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- Creator:
- Zhang, Yingxiao MI
- Description:
- We developed a new model framework based on WRF-Chem, simulating primary biological aerosol particle emissions and their interaction with clouds. We have designed different sensitivity tests to evaluate the effects of pollen and sub-pollen particles (SPPs), respectively. Our results show that SPPs have a larger effect on cloud microphysics and precipitation than whole pollen grains.
- Keyword:
- Aerosol-cloud interactions, Primary biological aerosol particles, Ice nucleating particles, Microphyscis scheme, and Pollen
- Discipline:
- Science
-
- Creator:
- Lori, Jody R., Moyer, Cheryl, Lockhart, Nancy, Zielinski, Ruth E., Kukula, Vida, Apetorgbor, Veronica, Awini, Elizabeth, Badu-Gyan, Georgina, and Williams, John
- Description:
- GRAND is a five-year, cluster randomized controlled trial. The study is registered on ClinicalTrials.gov, [ID#: NCT04033003] and is a collaboration between University of Michigan in the United States and the Dodowa Health Research Center in Ghana. , The study setting for GRAND is four districts (Akwapim North, Yilo Krobo, Nsawam-Adoagyiri, and Lower Manya Krobo) within the Eastern Region of Ghana. Health facilities were selected based the number ANC registrants per month and average gestational age of women at registration in each facility., and Facilities were then matched based on facility type, district, and number of monthly ANC registrants. A cluster randomized controlled trial was conducted in 14 facilities in four districts of the Eastern Region of Ghana. Health facilities were randomized using a matched pairs design; each pair was similar in the number of deliveries and average gestational age of the women at enrollment in antenatal care. The locations of the facilities were far enough apart to avoid cross-group contamination. In each pair of facilities, one was randomly assigned to the intervention (G-ANC) and the other to the control (I-ANC). Recruitment began July 2019 and ended when enrollment targets were met. Data collection ended July 2023 when data collection was complete.
- Keyword:
- Antenatal care, Ghana, and Maternal health
- Citation to related publication:
- Lori, J., Kukula, V., Liu, L. et al. Improving health literacy through group antenatal care: results from a cluster randomized controlled trial in Ghana. BMC Pregnancy Childbirth 24, 37 (2024). https://doi.org/10.1186/s12884-023-06224-x
- Discipline:
- International Studies and Health Sciences
-
- Creator:
- Sealey, Briana A., Larson, Joanna G., Westeen, Erin P., Sánchez-Paredes, Ciara M., Moore, Talia Y., and Davis Rabosky, Alison R.
- Description:
- In this study, we experimentally tested for the effects of four simulated predator cues on defensive displays in two species of South American calico snakes (genus Oxyrhopus). We found that juvenile snakes were both more likely to respond and to respond more strongly than adults and that displays were most common in response to tactile stimuli than to other treatments. However, we also found broad similarity across both simulated predator treatments and species in the components used in each snake’s defensive display, suggesting a high degree of stereotyping. This research suggests an important role for both ontogeny and intensity of predation risk in structuring variation in defensive behavior in Neotropical snakes and emphasizes the foundational importance of context dependence in conceptual frameworks for understanding predator-prey interactions. and *On January 4, 2024, “Supplementary_material.pdf” was replaced with an updated version that has slightly different versions of Figures S4 and S8 after an error in code was corrected. Within “HeatmapFigures.zip,” two code files, “IndividualHeatmaps_matrices.R” and “FigureS4_S8_averagedHeatmaps.R” were updated to correct the code error. Three additional files were added to both the “figures” and “matrices” folders within the subfolder “heatmaps.” These files represent the correlation matrices, by body part, and graphical representation of the matrices for one experimental trial that had previously been excluded due to the code error.
- Keyword:
- context-dependence, anti-predator behavior, Peruvian Amazon, ontogeny, coral snake mimicry, Colubridae
- Citation to related publication:
- Sealey, B.A.*, Larson, J.G.*, Westeen, E.P., Sanchez-Paredes, C.M., Moore, T.Y., Davis Rabosky, A.R. Body size and predator cues structure variation in defensive displays of Neotropical calico snakes (Oxyrhopus spp.). Ethology. In press. *Authors contributed equally
- Discipline:
- Science
-
- Creator:
- Rana, Gurpreet K., Reynolds, Christopher W., Rha, Jennifer Y., Lenselink, Allison M., Asokumar, Dhanya, Zebib, Laura, Giacona, Francesca L. , Islam, Nowshin N., Kannikeswaran, Sanjana, Manuel, Kara, Cheung, Allison, Marzoughi, Maedeh , and Heisler, Michele
- Description:
- The search data supports a literature review project on "Innovative strategies and implementation science approaches for health delivery among migrants in humanitarian settings". The data included in the dataset are the complete search strategies (rtf file) and the exported results of all citations from all databases (ris file) after removal of duplicate citations.
- Keyword:
- humanitarian setting, migrant, forced displacement , health delivery, implementation science, and scoping review
- Discipline:
- Health Sciences
-
- Creator:
- Luyet, Chloe, Elvati, Paolo, Vinh, Jordan, and Violi, Angela
- Description:
- A growing body of work has linked key biological activities to the mechanical properties of cellular membranes, and as a means of identification. Here, we present a computational approach to simulate and compare the vibrational spectra in the low-THz region for mammalian and bacterial membranes, investigating the effect of membrane asymmetry and composition, as well as the conserved frequencies of a specific cell. We find that asymmetry does not impact the vibrational spectra, and the impact of sterols depends on the mobility of the components of the membrane. We demonstrate that vibrational spectra can be used to distinguish between membranes and, therefore, could be used in identification of different organisms. The method presented, here, can be immediately extended to other biological structures (e.g., amyloid fibers, polysaccharides, and protein-ligand structures) in order to fingerprint and understand vibrations of numerous biologically-relevant nanoscale structures.
- Keyword:
- molecular dynamics, membranes, mechanical vibration, bacterial identification, and Staphylococcus aureus
- Citation to related publication:
- Luyet C, Elvati P, Vinh J, Violi A. Low-THz Vibrations of Biological Membranes. Membranes. 2023; 13(2):139. https://doi.org/10.3390/membranes13020139
- Discipline:
- Engineering
-
- Creator:
- Elvati, Paolo, Luyet, Chloe, Wang, Yichun, Liu, Changjiang, VanEpps, J. Scott, Kotov, Nicholas A., and Violi, Angela
- Description:
- Amyloid nanofibers are abundant in microorganisms and are integral components of many biofilms, serving various purposes, from virulent to structural. Nonetheless, the precise characterization of bacterial amyloid nanofibers has been elusive, with incomplete and contradicting results. The present work focuses on the molecular details and characteristics of PSMa1-derived functional amyloids present in Staphylococcus aureus biofilms, using a combination of computational and experimental techniques, to develop a model that can aid the design of compounds to control amyloid formation. Results from molecular dynamics simulations, guided and supported by spectroscopy and microscopy, show that PSMa1 amyloid nanofibers present a helical structure formed by two protofilaments, have an average diameter of about 12 nm, and adopt a left-handed helicity with a periodicity of approximately 72 nm. The chirality of the self-assembled nanofibers, an intrinsic geometric property of its constituent peptides, is central to determining the fibers' lateral growth.
- Keyword:
- molecular self-assembly, computational nanotechnology, nanobiotechnology, and structural properties
- Citation to related publication:
- Paolo Elvati, Chloe Luyet, Yichun Wang, Changjiang Liu, J. Scott VanEpps, Nicholas A. Kotov, and Angela Violi ACS Applied Nano Materials 2023 6 (8), 6594-6604 DOI: 10.1021/acsanm.3c00174
- Discipline:
- Engineering and Science
-
- Creator:
- Penner-Hahn, James, Sension, Roseanne, McClain, Taylor, Lamb, Ryan, Alonso-Mori, Roberto, Lima, Frederico, Ardana-Lamas, Fernando, Biednov, Mykola, Chollet, Matthieu, Chung, Taewon, Deb, Aniruddha, Dewan, Paul, Gee, Leland, Huang, Joel, Yifeng, Khakhulin, Dmitry, Li, Jianhao, Michocki, Lindsay, Miller, Nicholas, Otte, Florian, Uemura, Yohei, and van Driel, Tim
- Description:
- UV-visible, X-ray absorption, and X-ray emission data used to characterize the dynamics of aquo and hydroxo cobalamin. Details of data collection and reduction are provided in the associated manuscript. Data files are all text files which contain tab-delimited columns of data corresponding to each figure in the manuscript.
- Keyword:
- Ultrafast, X-ray, Transient absorption, cobalamin, vitamin B12, XAS, XES, and XANES
- Citation to related publication:
- Sension, R.J., et al. (2023). Watching Excited State Dynamics with Optical and X-ray Probes: The Excited State Dynamics of Aquocobalamin and Hydroxocobalamin. J. Am. Chem. Soc. in press. and https://doi.org/10.1021/jacs.3c04099
- Discipline:
- Science
-
- Creator:
- Zielinski, Ruth E, Kukula, Vida, Apetorgbor, Veronica, Awini, Elizabeth, Moyer, Cheryl, Badu-Gyan, Georgina, Williams, John, Lockhart, Nancy, and Lori, Jody R
- Description:
- This is a process evaluation of the RCT, Group Antenatal Care and Delivery project (GRAND) to identify and document patient, provider, and system barriers and facilitators to program implementation. Using both quantitative and qualitative methods, potential and actual influences on the quality and conduct of the program's operations, implementation, and service delivery were identified. Only the seven (7) sites randomized to the Group ANC (G-ANC) intervention were included for collection of process evaluation data since the evaluation was of G-ANC implementation. Data were collected from August 2019 to November 2020 and included both quantitative and qualitative data sources.
- Keyword:
- Group Antenatal Care, Ghana, and Process Evaluation
- Citation to related publication:
- Zielinski R, Kukula V, Apetorgbor V, Awini E, Moyer C, Badu-Gyan G, et al. (2023) “With group antenatal care, pregnant women know they are not alone”: The process evaluation of a group antenatal care intervention in Ghana. PLoS ONE 18(11): e0291855. https://doi.org/10.1371/journal.pone.0291855
- Discipline:
- International Studies and Health Sciences
-
- Creator:
- Chen, Kevin S, Noureldein, Mohamed H, McGinley, Lisa M, Hayes, John M, Rigan, Diana M, Kwentus, Jaquelin F, Mason, Shayna N, Mendelson, Faye E, Savelieff, Masha G, and Feldman, Eva L
- Description:
- Therapeutic mechanisms of human neural stem cells (hNSCs) were studied in an Alzheimer's disease mouse model (5XFAD). hNSCs restored spatial memory abilities in 5XFAD animals; however, amyloid beta levels were unchanged. Spatial transcriptomics was used to probe mechanisms of hNSCs. Focusing on a subset of plaque-induced genes, gene normalization was seen particularly in microglia, confirmed by PROGENy and Cell Chat analyses. and The spatial transcriptomics data from this publication have been deposited in NCBI Gene Expression Omnibus (16) and are accessible through GEO Series accession number GSE209583 ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE209583 and enter token gzglogqkvjqrhmt). Additional supporting data are available from the corresponding author upon reasonable request.
- Citation to related publication:
- Chen KS, Noureldein MH, McGinley LM, Hayes JM, Rigan DM, Kwentus JF, Mason SN, Mendelson FE, Savelieffd MG, Feldman EL. Human neural stem cells restore spatial memory in a transgenic Alzheimer's disease mouse model by an immunomodulating mechanism. bioRxiv [Preprint]. 2023 Nov 4:2023.11.01.565161. doi: 10.1101/2023.11.01.565161. PMID: 37961246; PMCID: PMC10635057.
- Discipline:
- Health Sciences
-
- Creator:
- Wallace, Dylan M, Benyamini, Miri, Nason-Tomaszewski, Samuel R, Costello, Joseph T, Cubillos, Luis H, Mender, Matthew J, Temmar, Hisham, Willsey, Matthew S, Patil, Parag P, Chestek, Cynthia A, and Zacksenhouse, Miriam
- Description:
- This is data from Wallace, Benyamini et al., 2023, Journal of Neural Engineering. There are two sets of data included: 1. Neural features and error labels used to train error classifiers for each day used in the study 2. Trial data from an example experiment day (Monkey N, Day 6), with runs for offline calibration, online brain control, error monitoring, and error correction. The purpose of this study was to investigate the use of error signals in motor cortex to improve brain-machine interface (BMI) performance for control of two finger groups. All data is contained in .mat files, which can be opened using MATLAB or the Python SciPy library.
- Keyword:
- Brain-machine interface (BMI), Error detection, and Neural recording
- Citation to related publication:
- Wallace, D. M., Benyamini, M., Nason-Tomaszewski, S. R., Costello, J. T., Cubillos, L. H., Mender, M. J., Temmar, H., Willsey, M. S., Patil, P. G., Chestek, C. A., & Zacksenhouse, M. (2023). Error detection and correction in intracortical brain–machine interfaces controlling two finger groups. Journal of Neural Engineering, 20(4), 046037. https://doi.org/10.1088/1741-2552/acef95
- Discipline:
- Engineering, Science, and Health Sciences
-
- Creator:
- Sun, Hu, Ren, Jiaen, Chen, Yang, Zou, Shasha, Chang, Yurui, Wang, Zihan, and Coster, Anthea
- Description:
- Our research focuses on providing a fully-imputed map of the worldwide total electron content with high resolution and spatial-temporal smoothness. We fill in the missing values of the original Madrigal TEC maps via estimating the latent feature of each latitude and local time along the 2-D grid and give initial guess of the missing regions based on pre-computed spherical harmonics map. The resulting TEC map has high imputation accuracy and the ease of reproducing. All data are in HDF5 format and are easy to read using the h5py package in Python. The TEC map is grouped in folders based on years and each file contains a single-day data of 5-min cadence. Each individual TEC map is of size 181*361. and WARNING: 2023-12-01 the data file for 2019-Jan-03 has badly fitted values. Please avoid using it. All other days' files are ready to use.
- Keyword:
- Total Electron Content, Matrix Completion, VISTA, Spherical Harmonics, and Spatial-Temporal Smoothing
- Citation to related publication:
- Sun, H., Hua, Z., Ren, J., Zou, S., Sun, Y., & Chen, Y. (2022). Matrix completion methods for the total electron content video reconstruction. The Annals of Applied Statistics, 16(3), 1333-1358., Sun, H., Chen, Y., Zou, S., Ren, J., Chang, Y., Wang, Z., & Coster, A. (2023). Complete Global Total Electron Content Map Dataset based on a Video Imputation Algorithm VISTA. Scientific Data, in press., and Zou, S., Ren, J., Wang, Z., Sun, H., & Chen, Y. (2021). Impact of storm-enhanced density (SED) on ion upflow fluxes during geomagnetic storm. Frontiers in Astronomy and Space Sciences, 8, 746429.
- Discipline:
- Science and Engineering
-
- Creator:
- Klinich, Kathleen D, Lin, Brian, and Moore, Jamie L.
- Description:
- This dataset allows comparison of the different strategies implemented by vehicle manufacturers being used to communicate with drivers. Spreadsheets were created in MS Excel to summarize data for each vehicle, and include page numbers in each vehicle owner's manual for reference. The photos taken of each vehicle control panel allow detailed inspection of the displays and controls.
- Keyword:
- vehicle, controls, displays, and FMVSS 101
- Discipline:
- Engineering
-
- Creator:
- Brian, Chen
- Description:
- The procedure followed while creating this data is summarized in Section II of Chen, Brian, et al. "Behavioral cloning in atari games using a combined variational autoencoder and predictor model." 2021 IEEE Congress on Evolutionary Computation (CEC). IEEE, 2021. This data is not a result of a research but an intermediate product that is used in research. This dataset is generated to train a behavioral cloning framework from gameplay screen captures and keystrokes of an "expert" player. The RL agent that is trained using "RL Baselines Zoo package" acts as the "expert" player, whose decision making process we desire to learn. In addition to behavioral cloning experiments, this dataset is further used to demonstrate the efficacy of a novel incremental tensor decomposition algorithm on image-based data streams.
- Keyword:
- Imitation Learning, Behavioral Cloning, Reinforcement Learning, Machine Learning, and Gameplay Data
- Citation to related publication:
- Chen, Brian, et al. "Behavioral cloning in atari games using a combined variational autoencoder and predictor model." 2021 IEEE Congress on Evolutionary Computation (CEC). IEEE, 2021., Aksoy, Doruk, et al. "An Incremental Tensor Train Decomposition Algorithm." arXiv preprint arXiv:2211.12487 (2022)., and Chen, Brian, et al. "Low-Rank Tensor-Network Encodings for Video-to-Action Behavioral Cloning", forthcoming
- Discipline:
- Engineering and Science
-
- Creator:
- Heath, Jeffrey
- Description:
- The spreadsheets (in csv and xlsx formats) have columns for botanical family, genus-species binomials, synonymy (outdated binomials) on the left, folllowed by columns with native terms in several Dogon languages and in Bangime. Dogon languages included are Toro Tegu, Ben Tey, Bankan Tey, Nanga, Jamsay (main dialect), Perge Tegu (Jamsay of Pergé village), Gourou (aberrant variety of Jamsay), Togo Kan, Yorno So and Ibi So (in Toro So dialect complex), Donno So, Tomo Kan (of Segué and of Diangassagou), Tomo Kan, Dogul Dom, Tebul Ure, Yanda Dom, Najamba, Tiranige, Mombo, Ampari, Bunoge, and Penange. JH in column headings indicates that the material is from Dr. Heath's fieldwork. and For images of many of these plants, see the collection "Mali flora images" in Deep Blue Data ( https://doi.org/10.7302/aef4-fk26). For a practical guide to these plants, click on the link below in "related items in Deep Blue Documents".
- Keyword:
- Dogon, Bangime, and flora
- Discipline:
- Humanities
-
- Creator:
- Heath, Jeffrey
- Description:
- Documentary-style videos about villages and social relations in Dogon country. Documentaries are given in two or three video formats each.
- Keyword:
- Mali, Dogon, and villages
- Citation to related publication:
- Moran, Steven & Forkel, Robert & Heath, Jeffrey (eds.) 2016. Dogon and Bangime Linguistics. Jena: Max Planck Institute for the Science of Human History. http://dogonlanguages.org
- Discipline:
- Humanities
-
- Creator:
- Heath, Jeffrey
- Description:
- Tebul Ure is a Dogon language spoken on the heights in a horseshoe valley between Bamba and Yanda on the eastern edge of the Dogon (Bandiagara) plateau in central Mali. A grammar is drafted but incomplete as of May 2018. Texts were transcribed from dictation in 2012 in the Tebul area, and others were recorded digitally in 2015 at a nearby town on the plateau. Six of the 2015 texts have been transcribed. The texts are included at the end of the grammar. I grant permission to other linguists to transcribe, translate, or analyse any texts that remain untranscribed beginning 2022.
- Keyword:
- Tebul Ure, Dogon, Mali, Audio, and Recording
- Citation to related publication:
- Moran, Steven & Forkel, Robert & Heath, Jeffrey (eds.) 2016. Dogon and Bangime Linguistics. Jena: Max Planck Institute for the Science of Human History. http://dogonlanguages.org
- Discipline:
- Humanities
-
- Creator:
- Heath, Jeffrey
- Description:
- Images of villages in Mali in which Tengou-Togo (Dogon family) is the primary language. Each file name contains important information about the photos, and are structured thus: LanguageFamily_Language_IdentificationNumber_GeographicCoordinate_Description_Date_InitialsOfThePhotographer
- Keyword:
- villages, Dogon, Tengou-Togo, and Mali
- Citation to related publication:
- Moran, Steven & Forkel, Robert & Heath, Jeffrey (eds.) 2016. Dogon and Bangime Linguistics. Jena: Max Planck Institute for the Science of Human History. http://dogonlanguages.org
- Discipline:
- Humanities
-
CT Data of UMMP VP 68409, Plesiadapis gingerichi, right maxilla with M1/ and roots of P4/ (holotype)
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Right maxilla with M1/ and roots of P4/ of Plesiadapis gingerichi (University of Michigan Museum of Paleontology catalog number UMMP 68409) as a series of TIFF images. Raw projections are not included in this dataset. The reconstructed slice data from the scan are offered here as a series of unsigned 16-bit integer TIFF images. The upper left corner of the first image (*_0000.tif) is the XYZ origin.
- Keyword:
- Paleontology, Fossil, CT, Plesiadapidae, UMMP, University of Michigan Museum of Paleontology, Paleocene, and cb9a3c69-55da-9032-5b3e-d02dc72013eb
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Incisor frag. of Plesiadapis gingerichi (University of Michigan Museum of Paleontology catalog number UMMP 68409) as a series of TIFF images. Raw projections are not included in this dataset. The reconstructed slice data from the scan are offered here as a series of unsigned 16-bit integer TIFF images. The upper left corner of the first image (*_0000.tif) is the XYZ origin.
- Keyword:
- Paleontology, Fossil, CT, Plesiadapidae, UMMP, University of Michigan Museum of Paleontology, Paleocene, and cb9a3c69-55da-9032-5b3e-d02dc72013eb
- Discipline:
- Science
-
- Creator:
- University of Michigan Museum of Paleontology and CTEES
- Description:
- Reconstructed CT slices for Right M3/ of Plesiadapis gingerichi (University of Michigan Museum of Paleontology catalog number UMMP 68409) as a series of TIFF images. Raw projections are not included in this dataset. The reconstructed slice data from the scan are offered here as a series of unsigned 16-bit integer TIFF images. The upper left corner of the first image (*_0000.tif) is the XYZ origin.
- Keyword:
- Paleontology, Fossil, CT, Plesiadapidae, UMMP, University of Michigan Museum of Paleontology, Paleocene, and cb9a3c69-55da-9032-5b3e-d02dc72013eb
- Discipline:
- Science