S. D. Maroukis, Y. Lin and J. L. Mathieu, "Impact of uncertainty from load-based reserves and renewables on dispatch costs and emissions," 2016 North American Power Symposium (NAPS), Denver, CO, 2016, pp. 1-6.  https://doi.org/10.1109/NAPS.2016.7747830, G. Martínez, J. Liu, B. Li, J. L. Mathieu and C. L. Anderson, "Enabling renewable resource integration: The balance between robustness and flexibility," 2015 53rd Annual Allerton Conference on Communication, Control, and Computing (Allerton), Monticello, IL, 2015, pp. 195-202.  https://doi.org/10.1109/ALLERTON.2015.7447004, J. Liu, M. G. Martinez, B. Li, J. Mathieu and C. L. Anderson, "A Comparison of Robust and Probabilistic Reliability for Systems with Renewables and Responsive Demand," 2016 49th Hawaii International Conference on System Sciences (HICSS), Koloa, HI, 2016, pp. 2373-2380.  https://doi.org/10.1109/HICSS.2016.297, Li, B., Jiang, R. & Mathieu, J.L. "Ambiguous risk constraints with moment and unimodality information." Math. Program. 173, 151–192 (2019).  https://doi.org/10.1007/s10107-017-1212-x, M. Vrakopoulou, B. Li and J. L. Mathieu, "Chance Constrained Reserve Scheduling Using Uncertain Controllable Loads Part I: Formulation and Scenario-Based Analysis," in IEEE Transactions on Smart Grid, vol. 10, no. 2, pp. 1608-1617, March 2019.  https://doi.org/10.1109/TSG.2017.2773627, Y. Zhang, S. Shen and J. L. Mathieu, "Data-driven optimization approaches for optimal power flow with uncertain reserves from load control," 2015 American Control Conference (ACC), Chicago, IL, 2015, pp. 3013-3018.  https://doi.org/10.1109/ACC.2015.7171795, Y. Zhang, S. Shen and J. L. Mathieu, "Distributionally Robust Chance-Constrained Optimal Power Flow With Uncertain Renewables and Uncertain Reserves Provided by Loads," in IEEE Transactions on Power Systems, vol. 32, no. 2, pp. 1378-1388, March , and Y. Zhang, S. Shen, B. Li and J. L. Mathieu, "Two-stage distributionally robust optimal power flow with flexible loads," 2017 IEEE Manchester PowerTech, Manchester, 2017, pp. 1-6.  https://doi.org/10.1109/PTC.2017.7981202
    Discipline:
    Engineering
    Title:
    Data-driven approaches to managing uncertain load control in sustainable power systems (project outputs)

  • Dataset of live-cell movies of single PolC-PAmCherry molecules in Bacillus subtilis cells with high and low fluorescent backgrounds.

    Creator:
    Isaacoff, Benjamin P., Li, Yilai, Lee, Stephen A., and Biteen, Julie S.
    Description:
    This is the experimental data referenced in our manuscript entitled “SMALL-LABS: An algorithm for measuring single molecule intensity and position in the presence of obscuring backgrounds .” These live-cell single-molecule imaging movies were used as a test of the SMALL-LABS single-molecule image analysis algorithm. The dataset comprises two movies; each one is provided both as a .tif stack and as an .avi file. The movie called “low_bg” has a standard low background, and the movie called “high_bg” includes a high fluorescent background produced by an external 488-nm laser.
    Keyword:
    single-molecule, microscopy, image analysis, mirobiology, and bacteria
    Citation to related publication:
    B.P. Isaacoff, Y. Li, S.A. Lee, J.S. Biteen, "SMALL-LABS: Measuring Single-Molecule Intensity and Position in Obscuring Backgrounds." Biophysical Journal, 975-982, 116, 2019.  https://doi.org/10.1016/j.bpj.2019.02.006
    Discipline:
    Engineering and Science
    Title:
    Dataset of live-cell movies of single PolC-PAmCherry molecules in Bacillus subtilis cells with high and low fluorescent backgrounds.

  • Michigan Indoor Corridor Dataset

    Creator:
    Tsai, Grace and Kuipers, Benjamin
    Description:
    ******Michigan Indoor Corridor 2012 Dataset****** This dataset is made available for research purpose only. Please contact Grace Tsai( gstsai@umich.edu) for any questions or comments. This dataset was used to produce the results in our IROS 2012 paper. If you use the data, please cite the following reference in your publications related to this work: Grace Tsai and Benjamin Kuipers Dynamic Visual Understanding of the Local Environment for an Indoor Navigating Robot International Conference on Intelligent Robots and Systems (IROS'12) October 2012 The dataset contains 4 video sequences acquired with camera mounted on a wheeled vehicle. The camera was set-up so that there was zero tilt and roll angle with respect to the ground. The camera has a fixed height (0.47 m) with the ground throughout the video. The intrinsic parameters of the cameras are: Focal length fc = [ 1389.182714 1394.598277 ] Principal point cc = [ 672.605430 387.235803 ] The distortion of the camera has been corrected. For each video sequences, an estimated camera pose in each frame of the video is provided in the file pose.txt. Each line in the file looks like: <frame index> <x (pose)> <y (pose)> <theta (pose)> Note the camera poses provided here are estimated by using an occupancy grid mapping algorithm with a laser range finder to obtain the robot pose. The dataset provides a ground truth labeling for all the pixels every 10 frames for each video. The labels of each frame is stored as a 2D matrix in a .mat file. The filename of each .mat file corresponds to the image frame. The labels can be interpreted as followed: -2 -> ceiling plane -1 -> ground plane >0 -> walls The labels of the walls are illustrated in a .pdf figure. Note the figure is only a illustration graph, not an actual floor plan.
    Keyword:
    Robotics and Computer vision
    Citation to related publication:
    Grace Tsai and Benjamin Kuipers "Dynamic Visual Understanding of the Local Environment for an Indoor Navigating Robot" International Conference on Intelligent Robots and Systems (IROS'12) October 2012  https://doi.org/10.1109/IROS.2012.6385735
    Discipline:
    Engineering
    Title:
    Michigan Indoor Corridor Dataset

  • Unused Pharmaceutical Disposal Model

    Creator:
    Skerlos, Steven J.
    Description:
    Supporting Information for research article "Life cycle comparison of environmental emissions from three disposal options for unused pharmaceutical". This spreadsheet provides the calculations and values used for this study; please refer to the manuscript and supporting information (as text) available at  http://dx.doi.org/10.1021/es203987b for details about how to use this spreadsheet. We use life cycle assessment methodology to compare three disposal options for unused pharmaceuticals: (i) incineration after take-back to a pharmacy, (ii) wastewater treatment after toilet disposal, and (iii) landfilling or incineration after trash disposal. For each option, emissions of active pharmaceutical ingredients to the environment (API emissions) are estimated along with nine other types of emissions to air and water (non-API emissions). Under a scenario with 50% take-back to a pharmacy and 50% trash disposal, current API emissions are expected to be reduced by 93%. This is within 6% of a 100% trash disposal scenario, which achieves an 88% reduction. The 50% take-back scenario achieves a modest reduction in API emissions over a 100% trash scenario while increasing most non-API emissions by over 300%. If the 50% of unused pharmaceuticals not taken-back are toileted instead of trashed, all emissions increase relative to 100% trash disposal. Evidence suggests that 50% participation in take-back programs could be an upper bound. As a result, we recommend trash disposal for unused pharmaceuticals. A 100% trash disposal program would have similar API emissions to a take-back program with 50% participation, while also having significantly lower non-API emissions, lower financial costs, higher convenience, and higher compliance rates.
    Citation to related publication:
    Cook, Sherri M., Bryan J. VanDuinen, Nancy G. Love, and Steven J. Skerlos. “Life Cycle Comparison of Environmental Emissions from Three Disposal Options for Unused Pharmaceuticals.” Environmental Science & Technology 46, no. 10 (May 15, 2012): 5535–41.  https://doi.org/10.1021/es203987b
    Discipline:
    Engineering
    Title:
    Unused Pharmaceutical Disposal Model

  • Multi-Stage Attack Graph Security Games: Heuristic Strategies, with Empirical Game-Theoretic Analysis --- Dataset

    Creator:
    Nguyen, Thanh H., Wright, Mason, Wellman, Michael P., and Singh, Satinder
    Description:
    In this work , we study the problem of allocating limited security countermeasures to protect network data from cyber-attacks, for scenarios modeled by Bayesian attack graphs. We consider multi-stage interactions between a network administrator and cybercriminals, formulated as a security game. We propose parameterized heuristic strategies for the attacker and defender and provide detailed analysis of their time complexity. Our heuristics exploit the topological structure of attack graphs and employ sampling methods to overcome the computational complexity in predicting opponent actions. Due to the complexity of the game, we employ a simulation-based approach and perform empirical game analysis over an enumerated set of heuristic strategies. Finally, we conduct experiments in various game settings to evaluate the performance of our heuristics in defending networks, in a manner that is robust to uncertainty about the security environment.
    Keyword:
    Empirical Game-Theoretic Analysis, Multi-stage Security Games, Attack Graph, Game Theory, and Moving Target Defense
    Citation to related publication:
    Nguyen, T. H., Wright, M., Wellman, M. P., & Singh, S. (2017). Multi-stage attack graph security games: Heuristic strategies, with empirical game-theoretic analysis. In MTD 2017 - Proceedings of the 2017 Workshop on Moving Target Defense, co-located with CCS 2017 (Vol. 2017-January, pp. 87-97). Association for Computing Machinery, Inc.  https://doi.org/10.1145/3140549.3140562
    Discipline:
    Engineering and Science
    Title:
    Multi-Stage Attack Graph Security Games: Heuristic Strategies, with Empirical Game-Theoretic Analysis --- Dataset

  • TCCIII Near-Wall Flow

    Creator:
    Sick, Volker , Reuss, David L, and Greene, Mark L
    Description:
    This archive contains data files from spark-ignited homogeneous combustion internal combustion engine experiments. Included are high-resolution two-dimensional two-component velocity fields acquired at two 5 x 6 mm regions, one near the head and one near the piston. Crank angle resolved heat flux measurements were made at a third location in the head. The engine was operated at 40 kPa, 500 and 1300 RPM, motor and fired. Included are in-cylinder pressure measurements, external pressure and temperature data, as well as details on the geometry of the optical engine to enable setups of simulation configurations.
    Keyword:
    combustion, internal combustion engine, heat Transfer, particle image velocimetry, in-cylinder flow, TCC III engine , optical engine, CFD validation, PIV, boundary layer, and turbulence
    Citation to related publication:
    Discipline:
    Engineering
    Title:
    TCCIII Near-Wall Flow

  • Semantic-Based Document Retrieval Using Spatial Distributions of Concepts

    Creator:
    Grosky, William I. and Ruas, Terry L.
    Description:
    This dataset was used for a proof-of-concept of fixed lexical chain approach for semantic information retrieval.
    Keyword:
    fixed lexical chains
    Citation to related publication:
    Ruas, T. L., & Grosky, W. I. (2017). Exploring and expanding the use of lexical chains in information retrieval. Ann Arbor: University of Michigan. Retrieved from the Deep Blue institutional repository website:  http://dx.doi.org/10.3998/2027.42/136659
    Discipline:
    Engineering
    Title:
    Semantic-Based Document Retrieval Using Spatial Distributions of Concepts

  • Effects of Age-Associated Regional Changes in Aortic Stiffness on Human Hemodynamics Revealed by Computational Modeling

    Creator:
    Figueroa, C. Alberto
    Description:
    Magnetic resonance angiography (MRA) of the aorta of a 30 yo healthy volunteer, segmented and discretized using the software CRIMSON ( www.crimson.software). Additionally, models corresponding to virtually-aged aortic geometries at ages: 40, 60, and 75.
    Keyword:
    Pulse Wave Velocity, Blood flow modeling, Hypertension, and Aging
    Citation to related publication:
    Cuomo F, Roccabianca S, Dillon-Murphy D, Xiao N, Humphrey JD, Figueroa CA (2017) Effects of age-associated regional changes in aortic stiffness on human hemodynamics revealed by computational modeling. PLoS ONE 12(3): e0173177.  https://doi.org/10.1371/journal.pone.0173177
    Discipline:
    Engineering
    Title:
    Effects of Age-Associated Regional Changes in Aortic Stiffness on Human Hemodynamics Revealed by Computational Modeling

  • TCCIII Fired Full View

    Creator:
    Schiffmann, Philipp, Sick, Volker, and Reuss, David L
    Description:
    This archive contains data files from spark-ignited homogenous combustion internal combustion engine experiments. Included are two-dimensional two-component velocity fields from various measurement planes with maximized field of view, in-cylinder pressure measurements, external pressure and temperature data, as well as details on the geometry of the optical engine to enable setups of simulation configurations. Fired operation was with stoichiometric propane air, 40kPa MAP, at 1300 RPM.
    Keyword:
    TCC III engine, internal combustion engine, particle image velocimetry, in-cylinder flow, turbulence in engines, CFD validation data, cyclic variability, optical engine, combustion variability, and PIV
    Citation to related publication:
    dx.doi.org/10.1177/1468087417720558
    Discipline:
    Engineering
    Title:
    TCCIII Fired Full View

  • TCCIII Fired Spark Plug Region

    Creator:
    Schiffmann, Philipp, Sick, Volker, and Reuss, David L
    Description:
    This archive contains data files from spark-ignited homogenous combustion internal combustion engine experiments. Included are two-dimensional two-component velocity fields acquired in a small, high-resolution field of view near the spark plug, and images of hydroxyl radical chemiluminescence recording the early flame-kernel growth. Included are in-cylinder pressure measurements, external pressure and temperature data, as well as details on the geometry of the optical engine to enable setups of simulation configurations. Included are tables of one-per-cycle parameters for each test with methane or propane at stoichiometric, dilute limit, lean limit, and rich limit, operation conducted at 40kPa and 1300 RPM.
    Keyword:
    OH* imaging, TCC III engine, internal combustion engine, particle image velocimetry, in-cylinder flow, turbulence in engines, CFD validation data, cyclic variability, early flame kernel growth, optical engine, combustion variability, ignition, and PIV
    Citation to related publication:
    dx.doi.org/10.1177/1468087417720558
    Discipline:
    Engineering
    Title:
    TCCIII Fired Spark Plug Region

  • TCCIII Motored Full View

    Creator:
    Schiffmann, Philipp, Sick, Volker, and Reuss, David L
    Description:
    This archive contains data files from motored internal combustion engine experiments. Included are two-dimensional two-component velocity fields from four measurement planes with maximized field of view. in-cylinder pressure measurements, external pressure and temperature data, as well as details on the geometry of the optical engine to enable setups of simulation configurations. Motored operating conditions include 40kPa and 90kPa MAP, 800 and 1300 RPM.
    Keyword:
    TCC III engine, internal combustion engine, particle image velocimetry, in-cylinder flow, turbulence in engines, CFD validation data, motored engine, optical engine, cyclic variability , and PIV
    Citation to related publication:
     http://dx.doi.org/10.2516/ogst/2015028
    Discipline:
    Engineering
    Title:
    TCCIII Motored Full View