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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:
- Science and Engineering
5Works -
S’Urachi Site-Based Archaeological Survey
User Collection
- Creator:
- Gosner, Linda R.
- Description:
- This data was produced by the site-based archaeological survey at the nuraghe S'Urachi in west-central Sardinia (San Vero Milis, Oristano, Sardinia). The survey was carried out from 2015-2017 as a part of the ongoing Progetto S'Urachi, an archaeological project that aims to understand daily life around the monumental Bronze Age tower of S'Urachi during the later occupation of the landscape over the course of the 1st millennium BCE.
- Keyword:
- Mediterranean archaeology, Sardinia, Archaeological Survey, Excavation, and Classical Archaeology
- Discipline:
- Social Sciences
2Works -
- 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 -
Lu-177 DOTATATE Anonymized Patient Datasets
User Collection
- Creator:
- Dewaraja, Yuni K and Van, Benjamin J
- Description:
- This collection is comprised of a number of works that collectively represent the imaging studies and information necessary for dosimetric analysis of a patient treated with Lutathera. All works may be used as standalone datasets or in conjunction with the others in this collection depending on the analysis performed. Files are stored using the DICOM standard widely accepted for storage and transmission of medical images and related information. All patient private information has been anonymized using MIM commercial software (MIM Software Inc.). Data from 2 patients, referred to as patient 4 and patient 6, has been provided in this collection and is divided among 6 works as outlined below:, 1) Pre-Therapy Diagnostic Images. Description: Patient diagnostic scans performed prior to Lutathera treatment. Used for identifying lesions and measuring progression. Note that the date of the baseline scan may be several months before the Lutathera treatment and changes in the anatomy are possible. Files: (1) Ga68 Dotatate PET/CT, Either: (1) MRI, (1) standalone diagnostic CT, 2) Planar Whole Body Scans. Description: Planar whole body Lu-177 scans taken at 4 time points within a week after treatment. Two views (Anterior and Posterior) and 3 energy windows (one main window at 208 keV and 2 adjacent scatter windows) are available for each time point. The units of this image is counts. Energy window information, acquisition data/time and duration can be found in DICOM header. Files: (6) individual images at each time point (24 total images per patient) , 3) SPECT/CT Scans. Description: Lu-177 SPECT/CT scans at 4 time points within a week after treatment (same time points as the planar scans). Images were acquired on a Siemens Intevo system and reconstructed using xSPECT Quant. The units of this image is Bq/mL. Information on the reconstruction, acquisition date/time, duration, Lu-177 administration time and activity can be found in the DICOM header. Files: (1) Folder with reconstructed SPECT slices per time point (4 folders total per patient), (1) Folder containing co-registered CT slices per time point (4 folders total per patient), 4) Lesion and Organ Volumes of Interest. Description: DICOM RT structure files containing organ and lesion volumes of interest (VOI) that were defined on the CT of the scan1 SPECT/CT in 3). Organs were defined using semi-automatic tools (atlas based and CNN-based) while lesions were defined manually by a radiologist guided by baseline scans. Only lesions >2 cc were defined. Files: (1) File containing organ contours, (1) File containing lesion contours, 5) Time Integrated Activity Maps. Description: A DICOM file containing the time-integrated activity map over all 4 time points within a week after treatment. This combines the SPECT/CT scans provided in 3) into a single integrated activity map. This map was generated via the MIM MRT Dosimetry package: The 4 time points were registered to the reference SPECT scan (time point 1) using a contour intensity based SPECT alignment and the voxel-level time-activity data was fit using exponential functions. Voxel-level integration was performed to generate the TIA map. The units of this image is Bq/mL * sec. Files: (1) Folder with Time-integrated activity image per patient, and 6) Projection Data and CT based Attenuation Coefficient Maps. Description: SPECT projection data for each of the 4 Lutathera scans taken within a week after treatment is provided in 3 forms: unaltered, Siemens [Reformatted], and Siemens [Advanced]. The difference between the Projections and the [Advanced] Projections is that the [Advanced] consists of uncorrected raw projection data and the other the corrected projection data (e.g. camera uniformity corrections). The [Advanced] projections are used in xSPECT reconstruction (where all corrections are done during the reconstruction), while the other is used in Flash 3D reconstruction. CT-based attenuation coefficient maps (mumaps) are provided for each of the 4 scans taken within a week after treatment. Two methods are provided for each mumap: xSPECT and F3D as the matrix size is different for the 2 cases (256 x 256 for xSPECT and 128 x 128 for Flash3D). Files: (3) Folders containing raw SPECT projections, (2) Folders containing CT attenuation coefficient maps (mumaps)
- Keyword:
- Lu-177, Lutathera, Dosimetry, Radionuclide, and CTMRIPET
- Discipline:
- Health Sciences
6Works -
- Creator:
- Figueroa, Carlos A., Computational Vascular Biomechanics Lab, University of Michigan, and et al.
- Description:
- This collection concerns the CRIMSON (CardiovasculaR Integrated Modelling and SimulatiON) software environment. CRIMSON provides a powerful, customizable and user-friendly system for performing three-dimensional and reduced-order computational haemodynamics studies via a pipeline which involves: 1) segmenting vascular structures from medical images; 2) constructing analytic arterial and venous geometric models; 3) performing finite element mesh generation; 4) designing, and 5) applying boundary conditions; 6) running incompressible Navier-Stokes simulations of blood flow with fluid-structure interaction capabilities; and 7) post-processing and visualizing the results, including velocity, pressure and wall shear stress fields. , The minimum specifications to run CRIMSON are: Any AMD64 CPU (note: Intel Core i series are AMD64), Windows (only tested on Windows 10 but might work on Windows 7), 8 GB of RAM , If you are running non-trivial models you will want to have: Quad core CPU or higher, Solid state drive for storing data, Windows, 16 GB of RAM, Dedicated discrete GPU for rendering models. , and Software in this collection is a snapshot; please visit https://github.com/carthurs/CRIMSONGUI & www.crimson.software for more general information and the most up to date version of the software.
- Keyword:
- Blood Flow Simulation, Patient-specific, Open-source Software, Image-based simulation, Cardiovascular Medical Image, Segmentation, and Finite Element Simulation
- Citation to related publication:
- CRIMSON: An Open-Source Software Framework for Cardiovascular Integrated Modelling and Simulation C.J. Arthurs, R. Khlebnikov, A. Melville, et al. bioRxiv 2020.10.14.339960; doi: https://doi.org/10.1101/2020.10.14.339960
- Discipline:
- Health Sciences and Engineering
4Works -
Biologically Inspired Robotics and Dynamical Systems (BIRDS) Lab
User Collection
- Creator:
- Revzen, Shai
- Description:
- Professor Revzen and his team at the Biologically Inspired Robotics and Dynamical Systems (BIRDS) Lab are working on discovering, modeling, and reproducing the strategies animals use when interacting with physical objects. This work consists of collaboration with biomechanists to analyze experimental data, developing new mathematical tools for modeling and estimation of model parameters, and construction of robots which employ the new principles.
- Discipline:
- Science
7Works -
- Creator:
- Hatch, Nan E.
- Description:
- Craniosynostosis is the premature fusion of cranial bones. The goal of this study was to determine if delivery of recombinant tissue nonspecific alkaline phosphatase (TNAP) could prevent or diminish the severity of craniosynostosis in a C57BL/6 FGFR2C342Y/+ model of neonatal onset craniosynostosis or a BALB/c FGFR2C342Y/+ model of postnatal onset craniosynostosis. Mice were injected with a lentivirus encoding a mineral targeted form of TNAP immediately after birth. Cranial bone fusion as well as cranial bone volume, mineral content and density were assessed by micro computed tomography. Craniofacial shape was measured with calipers., Alkaline phosphatase, alanine amino transferase (ALT) and aspartate amino transferase (AST) activity levels were measured in serum. Neonatal delivery of TNAP diminished craniosynostosis severity from 94% suture obliteration in vehicle treated mice to 67% suture obliteration in treated mice, p<0.02) and the incidence of malocclusion from 82.4% to 34.7% (p<0.03), with no effect on cranial bone in C57BL/6 FGFR2C342Y/+ mice. In contrast, treatment with TNAP improved cranial bone volume (p< 0.01), density (p< 0.01) and mineral content (p< 0.01) but had no effect on craniosynostosis or malocclusion in BALB/c FGFR2C342Y/+ mice. , These results indicate that post-natal recombinant TNAP enzyme therapy diminishes craniosynostosis severity in the C57BL/6 FGFR2C342Y/+ neonatal onset mouse model of Crouzon syndrome, and that effects of exogenous TNAP are genetic background dependent., and Included in this collection is one set of images representing the C57BL/6 FGFR2C342Y/+ model of neonatal onset craniosynostosis, and one for the BALB/c FGFR2C342Y/+ model of postnatal onset craniosynostosis
- Keyword:
- craniofacial, bone, craniosynostosis, FGFR2, TNAP, mouse model, and development
- Discipline:
- Health Sciences
2Works -
Site Data
User Collection
- Creator:
- Galaty, Michael
- Description:
- This sub-collection includes Photographs and Photologs of the sites, a Site Database with information collected and observed about the site and Site documentation. Documentation consists of PDFs of scans of miscellaneous documents related to a particular site, including maps, wall drawings, original notes, etc. Data are organized according to site number: S001, S002, etc. There are 17 sites in total.
- Keyword:
- archaeology
- Discipline:
- Science
3Works -
Gajtan
User Collection
- Creator:
- Galaty, Michael
- Description:
- The following works contain the databases, field notebooks, unit and profile drawings, photographs, photo descriptions, radiocarbon dates, and geophysical survey data related to the Gajtan settlement excavation.
- Keyword:
- archaeology
- Discipline:
- Science and Humanities
5Works -
Radionuclide PET/CT, SPECT/CT, and Contours Collection
User Collection
- Creator:
- Van, Benjamin and Dewaraja, Yuni
- Description:
- Interest in quantitative imaging of Y-90 and Lu-177 is growing due to their increased use as minimally invasive treatments for primary and metastatic tumors such as HCC and NETs. Accurate quantification of the 3D activity distribution for voxel-level dosimetry requires SPECT/CT and PET/CT imaging. This collection provides research access to anonymized PET/CT and SPECT/CT scans along with the relevant lesion/organ contours taken from University of Michigan clinical research studies of selected patients undergoing radionuclide treatments. All patients signed an informed consent to participate in the research studies. See the readme in each dataset for information on use and citation of this data.
- Discipline:
- Health Sciences
1Works