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Dataset results
156 results for “explorative modeling”
Structures and data for minimalistic models of cage-like molecules in "Systematic exploration of accessible topologies of cage molecules via minimalistic models"
<p>Archives of .csv files containing data of lowest energy conformers for all cage configurations tested and associated .mol files. </p><p> </p><p>For paper: Systematic exploration of accessible topologies of cage molecules via minimalistic models with DOI: <a href="https://doi.org/10.1039/D3SC03991A">10.1039/D3SC03991A</a> </p>
No More In-Context Learning? Exploring Parameter-Efficient Fine-Tuning Techniques for Code Generation with Large Language Models
<p>Data and models part of the replication package of the ICSE 24 submission entitled "<em>No More In-Context Learning? Exploring Parameter-Efficient Fine-Tuning Techniques for Code Generation with Large Language Models</em>".</p>
Data from: Exploring the possible role of hybridization in the evolution of photosynthetic pathways in Flaveria (Asteraceae), the prime model of C4 photosynthesis evolution
<p><em>Flaveria</em> (Asteraceae) is the prime model for the study of C<sub>4</sub> photosynthesis evolution and seems to support a stepwise acquisition of the pathway through C<sub>3</sub>-C<sub>4</sub> intermediate phenotypes, still existing in <em>Flaveria</em> today. Molecular phylogenies of <em>Flaveria</em> based on concatenated data matrices are currently used to reconstruct the complex sequence of trait shifts during C<sub>4</sub> evolution. To assess the possible role of hybridization in C<sub>4</sub> evolution in <em>Flaveria</em>, we re-analyzed transcriptome data of 17 <em>Flaveria</em> species to infer the extent of gene tree discordance and possible reticulation events. We found massive gene tree discordance as well as reticulation along the backbone and within clades containing C<sub>3</sub>-C<sub>4</sub> intermediate and C<sub>4</sub>-like species. An early hybridization event between two C<sub>3</sub> species might have triggered C<sub>4 </sub>evolution in the genus. The clade containing all C<sub>4</sub> species plus the C<sub>4</sub>-like species F. vaginata and<em> F. palmeri </em>is highly supported in our phylogenetic analyses, but it might be of hybrid origin involving <em>F. angustifolia</em> and<em> F. sonorensis</em> (both C<sub>3</sub>-C<sub>4</sub> intermediate) as parental lineages. Hybridization seems to be a driver of C<sub>4</sub> evolution in<em> Flaveria</em> and likely promoted the fast acquisition of C<sub>4</sub> traits. This new insight can be used in further exploring C<sub>4</sub> evolution and can inform C<sub>4</sub> bioengineering efforts.</p>
Exploring the Group Visit Model for Pediatric ADHD Management in the Medical Home
ClinicalTrials.gov study NCT02145793. IPD Sharing: Not stated. Countries: 1. Publications: 1.
A Cohort Study of Hereditary Ovarian Cancer Risk Prediction Models and Pathogenesis Exploration
ClinicalTrials.gov study NCT06564428. IPD Sharing: UNDECIDED. Countries: 1. Publications: 19.
Exploring a Breast Cancer Early Screening Model Based on cfDNA
ClinicalTrials.gov study NCT06016790. IPD Sharing: NO. Countries: 1. Publications: 1.
Explore Association Models Between Environmental Hormones andBreast Cancer
ClinicalTrials.gov study NCT06765395. IPD Sharing: NO. Countries: 1. Publications: 1.
In This Study, a Retrospective Analysis Was Conducted to Explore the Risk Factors for Patients Undergoing Pancreaticoduodenal Surgery (PD) to Achieve TO, and a Nomogram Prediction Model Was Further Es
ClinicalTrials.gov study NCT06763250. IPD Sharing: NO. Countries: 1. Publications: 1.
Data from: Exploring the interaction of avian frugivory and plant spatial heterogeneity and its effect on seed dispersal kernels using a simulation model
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Data from: How large spatially-explicit optimal reserve design models can we solve now? an exploration of current models’ computational efficiency
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Data from: Exploring foraging decisions in a social primate using discrete choice models
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Data from: Bumble-BEEHAVE: a systems model for exploring multifactorial causes of bumblebee decline at individual, colony, population and community level
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Data from: Exploring the possible role of hybridization in the evolution of photosynthetic pathways in Flaveria (Asteraceae), the prime model of C4 photosynthesis evolution
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Data from: Exploring a Pool-seq only approach for gaining population genomic insights in non-model species
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Table of C4 model equations used to explore the effect of irradiance, CO2 and temperature on C4 photosynthesis
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Data for exploring topography-based methods for downscaling subgrid precipitation for use in Earth System Models
<p>Topography exerts major control on land surface processes. To improve representation of topographic impacts on land surface processes, a new topography-based subgrid structure has been introduced to the Energy Exascale Earth System Model representing the subgrid heterogeneity of surface elevation. Four topography-based methods of downscaling grid precipitation to the subgrids have been explored. The data utilized for the study include precipitation, surface elevation, and height rise data derived from wind speed and Brunt Vaisala parameter and outputs of downscaled precipitation and statistical metrics calculated in this study. Results show that utilizing hypsometric elevation of the subgrid landscape within the model grid cell improves downscaling of precipitation in mountainous areas. Furthermore, accounting for blocking of airflow further improves precipitation downscaling slightly in mountainous regions consistently across multiple grid sizes.</p> <p>The data files include:</p> <ol> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/daily_prism_precip.zip?versionId=be97ca8d-182a-4f1e-9ae3-9da3f2b87e24">daily_prism_precip.zip</a>: high resolution precipitation data (4 km) obtained from PRISM [Daly et al. 1994, Daly et al. 2008].</li> <li> <a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/dem_4km4.nc">dem_4km4.nc</a>: 4 km surface elevation data derived from high resolution surface elevation data (90 m) obtained from HydroSHEDS [Lehner et al. 2008, Lehner and Grill 2013]</li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/fr_number.zip?versionId=eacb5b60-9561-47f9-97c6-cd91e96afa1f">fr_number.zip</a>: Height rise of airflow calculated from wind speed and Brunt Vaisala parameter derived from the North American Regional Reanalysis data.</li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/output_from_dwnscaling_methods_at_128km.zip?versionId=5f64ec8c-4018-4d97-ae1d-eb6f15ccc564">output_from_dwnscaling_methods_at_128km.zip</a>: Output data of the downscaling methods at 128 km spatial resolution.</li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/output_from_dwnscaling_methods_at_96km.zip?versionId=b2c67f80-9794-41cb-9986-a4c7259ccf1c">output_from_dwnscaling_methods_at_96km.zip</a>: Output data of the downscaling methods at 96 km spatial resolution. </li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/output_from_dwnscaling_methods_at_64km.zip?versionId=b83230a0-308e-4f90-971b-6636a5add796">output_from_dwnscaling_methods_at_64km.zip</a>: Output data of the downscaling methods at 64 km spatial resolution.</li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/output_from_dwnscaling_methods_at_32km.zip?versionId=cc9021cc-c3b4-4c04-a558-752c151c49ba">output_from_dwnscaling_methods_at_32km.zip</a>: Output data of the downscaling methods at 32 km spatial resolution. </li> <li>ppt_spatial_downscaling_daily_data_flatten_withFr_test_filt0_v3rev_64.py: Python code used to calculate downscaled precipitation data from aggregated grid precipitation data.</li> <li><a href="https://zenodo.org/api/files/12bc9f1c-be98-4721-8c92-6e23845be441/stns_precip_2015.csv">stns_precip_2015.csv</a>: Precipitation data at rain gauge stations in the Conterminous US extracted from the Daymet station-level input datasets are used for evaluation of the downscaled results </li> </ol> <p>Other datasets used to calculate wind speed and Brunt Vaisala parameter were extracted from the North American Regional Reanalysis (NARR) including wind speed, temperature, surface pressure, specific humidity and relative humidity [Mesinger et al. 2006].</p> <p> </p> <p><strong>References:</strong></p> <p>Daly, C., et al. (1994). "A Statistical-Topographic Model for Mapping Climatological Precipitation over Mountainous Terrain." Journal of Applied Meteorology <strong>33</strong>(2): 140-158. </p> <p>Daly, C., et al. (2008). "Physiographically sensitive mapping of climatological temperature and precipitation across the conterminous United States." International Journal of Climatology <strong>28</strong>(15): 2031-2064.</p> <p>Lehner, B., et al. (2008). "New Global Hydrography Derived From Spaceborne Elevation Data." Eos, Transactions American Geophysical Union <strong>89</strong>(10): 93-94.</p> <p>Lehner, B. and G. Grill (2013). "Global river hydrography and network routing: baseline data and new approaches to study the world's large river systems." Hydrological Processes <strong>27</strong>(15): 2171-2186.</p> <p>Mesinger, F., et al. (2006). "NORTH AMERICAN REGIONAL REANALYSIS." Bulletin of the American Meteorological Society <strong>87</strong>(3): 343-360.</p>
Exploring the predictive value of lesion topology on motor function outcomes in a porcine ischemic stroke model
<p>Dataset to accompany manuscript currently in review at Scientific Reports (12/17/2020)</p>
Data for Herb-paths, a network and statistical model to explore health-beneficial effects of herbs and herbal constituents
<p>Results data for the manuscript "Herb-paths, a network and statistical model to explore health-beneficial effects of herbs and herbal constituents".</p>
Exploring the influence of morphologic heterogeneity and discharge on downstream transport in streams with multiple logjams: 2. Insight from numerical models
<p>These are the input files to run HydroGeoSphere model in Little Beaver Creek, Colorado USA.</p>
Data from: Exploring the power of Bayesian birth-death skyline models to detect mass extinction events from phylogenies with only extant taxa
Mass extinction events (MEEs), defined as significant losses of species diversity in significantly short time periods, have attracted the attention of biologists because of their link to major environmental change. MEEs have traditionally been studied through the fossil record, but the development of birth-death models has made it possible to detect their signature based on extant-taxa phylogenies. Most birth-death models consider MEEs as instantaneous events where a high proportion of species are simultaneously removed from the tree ("single pulse" approach), in contrast to the paleontological record, where MEEs have a time-duration. Here, we explore the power of a Bayesian Birth-Death Skyline (BDSKY) model to detect the signature of MEEs through changes in extinction rates under a "time-slice" approach. In this approach, MEEs are time intervals where the extinction rate is greater than the speciation rate. Results showed BDSKY can detect and locate MEEs but that precision and accuracy depend on phylogenies size and MEE intensity. Comparisons of BDSKY with the single-pulse Bayesian model, CoMET, showed a similar frequency of Type II error and neither model exhibited Type I error. However, while CoMET performed better in detecting and locating MEEs for smaller phylogenies, BDSKY showed higher accuracy in estimating extinction and speciation rates.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.