cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.4231/5p9a-kq03
title: Combined annual crop yields and daily weather data for Midwest counties 1970-2015

description: &lt;p&gt;This data set was created for use in a project working to forecast crop yields (corn, soybeans, and wheat) using public weather data. The data set was formed using data from the National Agriculture Statistical Service (NASS) and the National Oceanic and Atmospheric Administration (NOAA). A look at how the dataset was formed with code is included with the dataset.&lt;/p&gt;

&lt;p&gt;This material is based upon work supported by the National Science Foundation under Grant No. 1246818.&lt;/p&gt;
description: This data contains daily temperature and precipitation data as well as annual corn, soybean, and wheat yields for Midwest counties from 1970 to 2015.
DOI: 10.4231/1mzn-1c18
title: Vertical profile observations of water vapor deuterium excess in the lower troposphere

description: &lt;p&gt;These datasets for Indianaopolis and Washington D.C. support the forthcoming article: Salmon, O. E., Welp, L. R., Baldwin, M., Hajny, K., Stirm, B. H., and Shepson, P. B.: Vertical profile observations of water vapor deuterium excess in the lower troposphere, Atmos. Chem. Phys. Discuss., &lt;a href="https://doi.org/10.5194/acp-2018-1313" target="_blank"&gt;https://doi.org/10.5194/acp-2018-1313&lt;/a&gt;, in review, 2019.&lt;/p&gt;

&lt;p&gt;We use H&lt;sub&gt;2&lt;/sub&gt;O&lt;sub&gt;v&lt;/sub&gt; isotopic vertical profile measurements and complementary meteorological observations to examine how boundary layer, cloud, and mixing processes influence the vertical structure of deuterium-excess (d-excess&thinsp;=&thinsp;&delta;D&thinsp;&ndash;&thinsp;8&thinsp;&times;&thinsp;&delta;&lt;sup&gt;18&lt;/sup&gt;O) in the boundary layer, inversion layer, and lower free troposphere. Airborne measurements of water vapor (H&lt;sub&gt;2&lt;/sub&gt;O&lt;sub&gt;v&lt;/sub&gt;) stable isotopologues were conducted around two continental U.S. cities in February&ndash;March 2016. Nine research flights were designed to characterize the &delta;D, &delta;&lt;sup&gt;18&lt;/sup&gt;O, and d-excess vertical profiles extending from the surface to &le;&thinsp;2&thinsp;km. We examine observations from three unique case study flights in detail. One case study shows H&lt;sub&gt;2&lt;/sub&gt;O&lt;sub&gt;v&lt;/sub&gt; isotopologue vertical profiles that are consistent with Rayleigh isotopic distillation theory coinciding with clear skies, dry adiabatic lapse rates within the boundary layer, and relatively constant vertical profiles of wind speed and wind direction. The two remaining case studies show that H&lt;sub&gt;2&lt;/sub&gt;O&lt;sub&gt;v&lt;/sub&gt; isotopic signatures above the boundary layer are sensitive to cloud processes and complex air mass mixing patterns. These two case studies indicate anomalies in the d-excess signature relative to Rayleigh theory, such as low d-excess values at the interface of the inversion layer and the free troposphere, which is possibly indicative of cloud evaporation. We discuss possible explanations for the observed d-excess anomalies, such as cloud evaporation, wind shear, and vertical mixing. In situ H&lt;sub&gt;2&lt;/sub&gt;O&lt;sub&gt;v&lt;/sub&gt; stable isotope measurements, and d-excess in particular, could be useful for improving our understanding of moisture processing and transport mixing occurring between the boundary layer, inversion layer, and free troposphere.&lt;/p&gt;

&lt;p&gt;For related datasets, please see the Yale University &lt;a href="https://vapor-isotope.yale.edu/data-download/currently-available-dataset-flight-and-ship-cruises" target="_blank"&gt;Stable Water Vapor Isotopes Database&lt;/a&gt;.&lt;/p&gt;
description: Airborne vertical profile measurements of water vapor stable isotopes to examine how boundary layer, cloud, and mixing processes influence the vertical structure of deuterium-excess in the lower troposphere.
DOI: 10.4231/jgz8-9c75
title: Global CO Dynamics Model Output during 1901-2100

description: &lt;p&gt;Carbon monoxide (CO) plays an important role in controlling the oxidizing capacity of the atmosphere by reacting with OH radicals that affect atmospheric methane (CH4) dynamics. We developed a process-based biogeochemistry model to quantify the CO exchange between soils and the atmosphere. The model is then extrapolated to global terrestrial ecosystems to estimate global soil gross consumption, gross production, and net flux of the atmospheric CO during the period 1901-2100.&lt;/p&gt;

&lt;p&gt;Super- computing resources for this project were provided by the Rosen Center for Advanced Computing at Purdue University for all of the model simulations. Matlab and IDL were used to post-process the output global CO flux data. Final data are presented in text format so any kind of user can read them easily.&lt;/p&gt;

&lt;p&gt;The deposit_data_co.zip contains all model output data presented in Liu. et al., 2018 ACP paper, &quot;Global soil consumption of atmospheric carbon monoxide: an analysis using a process-based biogeochemistry model&quot;&lt;/p&gt;

&lt;p&gt;1. Code_co contains all co dynamics model code used in paper;&lt;br /&gt;
2: Figures contains all figures showed in paper;&lt;br /&gt;
3: Simulation_global contains all processed data of model outputs. Original gridded data are too big for uploading, but can be requested directly from Authors;&lt;br /&gt;
4: org_simulation_global contains the monthly gridded data for period 2000-2013. Other period data are too big to upload but can be requested directly from Authors;&lt;br /&gt;
4: acp-18-7913-2018.pdf is the published paper;&lt;br /&gt;
5: Table_acp.xlsx contains all tables in paper.&lt;/p&gt;

&lt;p&gt; &lt;/p&gt;
description: Global soil CO fluxes during 1901-2013, 2000-2013 and 2014-2100 from model simulations. Together with published paper, figures and tables.
DOI: 10.4231/f0bt-gn15
title: Distributional shifts of regional forest communities in the eastern United States

description: &lt;p&gt;Forest ecosystems across the globe have been impacted by human activities.  Many studies have analyzed species-level responses to climate change, but much less attention has been paid to community-level responses.  Identifying and quantifying changes in forest tree communities can reveal how forest ecosystem functions and services are impacted by climate change and other stressors.  Utilizing the Latent Dirichlet Allocation (LDA) topic model method we identified 12 regional forest communities of the eastern U.S. based on data from the Forest Inventory and Analysis Program (FIA).  In addition, we detected geographical shifts of these communities over the last three decades by evaluating movement of the community centroid and spatial expansion or contraction of these communities.  Of the 12 identified regional communities in the eastern U.S., 11 significantly shifted their centroids, with movement in all directions (four eastward and four westward; three northward and four southward).  Additionally, five of 12 communities had significant changes in area, with two contractions and three expansions.  The oak-pine-hickory community of the Southern Pine-Hardwood Region had the largest changes over the study period (26.5 km dec&lt;sup&gt;-1&lt;/sup&gt; shift northward and eastward and 22,361 km&lt;sup&gt;2&lt;/sup&gt; dec&lt;sup&gt;-1&lt;/sup&gt; decrease in area), while the cherry-oak community of the Central Hardwood Region was the most stable (4.1 km dec&lt;sup&gt;-1&lt;/sup&gt; shift northward and 142 km&lt;sup&gt;2&lt;/sup&gt; dec&lt;sup&gt;-1&lt;/sup&gt; increase in area).  Mixed-effects models revealed that forest-related (fire frequency, basal area, and nitrogen deposition) and climate-related (temperature, precipitation, and precipitation change) predictors of changes in community distribution were significant.  Our results may reflect the resilience of forest communities to climate change, but it may also indicate a lag between climate change and regional forest community responses. &lt;/p&gt;
description: This dataset contains the distribution of forest communities across the eastern United States at T1 (1980-1995) and T2 (2015-2017) and the species comprising these communities.
DOI: 10.15468/dl.z2y9vj
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Megapitaria aurantiaca, Callista aurantiaca, Cytherea aurantiaca, Cytherea livida, Macrocallista aurantiaca)",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950"
 ]
}

 The dataset includes 52 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059445-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.4231/jbky-jh21
title: ABAQUS Python Code for the Simulation of Topologically Interlocked Material Systems Based on Archimedean and Laves Tilings

description: &lt;p&gt;A set of six python scripts that parametrically generate ABAQUS models to simulate the response of topologically interlocked material systems based on the Archimedean and Laves tilings subjected to body force and displacement loading. These scripts were created to conduct research for a thesis in fulfillment of a Master of Science in Mechanical Engineering degree at Purdue University titled &quot;Load Response of Topologically Interlocked Material Systems - Archimedean and Laves Tilings.&quot;&lt;/p&gt;

&lt;p&gt;There is one file for each of the [4&lt;sup&gt;4&lt;/sup&gt;], [3.6.3.6], [3.4.6.4], [3&lt;sup&gt;6&lt;/sup&gt;], (4.8&lt;sup&gt;2&lt;/sup&gt;), and (4.6.12) tilings. Many parameters can be altered including specifications for the symmetry condition of the frame, the load type and direction, the block dimensions, and the number of blocks. Additionally, there are parameters for the material properties, mesh density, simulation settings, etc. A gap may also be added between blocks to enable 3D printing of the entire assembly.&lt;/p&gt;

&lt;p&gt;This work was supported by NSF Award 1662177.&lt;/p&gt;
description: A set of six python scripts that parametrically generate ABAQUS models to simulate the response of TIM systems based on the Archimedean and Laves tilings subjected to body force and displacement loading. These were created for a Master's Thesis at...
DOI: 10.4231/08kp-6a11
title: Soil and Water Assessment Tool (SWAT) Instructional Videos

description: &lt;p&gt;These videos provide an introduction to the Soil and Water Assessment Tool (SWAT), a watershed scale model developed by the United States Department of Agriculture. It simulates long-term impacts of land use, land management, and climate change on hydrology and water quality, and is widely used around the world to improve water resource decisions. It is a comprehensive semi-distributed model that incorporates detailed information on topography, vegetation, soil, weather and land management practices within the watershed to simulate daily and sub-daily processes, using open source code with free geographic information system interfaces available for both ArcGIS and QGIS. These videos use the ArcSWAT interface. SWAT has been used in a wide range of water management studies conducted by university researchers, industrial and government agencies.&lt;/p&gt;

&lt;p&gt;The videos were developed in response to the need for accessible instruction on using SWAT around the world. Learning to use SWAT is difficult due to the variety and number of input files, range of optional features and required decisions to be made by users, and the videos, which are also available at &lt;a href="https://swat.tamu.edu/"&gt;https://swat.tamu.edu/&lt;/a&gt;, provide a resource for the SWAT user community.&lt;/p&gt;
description: Instructional videos for the Soil and Water Assessment Tool (SWAT)
DOI: 10.4231/anmv-j384
title: Microbial decomposition processes and vulnerable arctic soil organic carbon in the 21st century

description: &lt;p&gt;This study used a detailed microbial-based soil decomposition biogeochemistry model to examine the fate of large Arctic soil carbon under changing climate conditions. We found that the detailed microbial decomposition biogeochemistry model estimated a much lower carbon accumulation in the region during this century. The size of soil carbon considered in the 21st century simulations determines the regional carbon sink and source strengths, regardless of the complexity of models used. This study highlights the importance of representation of microbial activities and the sizes of soil carbon considered in earth system modeling. The data provided here are in Matlab format.&lt;/p&gt;
description: Various levels of representations of biogeochemical processes in current biogeochemistry models contribute to uncertainty in carbon budget quantification. Detailed microbial mechanisms were incorporated into TEM 5.0 (Terrestrial Ecosystem Model).
DOI: 10.4231/1ern-qq28
title: Lipidome profiles of postnatal day 2 vaginal swabs reflect fat composition of gilt’s postnatal diet.

description: &lt;p&gt;We hypothesized that postnatal development of the vagina is impacted by early nutritional environment. Our objective was to determine if lipid profiles of vaginal swabs were different between gilts suckled by sow or fed milk replacer the first 48 h postpartum, with and without a lard-based fat supplement. Gilts (&gt;1.3 kg) were selected at birth across 8 litters and assigned to treatments: colostrum suckled (S, n=8); S plus fat supplement (SF, n=5); bottle-fed milk replacer (B, n=8); or B plus fat supplement (BF, n=7). At 48 h postnatal, vaginal swabs were taken with a cytology brush, immersed in ultrapure water to burst cells, and lipids extracted for analysis using multiple reaction monitoring (MRM)-profiling. Lipids extracted from serum collected at 48 h from gilts and milk collected from sows at 24 h were also analyzed with MRM-profiling. Receiver operating characteristic curve analysis found 18 lipids highly distinguished [area-under-the-curve (AUC) &gt; 0.9] between S and B gilts, including phosphatidylethanolamine with 34 carbon and four unsaturations in the fatty acyl residues [PE(34:4)]. Twelve lipids from vaginal swabs highly correlated (r &gt; 0.6; p &lt; 0.01) with nutrition source. Lipids more abundant in milk replacer drove association. For example, mean intensity of PE (34:4) was 149-fold higher in milk replacer than colostrum, with 1.6- and 2.12-fold higher levels in serum and vaginal swab samples (p &lt; 0.001), respectively, of B versus S gilts. Findings support that vaginal swabs can be used to noninvasively study effects of perinatal nutrition on tissue composition.&lt;/p&gt;
description: We investigated the efficacy of using MRM-profiling of vaginal lipids to differentiate PND 2 vaginal swabs between gilts suckled by sow or fed milk replacer and tested the effect of a lard based supplement on vaginal lipid profiles of gilts.
DOI: 10.4231/mv0z-8z57
title: A Multi-state Model of the CaMKII Holoenzyme using MCell 3.3

description: &lt;p&gt;In the hippocampus, the dynamic fluctuation in size and strength of neuronal connections is thought to underlie learning and memory processes. These fluctuations, called synaptic plasticity, are in-part regulated by the protein calcium/calmodulin-dependent kinase II (CaMKII). During synaptic plasticity, CaMKII becomes activated in the presence of calcium ions (Ca&lt;sup&gt;2+&lt;/sup&gt;) and calmodulin (CaM), allowing it to interact enzymatically with downstream binding partners. Interestingly, activated CaMKII can phosphorylate itself, resulting in state changes that allow CaMKII to be functionally active independent of Ca&lt;sup&gt;2+&lt;/sup&gt;/CaM. Phosphorylation of CaMKII at Thr-286/287 has been shown to be a critical component of learning and memory. To explore the molecular mechanisms that regulate the activity of CaMKII holoenzymes, we use a rule-based approach that reduces computational complexity normally associated with representing the wide variety of functional states that a CaMKII holoenzyme can adopt. Using this approach we observe regulatory mechanisms that might be obscured by reductive approaches. Our results newly suggest that CaMKII phosphorylation at Thr-286/287 is stabilized by a mechanism in which CaM structurally excludes phosphatase binding at that site.&lt;/p&gt;
description: This model uses a specialized rule-based syntax in MCell 3.3 to model the twelve-subunit CaMKII holoenzyme without inducing combinatorial explosion. The model allows us to explore the regulation of CaMKII activation and autophosphorylation.
DOI: 10.4231/cnw9-gs78
title: Seneca Lake gas storage survey

description: &lt;p&gt;The two datasets represent two waves of the survey tracking the change of trust toward risk managers over time. Data collection took place through Qualtrics and mail. Cases listed without &quot;response ID,&quot; for example, represent responses collected via mail and manually added to the dataset. Full details of the nature of the survey are available in Hwanseok Song&#39;s dissertation, available at &lt;a href="https://doi.org/10.7298/X45X274K"&gt;https://doi.org/10.7298/X45X274K&lt;/a&gt; or upon request (song573@purdue.edu).&lt;/p&gt;
description: The current data files show results of a survey related to a local environmental dispute over a gas storage near Seneca Lake. Data were collected for the author's dissertation project (https://doi.org/10.7298/X45X274K).
DOI: 10.4231/y0zq-4946
title: Part-of-Speech Tagged Building Codes (PTBC)

description: &lt;p&gt;This dataset of Part-of-Speech (POS) tagged building codes contains 1,522 sentences from Chapters 5 and 10 of 2015 International Building Code. It adopts the original version of Penn Treebank tag set for the POS tags. It includes tagging results from 5 human annotators and 7 machine taggers. It also provides the most commonly chosen POS tag for each word by machine taggers and by human annotators. For detailed explanations of the meanings of the POS tags, please refer to &lt;em&gt;Building a Large Annotated Corpus of English: The Penn Treebank &lt;/em&gt;[1]. For an explanation of the development of this dataset, please refer to the following paper [2].&lt;/p&gt;

&lt;p&gt;The authors would like to thank the National Science Foundation (NSF). This material is based on work supported by the NSF under Grant No. 1827733. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the NSF.&lt;/p&gt;

&lt;p&gt;&lt;em&gt;1. Marcus, Mitchell &amp; Ann Marcinkiewicz, Mary &amp; Santorini, Beatrice. (2002). Building a Large Annotated Corpus of English: The Penn Treebank. Computational Linguistics. 19. 313-330.&lt;/em&gt;&lt;/p&gt;

&lt;p&gt;&lt;em&gt;2. Xue, X., and Zhang, J. (2019). &quot;Evaluation of Seven Part-of-Speech Taggers in Tagging Building Codes: Identifying the Best Performing Tagger and Common Sources of Errors.&quot; Proc., ASCE Construction Research Congress, ASCE, Reston, VA, submitted.&lt;/em&gt;&lt;/p&gt;
description: This a natural language dataset of Part-of-Speech (POS) tagged building codes. It includes 1,522 sentences of text from Chapters 5 and 10 of 2015 International Building Code. It adopted the Penn Treebank tag set.
DOI: 10.4231/w1m6-4651
title: Global Methane Fluxes from Wetland using Mechanistically-based Biogeochemistry Model

description: &lt;p&gt;Quantification of methane (CH&lt;sub&gt;4&lt;/sub&gt;) emissions from wetlands and its sinks from uplands is still fraught with large uncertainties. Here, a methane biogeochemistry model was revised, parameterized and verified for various wetland ecosystems across the globe. We used this model to extrapolate in global scale to estimate the methane emission and consumption during 1950-2012. The entire simulation was conducted in Linux environment. Supercomputing resources were provided by the Rosen Center for Advanced Computing at Purdue University. The input data, output data and visualizations were processed using IDL language. The summary.xlsx can be opened by the Microsoft EXCEL 2010 or later version. Flux data like *.sav can be opened using IDL.&lt;/p&gt;

&lt;p&gt;This dataset supports the manuscript &quot;Uncertainty Quantification of Global Net Methane Emissions from Terrestrial Ecosystems Using a Mechanistically-based Biogeochemistry Model&quot; currently under review. Before reusing this data, please contact the authors for recent updates.&lt;/p&gt;
description: Methane flux output from Terrestrial Ecosystem Model and Methane Dynamics Model (TEM-MDM) and data used in visualization.
DOI: 10.4231/0evk-9p12
title: Eye-tracking Metrics Predicts Perceived Workload in Robotic Surgical Skills Training

description: &lt;p&gt;Robotic surgery offers potential benefits of smaller incisions and shortened recovery time. Yet the technical complexity may increase surgeons&rsquo; workload. This study aims to assess the capability of eye-tracking metrics for monitoring mental workload in simulated robotic surgery tasks. Eight surgical trainees participated in 15 robotic skills simulation sessions. In each session, participants performed up to 12 simulated exercises. Performance was assessed by the robotic system. Participants completed the NASA-TLX survey after every completion of an exercise. Throughout all exercises, a wearable eye tracker, Tobii Pro Glasses 2.0, was used to sample pupil diameter and gaze point at 50Hz. Four main metrics were derived from the eye-tracking signals: pupil diameter, gaze entropy, fixation duration and PERCLOS. Related publication: &quot;&lt;a href="https://journals.sagepub.com/doi/full/10.1177/0018720819874544?url_ver=Z39.88-2003&amp;rfr_id=ori%3Arid%3Acrossref.org&amp;rfr_dat=cr_pub%3Dpubmed"&gt;Eye-Tracking Metrics Predict Perceived Workload in Robotic Surgical Skills Training&lt;/a&gt;&quot;.&lt;/p&gt;
description: Eye-tracking data and NASA-TLX ratings during robotic surgical training.
DOI: 10.4231/rdn7-ps52
title: Method for Extracting True Stress and Strain Hardening Coefficient from TEM in situ Compression Testing

description: &lt;p&gt;This algorithm package was developed for the Journal of Magnetic Resonance (JMR) article &quot;Understanding Plasticity in Irradiated Alloys through TEM in situ Compression Pillar Tests.&quot; It will be also accessible as open source code on Github after publication.&lt;/p&gt;

&lt;p&gt;Data files were created in Matlab 2108b, and are accompanied by example test files and a detailed user manual.&lt;/p&gt;
description: This algorithm package can automatically process transmission electron microscope (TEM) in situ micropillar compression test videos to extract the instantaneous pillar dimensions, then determine the true stress-strain curves and strain hardening...