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Mali flora images
User Collection
- Creator:
- Heath, Jeffrey G.
- Description:
- These images of plants, in nature or as fresh or dried specimens, were made in conjunction with research on languages of the Dogon and Bozo families, along with the isolated language Bangime, in Central Mali between 2006 and 2023. (See also the work "Dogon and Bangime flora terms from central Mali (2023)" in Deep Blue Data: https://doi.org/10.7302/34vf-jk03. The late Pierre Poilecot of CNRS (Montpellier, France) provided invaluable help in the early days. However, I am responsible for the determinations (including taxonomic updates), and I am not a professional botanist. The images range from poor to excellent technical quality. They may be of use for two purposes: a) acquiring a basic knowledge of the flora of the area, for newcomers; b) as vouchers for the determinations in my lexical spreadsheets on the various languages. While the main burst of taxonomic changes due to molecular studies has probably leveled off as of 2023, some revisions at all levels (family, genus, species) will occur over time. The African Flowering Plant Database at url https://africanplantdatabase.ch is especially useful for updates/synonymies at the species level, but tends to lag behind on revisions at the family level. You can also consult the Practical identification guide to plants of northern and east-central Mali, compiled from the literature, in Deep Blue Documents at https://dx.doi.org/10.7302/8631., Each "work" for flowering plants in this collection has the title "Mali flora images X" where X is the name of a botanical family. Users who enter at the collection level should search by family (from Acanthacaceae to Zypɣophyllaceae). Large families Poaceae, Malvaceae, and Fabaceae are divided into two or more works, but they will all show up in search results for the family. There is one work for non-flowering plants with title "Mali aa fern fungus lichen images"., Within each work, the individual images have file names like these: fl_Amaranthaceae_Celosia_trigyna_Beni_10_2011_fl_50035_JH.JPG fl_Lamiaceae_Hoslundia_opposita_Barato_09_2021_piripirinaw_03_fol_fr_JH.JPG fl_Zygophyllaceae_Tribulus_terrestris_Sevare_patch_50672_JH.tif fl_Fabaceae_Caesalpinioideae_mimosoid_Vachellia_(or_Acacia)_nilotica fuwON_1_Barato_09_2021_entire_JH.JPG They begin with "fl" for flora, the family, the genus, and the species epithet. For Fabaceae, the subfamily and if relevant "mimosoid" (part of subfamily Caesalpinioideae) precedes the genus. These items are separated by underlines (important to note if searching for a genus-species binomial). The remaining items were mostly for my own use. They may include a location (on which see the following paragraph), the date, a crude representation (without IPA symbols or diacritics) of a native name, a five-digit code for my use, a photo number like "2" for the same plant, "JH" to indicate that the image was taken by me or by a member of a project I directed, jpg or occasionally tif for forrmat, and an indicator of what part of the plant is shown: entire, bark, fl[ower], fol[iage], lf (leaf), fr[uit], tr[unk], br[anch], th[orn]. File names can be quite long especially for Fabaceae because of the subfamily names. In lists of files under such works, the file name may be shown in abbreviated form (with ellipsis ...) so that the genus and species terms may not be visible. The only way to find files for a particular species is by searching for that species. Alternatively, all of the files in a work can be downloaded in zip form and users can then see complete file names. The readme's for each work list the included species. , Most of the locations indicated are in the Dogon-speaking area, which includes cliffs, high plateaus, inselbergs, sandy plains, seasonal rivers, and small ponds. Dogon locations include Beni, Tupere, Ségué, Bendiely, Dianwely, Anda, Walo, and Tongo Tongo, among others. The inselbergs and adjoining plains of the montane Songhay are represented mainly by Hombori and Kikara. The Niger and Bani river zone from Mopti to Segou, a mainly Bozo-speaking area that features seasonal floodplains, is represented mainly by Djenne, Barato, and Kolongo. , and Some of these plants are featured in documentary-style videos. There are two collections of such videos from Mali in Deep Blue Data: Mali documentary videos from 2023 - https://doi.org/10.7302/4851-2c52 Central Mali documentary videos - https://doi.org/10.7302/4jg9-j095 Additional flora-related videos from Mali may be archived at a later date. Some fauna images may also be archived at a later date. The various Mali collections (flora, videos) will be paralleled in time by comparable collections for southwestern Burkina Faso, and small collections for north-central Côte d'Ivoire, all in Deep Blue Data.
- Keyword:
- flora and Central Mali
- Discipline:
- Humanities
97Works -
Languages of southwestern Burkina Faso excluding Mande
User Collection
- Creator:
- Heath, Jeffrey
- Description:
- This collection contains supplements to reference grammars and texts that are archived at Deep Blue Documents and at Zenodo. The supplements include lexical spreadsheets (xlsx and/or csv) and audio files (some of the audio recordings are transcribed in the grammars or text collections). The initial materials are from Tiefo-N and Tiefo-D. Supplements from other languages (Viemo, Siamou) are in progress and may be added later. These languages are thought to constitute their own branches of Niger-Congo, and in the case of Siamou even that affiliation is contested. Supplements from Jalkunan (a Mande language of SW Burkina Faso) are in a separate collection.
- Keyword:
- Burkina Faso, Tiefo-D, Tiefo-N, Audio, and Lexicon
- Discipline:
- Humanities
2Works -
- Creator:
- Kort, Eric and Plant, Genevieve
- Description:
- The Measurement of Agriculture Illuminating farm-Zone Emissions of N2O (MAIZE) project collected airborne measurements of nitrous oxide (N2O) around intensive agricultural regions in Iowa and Nebraska during the early growing seasons of 2021 and 2022. Datasets in this collection include the airborne measurement data for each year, as well as optimized posterior fluxes for each Iowa flight day derived from the aircraft observations. The airborne platform (Mooney, ChampionX) included an Aerodyne Research, Inc. TILDAS Compact Single Laser N2O Analyzer in 2021 and a Los Gatos Research (LGR) N2O/CO analyzer (Model 916-0015) in 2022. GPS antennae, mounted on the Mooney aircraft, recorded latitude, longitude, altitude, aircraft heading, zonal speed, and meridional speed. Horizontal winds are calculated following Conley et al (2014). Temperature (C) and humidity (%) were collected with the Vaisala HMP60 probe. Aircraft speeds averaged around 70 meters per second. Related publications: Gvakharia A, Kort EA, Smith M, Conley S, (2018) Testing and evaluation of a new airborne system for continuous N2O, CO2, CO, and H2O measurements: the Frequent Calibration High-performance Airborne Observation System (FCHAOS), Atmos. Meas. Tech. 11, 6059-6074, https://doi.org/10.5194/amt-11-6059-2018 Conley S, Faloona I.C, Lenschow D.H, Karion A, Sweeney S, (2014) A low-cost system for measuring horizontal winds from single-engine aircraft, Journal of Atmospheric and Oceanic Technology, 31(6), 1312-1320, https://doi.org/10.1175/JTECH-D-13-00143.1
- Keyword:
- Iowa, soil, agriculture, and greenhouse gases
- Discipline:
- Science
3Works -
Jordan pterosaur CT scans & 3D models
User Collection
- Creator:
- Wilson Mantilla, Jeffrey A.
- Description:
- This collection includes computed tomography (CT) scans and 3D models of humeral remains from two Late Cretaceous pterosaurs from Jordan: Inabtanin alarabia (YUPC-INAB-6-001–010) and Arambourgiania philadelphiae (YUPC-RUSEIFA-1). Both specimens are accessioned to Yarmouk University, in the Hashemite Kingdom of Jordan. For inquiries about access, please contact Jeff Wilson Mantilla ( wilsonja@umich.edu) or Iyad Zalmout ( izalmout@ksu.edu.sa). Casts of selected elements of Inabtanin and Arambourgiania are available at the University of Michigan Museum of Paleontology. and The Jordanian pterosaurs were described in: Rosenbach, K. L., D. M. Goodvin, M. G. Albshysh, H. A. Azzam, A. A. Smadi, H. A. Mustafa, I. S. A. Zalmout, and J. A. Wilson Mantilla. [in press] New pterosaur remains from the Late Cretaceous of Afro-Arabia provide insight into flight capacity of large pterosaurs. Journal of Vertebrate Paleontology.
- Keyword:
- Jordan pterosaur cretaceous vertebrate gondwana afro-arabia paleontology
- Discipline:
- Science
5Works -
Invertebrate Paleontology
User Collection
- Creator:
- paleo-museum@umich.edu
- Description:
- TBD
- Discipline:
- Science
0Works -
Vertebrate Paleontology
User Collection
- Creator:
- paleo-museum@umich.edu
- Description:
- TBD
- Discipline:
- Science
2Sub-collections32Works -
University of Michigan Museum of Paleontology
User Collection
- Creator:
- paleo-museum@umich.edu
- Description:
- TBD
- Discipline:
- Science
2Sub-collections0Works -
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 -
- Creator:
- Towne, Aaron
- Description:
- This database contains six datasets intended to aid in the conception, training, demonstration, evaluation, and comparison of reduced-complexity models for fluid mechanics. The six datasets are: large-eddy-simulation data for a turbulent jet, direct-numerical-simulation data for a zero-pressure-gradient turbulent boundary layer, particle-image-velocimetry data for the same boundary layer, direct-numerical-simulation data for laminar stationary and pitching flat-plate airfoils, particle-image-velocimetry and force data for an airfoil encountering a gust, and large-eddy-simulation data for the separated, turbulent flow over an airfoil. All data are stored within hdf5 files, and each dataset additionally contains a README file and a Matlab script showing how the data can be read and manipulated. Since all datafiles use the hdf5 format, they can alternatively be read within virtually any other programing environment. An example.zip file included for each dataset provides an entry point for users. The database is an initiative of the AIAA Discussion Group on Reduced-Complexity Modeling and is detailed in the paper listed below. For each dataset, the paper introduces the flow setup and computational or experimental methods, describes the available data, and provide an example of how these data can be used for reduced-complexity modeling. All users should cite this paper as well as appropriate primary sources contained therein. Towne, A., Dawson, S., Brès, G. A., Lozano-Durán, A., Saxton-Fox, T., Parthasarthy, A., Biler, H., Jones, A. R., Yeh, C.-A., Patel, H., Taira, K. (2022). A database for reduced-complexity modeling of fluid flows. AIAA Journal 61(7): 2867-2892.
- Keyword:
- fluid dynamics, reduced-complexity models, and data-driven models
- Discipline:
- Engineering and Science
6Works -
Division of Reptiles and Amphibians
User Collection
- Creator:
- University of Michigan Museum of Zoology
- Description:
- The Division of Reptiles and Amphibians maintains a collection that is worldwide in scope. The research collections contain over 200,000 catalogued lots representing approximately 435,000 individual specimens.
- Discipline:
- Science
13Works -
Sanajeh indicus micro Computed Tomography (CT) data
User Collection
- Creator:
- Wilson Mantilla, Jeffrey A.
- Description:
- This collection includes computed tomography (CT) scans of the cranial remains of Sanajeh indicus, a Late Cretaceous snake from Gujarat, India. In addition to the holotype (described by Wilson et al., 2010), a referred specimen (Zaher et al., 2022) has been collected from Dholi Dungri. The holotype includes a 'cranial block' (GSI/GC/2903) and the referred specimen also includes a partial skull (GSI/GC/DD4). Both holotypic and referred specimens are housed in Geological Survey of India Palaeontology Division, Central Region in Nagpur, India. For assistance with access, please contact Dhananjay Mohabey ( dinomohabey@yahoo.com) or Bandana Samant ( bandanabhu@gmail.com). Casts of selected elements of Sanajeh indicus are available at the University of Michigan Museum of Paleontology.
- Discipline:
- Science
3Works