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3,118 results for “resources”
DBFZ Resource Database: DE-Biomass Monitor. Biomass Potentials and Utilization of Biogenic Wastes and Residues in Germany 2010-2020
<p>Excerpt from the<a href="https://datalab.dbfz.de/resdb?lang=en"> DBFZ Resource Database</a> (DE Biomass Monitor) as of 02.12.2024 (v6.3.2).</p>
Distributing quantum correlations through local operations and classical resources
<p>Text files containing data of the figures shown in "Distributing quantum correlations through local operations and classical resources". Where some variables do not affect the plot value, for instance the values of φ in Figures 4a and 4b, fewer plot points of these variables are used in the final heatmaps to allow more detail in the other variables which do affect the function values. https://arxiv.org/abs/2408.05490. </p>
Byproduct-to-host ratios for assessing the accessibility of mineral resources
<p>This repository contains the supplementary information files of the article "Byproduct-to-host ratios for assessing the accessibility of mineral resources", published in the journal Environmental Sciences & Technology. This version of SI files is more documented than the previous one and with reference added to the article.</p> <ul> <li>"SI_1_BtH_ratios_v0.1.xlsx" contains both input data and results of the article</li> <li>"SI_2_Historic_prices.xlsx" contains the historical market price of mineral resources covered in the study</li> <li>"SI_3_Representavity_dataset.xlsx" containts the dataset required to evaluate the representativity of the dataset with regards to alternative estimates in the literature</li> <li>"SI_4_RR_LitReview.xlsx" show the data collected during the literature review of minerals recovery rates along global supply chains</li> <li>"SI_5_Production_2021.xlsx" provides the primary production of minerals in 2021</li> <li>"SI_6_Host_byproduct_Greffe2024.docx" provides additional information on the methodology and data collection</li> <li>"SI_7_Representativity_results.xlsx" contains the output results of the representativity check, using data from supporting information 1 and supporting information 3</li> </ul> <p>BtH ratios are obtained using "ResC" data in "SI_1_BtH_ratios_v0.1.xlsx" and using the byproduct_host_ratio python class available at: https://github.com/TitouanGreffe/BtH_ratios</p> <p>Article here: <a title="DOI URL" href="https://doi.org/10.1021/acs.est.4c05293">https://doi.org/10.1021/acs.est.4c05293</a></p>
Resources of IncRML: Incremental Knowledge Graph Construction from Heterogeneous Data Sources
<h2>IncRML resources</h2> <p>This Zenodo dataset contains all the resources of the paper 'IncRML: Incremental Knowledge Graph Construction from Heterogeneous Data Sources' submitted to the Semantic Web Journal's Special Issue on Knowledge Graph Construction. This resource aims to make the paper experiments fully reproducible through our <a href="https://github.com/kg-construct/exectool" target="_blank" rel="noopener">experiment tool</a> written in Python which was already used before in the <a href="https://doi.org/10.5281/zenodo.7837289" target="_blank" rel="noopener">Knowledge Graph Construction Challenge by the ESWC 2023 Workshop on Knowledge Graph Construction</a>. The exact Java JAR file of the RMLMapper (rmlmapper.jar) is also provided in this dataset which was used to execute the experiments. This JAR file was executed with Java OpenJDK 11.0.20.1 on Ubuntu 22.04.1 LTS (Linux 5.15.0-53-generic). Each experiment was executed 5 times and the median values are reported together with the standard deviation of the measurements.</p> <h2>Datasets</h2> <p>We provide both dataset dumps of the GTFS-Madrid-Benchmark and of real-life use cases from Open Data in Belgium.<br>GTFS-Madrid-Benchmark dumps are used to analyze the impact on execution time and resources, while the real-life use cases aim to verify the approach on different types of datasets since the GTFS-Madrid-Benchmark is a single type of dataset which does not advertise changes at all.</p> <h3>Benchmarks</h3> <ul> <li>GTFS-Madrid-Benchmark: change types with fixed data size and amount of changes: additions-only, modifications-only, deletions-only (11 versions)</li> <li>GTFS-Madrid-Benchmark: amount of changes with fixed data size: 0%, 25%, 50%, 75%, and 100% changes (11 versions)</li> <li>GTFS-Madrid-Benchmark: data size with fixed amount of changes: scales 1, 10, 100 (11 versions)</li> </ul> <h3>Real-world datasets</h3> <ul> <li>Traffic control center Vlaams Verkeerscentrum (Belgium): traffic board messages data (1 day, 28760 versions)</li> <li>Meteorological institute KMI (Belgium): weather sensor data (1 day, 144 versions)</li> <li>Public transport agency NMBS (Belgium): train schedule data (1 week, 7 versions)</li> <li>Public transport agency De Lijn (Belgium): busses schedule data (1 week, 7 versions)</li> <li>Bike-sharing company BlueBike (Belgium): bike-sharing availability data (1 day, 1440 versions)</li> <li>Bike-sharing company JCDecaux (EU): bike-sharing availability data (1 day, 1440 versions)</li> <li>OpenStreetMap (World): geographical map data (1 day, 1440 versions)</li> </ul> <h3>Ingestion</h3> <p>Real-world datasets LDES output was converted into SPARQL UPDATE queries and executed against Virtuoso to have an estimate for non-LDES clients how incremental generation impacted ingestion into triplestores.</p> <h2>Remarks</h2> <ol> <li>The first version of each dataset is always used as a baseline. All next versions are applied as an update on the existing version. The reported results are only focusing on the updates since these are the actual incremental generation.</li> <li>GTFS-Change-50_percent-{ALL, CHANGE}.tar.xz datasets are not uploaded as GTFS-Madrid-Benchmark scale 100 because both share the same parameters (50% changes, scale 100). Please use GTFS-Scale-100-{ALL, CHANGE}.tar.xz for GTFS-Change-50_percent-{ALL, CHANGE}.tar.xz</li> <li>All datasets are compressed with XZ and provided as a TAR archive, be aware that you need sufficient space to decompress these archives! 2 TB of free space is advised to decompress all benchmarks and use cases. The expected output is provided as a ZIP file in each TAR archive, decompressing these requires even more space (4 TB).</li> </ol> <h2>Reproducing</h2> <p>By using our <a href="https://github.com/kg-construct/exectool" target="_blank" rel="noopener">experiment tool</a>, you can easily reproduce the experiments as followed:</p> <ol> <li>Download one of the TAR.XZ archives and unpack them.</li> <li>Clone the GitHub repository of our experiment tool and install the Python dependencies with '<em>pip install -r requirements.txt'.</em></li> <li>Download the rmlmapper.jar JAR file from this Zenodo dataset and place it inside the experiment tool root folder.</li> <li>Execute the tool by running: '<em>./exectool --root=/path/to/the/root/of/the/tarxz/archive --runs=5 run</em>'. The argument '<em>--runs=5</em>' is used to perform the experiment 5 times.</li> <li>Once executed, you can generate the statistics by running: '<em>./exectool --root=/path/to/the/root/of/the/tarxz/archive stats</em>'.</li> </ol> <h2>Testcases</h2> <p>Testcases to verify the integration of RML and LDES with IncRML, see <a href="https://doi.org/10.5281/zenodo.10171394">https://doi.org/10.5281/zenodo.10171394</a></p>
Resource Description Framework (RDF) Modeling of Named Entity Co-occurrences in Biomedical Literature and Its Integration with PubChemRDF
<p>This Zenodo record contains the co-occurrence RDF data generated in the work described in the paper “<strong>A resource description framework (RDF) model of named entity co-occurrences in biomedical literature and its integration with PubChemRDF</strong>” by Li et al., published in the Journal of Cheminformatics (<a href="https://doi.org/10.1186/s13321-025-01017-0" target="_blank" rel="noopener">https://doi.org/10.1186/s13321-025-01017-0</a>). It also contains the SPARQL query examples, the RDF schema in SHACL and ShEx, and the validation scripts.</p> <p>All content in this Zenodo record is for archival purposes. The latest version of the co-occurrence RDF data and other PubChemRDF data can be accessed via the PubChem FTP site (<a href="https://ftp.ncbi.nlm.nih.gov/pubchem/RDF/" target="_blank" rel="noopener">https://ftp.ncbi.nlm.nih.gov/pubchem/RDF/</a>). The up-to-date RDF schema in various formats is available on the PubChemRDF Schema page (<a href="https://pubchem.ncbi.nlm.nih.gov/docs/rdf-schema" target="_blank" rel="noopener">https://pubchem.ncbi.nlm.nih.gov/docs/rdf-schema</a>). A set of SPARQL query examples can be found on the PubChemRDF use case pages (<a href="https://pubchem.ncbi.nlm.nih.gov/docs/rdf-use-cases" target="_blank" rel="noopener">https://pubchem.ncbi.nlm.nih.gov/docs/rdf-use-cases</a>).</p>
Database Search Results for Resource Management in Converged Optical and MillimeterWave Radio Networks Review
<p><strong>Paper Selection Procedure</strong></p> <p>In order to conduct the survey titled "Resource Management in Converged Optical and MillimeterWave Radio Networks: A Review", the authors reviewed works published in the literature with a focus on those that cover most of the identified optimization requirements for converged optical fronthaul and mmWave wireless access networks. The research method is based on the research steps given in "The PRISMA 2020 statement"[1]. The selection procedure is also illustrated in "Database Search Flow Chart.png" figure.</p> <p>The first step was the selection of the papers. We completed this step by making database searches in the ACM, Elsevier (Science Direct), IEEE, IET, MDPI, Optical Society (OSA), Springer, Taylor & Francis, and Wiley online library databases with keywords ``resource allocation AND converged mmWave fiber wireless (FiWi)'', ``resource management AND converged mmWave fiber wireless (FiWi)'', and ``resource allocation AND converged fiber wireless (FiWi)''. The searches in all databases were completed in May 2021. The resulting collection was screened, to exclude non-scientific texts, book chapters, out of context papers, and survey papers. The remaining 189 papers found in our database search are provided in the excel file titled "FiWi Resource Allocation Database Search.xlsx".</p> <p>Among these papers, our selection criteria was created to present the works that are most relevant to the target network architecture, providing novel implementation solutions to the requirements of the optimization objective. The criteria selected for our eligibility step can be summarized as follows:</p> <ul> <li>The study provided a sound research approach and published after a scholarly review process;</li> <li>The study had a resource management optimization objective for mmWave networks;</li> <li>The study explained the system model and proposed a well-defined optimization algorithm;</li> <li>The effects of the algorithm on a performance metric was reported and the different aspects of the performance metric was analyzed with different evaluation criteria.</li> </ul> <p>This review is limited to the focus scope on converged optical and mmWave radio network solutions and by the databases taken into consideration. The prioritization of the works that address a well-defined optimization algorithm led to the omission of relevant papers. We did not include works that do not clearly define a resource management objective, i.e., a study that focuses on the the hardware implementation aspects of optical and mmWave radio networks with no resource management perspective. We manually excluded all studies that do not match these criteria with a simple scoring system, in which a point is deducted from an eligible paper for each missing criterion. The initial screening process and the data collection steps were carried out by the first author and the final inclusion decision was made by all the reviewers for the studies with the highest scores. After this screening process, we identified 37 papers that focused on at least one of the resource management objectives of throughput maximization, delay minimization, energy-efficiency, and virtualized resource allocation. The papers that have joint objectives are classified under their main optimization focus of that paper. The list of the selected papers are provided in "FiWi Resource Allocation Papers Selected for Review.xlsx" file. Our target in this review is to understand the recent optimization techniques used in resource allocation for converged optical fronthaul and radio mmWave access network implementations, therefore we focused our search to the works completed in the last five years (between 2016 and 2021), and approximately 95% of the selected papers fit under this category.</p> <p><strong>Overview of the data collected from selected papers</strong></p> <p>In this section, we provide answers to the three following questions with the data collected from the eligible studies:</p> <ul> <li>Question 1: Which algorithms are used more often in performance optimization in converged mmWave networks?</li> <li>Question 2: Which performance metrics are determined to show that the optimization method achieves the objective?</li> <li>Question 3: Which criteria are used to evaluate the solution method?</li> </ul> <p>Regarding the first question, the figure titled "Distribution of Optimization Algorithms in Selected Papers" shows the distribution of the optimization algorithms used by the selected papers. The distribution of the main performance metrics according to the resource optimization objectives is given in Table 1 (Distribution of Evaluation Criteria) and the evaluation criteria to test the performances of the selected papers are grouped in Table 2 (Distribution of Main Performance Metrics Depending on Optimization Objectives), which shows how many times each criterion is used together with how many of the resource management objectives use these criterion.</p> <p><strong>References: </strong></p> <p>[1] Page, M.J.; McKenzie, J.E.; Bossuyt, P.M.; Boutron, I.; Hoffmann, T.C.; Mulrow, C.D.; Shamseer, L.; Tetzlaff, J.M.; Akl, E.A.;Brennan, S.E.; Chou, R.; Glanville, J.; Grimshaw, J.M.; Hróbjartsson, A.; Lalu, M.M.; Li, T.; Loder, E.W.; Mayo-Wilson, E.;McDonald, S.; McGuinness, L.A.; Stewart, L.A.; Thomas, J.; Tricco, A.C.; Welch, V.A.; Whiting, P.; Moher, D. The PRISMA 2020statement: an updated guideline for reporting systematic reviews.Systematic Reviews2021,10. doi:10.1186/s13643-021-01626-4.</p>
Data and codes related to the article: Renard et al. A Hidden Climate Indices Modeling Framework for Multi-Variable Space-Time Data. Water Resources Research.
<p>This package contains data and codes related to the article:</p> <p>B. Renard, M. Thyer, D. McInerney, D. Kavetski, M. Leonard and S. Westra. A Hidden Climate Indices Modeling Framework for Multi-Variable Space-Time Data. <em>Water Resources Research</em>.</p> <p><strong>R scripts</strong></p> <p>The main computations of the paper have been performed using a computing code named <a href="https://github.com/STooDs-tools">STooDs</a>, which is called using the bash script launchpad.sh.</p> <p>The R scripts in this package only perform pre-processing (create configuration files) and post-processing (analyze results) steps.</p> <ul> <li>Funk.R: a set of functions called by other scripts.</li> <li>1_defineModel.R: define the model to be inferred and create STooDs configuration files in <em>dataset_XXX/runs.</em></li> <li>2_analyzeResults.R: analyze the outputs of STooDs runs.</li> <li>3_crossValidation.R: analyze the outputs of cross-validation experiments in <em>dataset_XV</em> and <em>dataset_XV_1971-1990</em>.</li> </ul> <p><strong>Data</strong></p> <p>Data for the 3 cases (full dataset and 2 cross-validation experiments) are located in folders <em>dataset_XXX/data</em>.</p> <ul> <li>dat.txt: raw dataset in text format.</li> <li>dataset.RData: dataset in RData format.</li> <li>DMI.txt, NINO.txt, SAM.txt: 3 standard climate indices.</li> <li>spaceP.txt, spaceQ.txt, spaceT.txt: properties of Precipitation (P), Streamflow (Q) and Temperature (T) stations.</li> <li>[only for cross-validation experiments] validation.RData: left-out data used for validation.</li> </ul> <p> </p> <p> </p>
Machine Assisted Translation of Wikipedia Articles into Low Resource Languages
<p><strong>Wikipedia is the largest encyclopedia ever assembled with the vision of enabling every human being to freely share in the sum of all knowledge. Wikipedia currently has a total of more than six million articles and over 17 billion words in its English edition. Unfortunately, millions of people cannot access this resource because it’s not available in their language. For instance, at the moment there are only 218 Tigrinya Wikipedia and 15,018 Amharic Wikipedia articles.</strong></p> <p><strong>In this project, we investigate the problem of translating Wikipedia articles from a high resource language into low resource languages using human-in-the-loop MT systems. In particular, we investigate different approaches to translate a sample of English Wikipedia articles into Tigrinya and Amharic. Currently, this repository contains 100k English Wikipeida abstracts translated using Lesan (https://lesan.ai) into Amharic and Tigrinya.</strong><br> <br> </p> <p><strong>Structure of data directory:</strong></p> <p><strong>data<br> ├── human<br> └── mt<br> ├── google<br> ├── lesan<br> │ ├── am.txt<br> │ ├── en.txt<br> │ └── ti.txt<br> └── microsoft</strong><br> </p>
The Reddit Politosphere: A Large-Scale Text and Network Resource of Online Political Discourse
<p>The Reddit Politosphere is a large-scale resource of online political discourse covering more than 600 political discussion groups over a period of 12 years. Based on the <a href="https://doi.org/10.5281/zenodo.3608135">Pushshift Reddit Dataset</a>, it is to the best of our knowledge the largest and ideologically most comprehensive dataset of its type now available. One key feature of the Reddit Politosphere is that it consists of both text and network data. We also release annotated metadata for subreddits and users.</p> <p>Documentation and scripts for easy data access are provided in an associated <a href="https://github.com/valentinhofmann/politosphere">repository</a> on GitHub.</p>
Resource allocation underlies parental decision-making during incubation in the Manx shearwater
<p>Examining resource allocation is fundamental to understanding the relationships between a species' behaviour and its life history. Furthermore, for biparentally-caring animals, examining the relative investment decisions made by members of a breeding pair can give insight into the extent and nature of cooperative care. As a key measure of resource availability, examining body mass changes can help elucidate the ways in which parents balance their allocation. In birds, these trade-offs become particularly stark during incubation, as maintaining constant egg warming usually requires one parent to fast. This period therefore represents a key opportunity to investigate investment decisions. We took daily measurements of body mass from breeding Manx shearwaters, a biparentally-caring seabird, during incubation, and related this to measures of nest attendance and behaviour collected using field observations and miniaturised biologgers. We investigated how changes in body mass related to the decisions made at the nest and at sea, whether this differed between the sexes, and whether pair experience influenced incubation behaviour. We found that while body mass predicted the probability that incubating birds would choose to temporarily desert the nest, incubation shift duration was ultimately set by return of the foraging bird. The trip durations of foraging birds in turn were primarily dictated by their body mass reserves on departure from the nest. However, foragers appeared to account for the condition of the incubating partner, returning from sea earlier when their partner was in poor condition. Our results contribute to understanding the mechanisms by which individuals regulate both their own and their partner's incubation behaviour, with implications for interacting with fine-scale resource availability.</p> <p> </p>
Synergistic HNO3–H2SO4–NH3 upper tropospheric particle formation: data resources & code
<p>Data presented in the manuscript "Synergistic HNO3–H2SO4–NH3 upper tropospheric particle formation" currently in review.</p> <p>The manuscript associated with this data was written using results from the CLOUD experiment at CERN, and the author list is a subset of the CLOUD collaboration.</p>
Global Agricultural Land Resources – A High Resolution Suitability Evaluation and Its Perspectives until 2100 under Climate Change Conditions (v3.0)
<p><strong>Agricultural land resources – a global suitability evaluation (v3.0)</strong></p> <p>Local climate, soil and topography determine the conditions under which agricultural crops are suitable for growth or not. The methodology uses a fuzzy logic approach that is described in Zabel et al. (2014). The approach is based on Liebig's law of the minimum. Accordingly, plant suitability is determined not by total available resources, but by the scarcest resource. The limiting factor depends on the local environmental conditions and the crop-specific requirements, that are taken from literature. </p> <p><strong>Determining Agricultural Suitability</strong></p> <p>Agricultural suitability is calculated for each of 5 climate models (GFDL, HadGEM2, IPSL, MIROC and NorESM1) from the AR5 ISIMIP fast track protocol. Daily climate model data for temperature, precipitation and solar radiation are statistically downscaled to 30 arc seconds spatial resolution. A monthly bias-correction is applied using WorldClim data. The provided suitability data refers to the model median over the 5 climate simulations. Soil data is taken from the Harmonized World Soil Database (HWSD) v1.21. Considered soil properties are texture, proportion of coarse fragments and gypsum, base saturation, pH content, organic carbon content, salinity, sodicity. Soil depth is taken into account according to Pelletier et al. (2015). Topography data is applied from the Shuttle Radar Topography Mission (SRTM). Irrigation has strong impact on the suitability of crops and is considered in this approach.</p> <p><strong>Agricultural Suitability</strong></p> <p>The agricultural suitability data is provided at a spatial resolution of 30 arc seconds (approximately 1 km<sup>2</sup> at the equator). The dataset contains four time periods (1980-2009, 2010-2039, 2040-2069, 2070-2099) and two climate change scenarios (RCP2.6 and RCP 8.5). Agricultural suitability is provided for rainfed conditions and for irrigated conditions seperately. Additionally, we provide a dataset in which the current irrigation areas according to Maier et al. (2018) are applied. The suitability is provided for 23 food, feed, fibre, and 1st and 2nd generation bio-energy crops. An 'overall suitability' is provided for all crops that considers the most suitable crop on each pixel. Additionally, we provide a dataset excluding 2nd generation bioenergy crops (18-23) from the overall aggregation of crops.</p> <table> <caption><strong>Food, feed, fiber and first-generation bioenergy crops</strong></caption> <tbody> <tr> <td>Barley</td> <td>Potato</td> <td>Sugarbeet</td> </tr> <tr> <td>Cassava</td> <td>Rapeseed</td> <td>Sugarcane</td> </tr> <tr> <td>Groundnut</td> <td>Rice</td> <td>Sunflower</td> </tr> <tr> <td>Maize</td> <td>Rye</td> <td>Summer wheat</td> </tr> <tr> <td>Millet</td> <td>Sorghum</td> <td>Winter wheat</td> </tr> <tr> <td>Oilpalm</td> <td>Soybean</td> <td> </td> </tr> </tbody> </table> <table> <caption> <p><strong>Second-generation bioenergy crops</strong></p> </caption> <tbody> <tr> <td>Jatropha</td> <td>Reed canary grass</td> </tr> <tr> <td>Miscanthus</td> <td>Eucalyptus</td> </tr> <tr> <td>Switchgrass</td> <td>Willow</td> </tr> </tbody> </table> <p><strong>Growing Season Adaptation</strong></p> <p>The agricultural suitability considers the adaptation of the growing season. For each pixel and crop, the growing season is optimized throughout the year, taking the annual course of precipitation, temperature, and solar radiation as well as their interplay, into account.</p> <p><strong>Most Suitable Crop</strong></p> <p>The most suitable crop for each pixel is provided in the data. Please note that a value of 126 means that no crop suitable and 127 means that multiple crops have the same suitability.</p> <p><strong>Further information</strong></p> <p>Detailled information are available in the following publications:</p> <p>Zabel F, Putzenlechner B, Mauser W (2014) Global Agricultural Land Resources – A High Resolution Suitability Evaluation and Its Perspectives until 2100 under Climate Change Conditions. PLOS ONE 9(9): e107522. doi: <a href="https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0107522">10.1371/journal.pone.0107522</a></p> <p>Cronin, J., Zabel, F., Dessens, O., Anandarajah, G. (2020): Land suitability for energy crops under scenarios of climate change and land-use. GCB Bioenergy, 12(8). doi: <a href="https://onlinelibrary.wiley.com/doi/full/10.1111/gcbb.12697">10.1111/gcbb.12697</a></p> <p>Schneider. J.M., Zabel, F., Mauser, W. (2022): Global inventory of suitable, cultivable and available cropland under different scenarios and policies. Scientific Data 9, 527. doi: <a href="https://doi.org/10.1038/s41597-022-01632-8">10.1038/s41597-022-01632-8</a></p> <p>Meier, J., Zabel, F., Mauser, W. (2018): A global approach to estimate irrigated areas – a comparison between different data and statistics. Hydrol. Earth Syst. Sci., 22, 1119–1133, 2018. doi: <a href="https://hess.copernicus.org/articles/22/1119/2018/">10.5194/hess-22-1119-201</a></p> <p>Pelletier, J. D., Broxton, P. D., Hazenberg, P., Zeng, X., Troch, P. A., Niu, G.-Y., Williams, Z., Brunke, M. A., and Gochis, D. (2016), A gridded global data set of soil, immobile regolith, and sedimentary deposit thicknesses for regional and global land surface modeling, <em>J. Adv. Model. Earth Syst.</em>, 8, 41– 65, doi: <a href="https://doi.org/10.1002/2015MS000526">10.1002/2015MS000526</a>.</p> <p><strong>Improvements in v3.0</strong></p> <p>Compared to the previous version (<a href="https://zenodo.org/record/3748350">v2.0</a>), this version (v3.0) <em>uses updated input data for soil (HWSD v1.21) and high resolution irrigated areas (Maier et al. 2018), and additionally considers soil depth (Pelletier et al. 2016). Moreover, the suitability is calculated for an ensemble of 5 climate models, and is available for more crops, including a number of second generation bioenergy crops.</em></p> <p><strong>Contact</strong></p> <p>Please contact: Dr. Florian Zabel, <a href="mailto:f.zabel@lmu.de">f.zabel@lmu.de</a>, Department of Geography, LMU München (<a href="http://www.geografie.uni-muenchen.de">www.geografie.uni-muenchen.de</a>)</p>
Data for: The interaction between metabolic rate, habitat choice, and resource use in a polymorphic freshwater species
<p>Raw respirometry data and respirometry code</p> <p>Data.xlsx is the data about each fish that was used for all analyses including Stable Isotope values, length, weight, sex, and habitat. This is the data that is used in the R code. </p> <p>Example code of the models used in our analyses</p> <p>TEF_metabolism.xlsx is data on the fish that were kept in the lab for almost a year. </p> <p> </p>
Datasets and R code for: Brood as booty: The effect of colony size and resource value in social insect contests
<p><strong>From the Manuscript: </strong>Animals engage in contests for access to resources like food, mates, and space. Intergroup contests between groups of organisms have received little attention, and it remains unresolved what information groups might use collectively to make contest decisions. We staged whole-colony contests using ant colonies (<em>Temnothorax rugatulus</em>), which perceive conspecific colonies as both a threat and resource from which to steal brood. We recorded individual behaviors and used demographic characteristics as proxies for resource value (number of brood items) and fighting ability (number of workers). We found that ants altered their fighting effort depending on the relative number of workers of their opponent. While the proximate mechanism for this ability remains uncertain, we found that colonies increased fighting when their opponent had relatively more brood, but not if opposing colonies had relatively many more workers. This suggests that ant colonies can use information about opposing colonies that shapes contest strategies. Further, the behavior of opposing colonies were strongly correlated with each other despite colony size differences ranging from 4-51%, consistent with the hypothesis that colonies can use opponent information. The behavior of a distributed, collective system of many individuals, like a eusocial insect colony, thus fits several predictions of contest models designed for individuals if we consider the gain and loss of worker ants analogous to energetic costs accrued during typical dyadic contests.</p>
ATAC-seq processing resources for the GRCh38 (hg38) assembly of the human genome
<p>A collection of publicly available, but preprocessed, reference data for the analysis of ATAC-seq samples using the GRCh38 (hg38) assembly of the human genome using the <a href="https://doi.org/10.5281/zenodo.6323634">Ultimate ATAC-seq Data Processing & Analysis Pipeline</a> (details in the documentation on GitHub).</p>
A Data Resource for Prediction of Thermodynamic Properties of Small Molecules
<p>We developed a database of 2869 experimental values of enthalpy of formation and 1403 values for entropy for substances composed of stable small molecules, derived from the literature. We developed a model for predicting enthalpy of formation and entropy from semiempirical quantum mechanical calculations of energy and atom counts, and applied the model to a comprehensive database of 16,417 small molecules. The database of small-molecule thermodynamic properties will be useful for predicting the outcome of any process that might involve the generation or destruction of volatile products, such as atmospheric chemistry, volcanism, or waste pyrolysis. Additionally, the collected experimental thermodynamic values will be of value to others developing models to predict enthalpy and entropy.</p>
Group and individual social network metrics are robust to changes in resource distribution in experimental populations of forked fungus beetles
<p>Social interactions drive many important ecological and evolutionary processes. It is therefore essential to understand the intrinsic and extrinsic factors that underlie social patterns. A central tenet of the field of behavioral ecology is the expectation that the distribution of resources shapes patterns of social interactions.</p> <p>We combined experimental manipulations with social network analyses to ask how patterns of resource distribution influence complex social interactions.</p> <p>We experimentally manipulated the distribution of an essential food and reproductive resource in semi-natural populations of forked fungus beetles (Bolitotherus cornutus). We aggregated resources into discrete clumps in half of the populations and evenly dispersed resources in the other half. We then observed social interactions between individually marked beetles. Half-way through the experiment, we reversed the resource distribution in each population, allowing us to control any demographic or behavioral differences between our experimental populations. At the end of the experiment, we compared individual and group social network characteristics between the two resource distribution treatments.</p> <p>We found a statistically significant but quantitatively small effect of resource distribution on individual social network position and detected no effect on group social network structure. Individual connectivity (individual strength) and individual cliquishness (local clustering coefficient) increased in environments with clumped resources, but this difference explained very little of the variance in individual social network position. Individual centrality (individual betweenness) and measures of overall social structure (network density, average shortest path length, and global clustering coefficient) did not differ between environments with dramatically different distributions of resources.</p> <p>Our results illustrate that the resource environment, despite being fundamental to our understanding of social systems, does not always play a central role in shaping social interactions. Instead, our results suggests that sex differences and temporally fluctuating environmental conditions may be more important in determining patterns of social interactions.</p>
Data to reproduce the results presented in Sehgal et al. 2022. Water Resources Research, https://doi.org/10.1029/2021WR030624 ("Inferring suspended sediment carbon content and particle size at high-frequency from the optical response of a submerged spectrometer")
<p>This repository consists data to reproduce results as presented in: "Inferring suspended sediment carbon content and particle size at high-frequency from the optical response of a submerged spectrometer", Water Resorces Research. Kindly refer to the readme.text file to navigate through the dataset.</p> <p> </p> <p> </p>
Code: A model of wild bee populations accounting for spatial heterogeneity and climate induced temporal variability of food resources at the landscape level
<p><span>The viability of wild bee populations and the pollination services that they provide are driven by the availability of food resources during their activity period and within the surroundings of their nesting sites. Changes in climate and land use influence the availability of these resources and are major threats to declining bee populations. Because wild bees may be vulnerable to interactions between these threats, spatially explicit models of population dynamics that capture how bee populations jointly respond to land use at a landscape scale and weather are needed. Here, we developed a spatially and temporally explicit theoretical model of wild bee populations aiming for a middle ground between the existing mapping of visitation rates using foraging equations and more refined agent-based modelling. The model is developed for <em>Bombus</em> sp. and captures within-season colony dynamics. The model describes mechanistically foraging at the colony level and temporal population dynamics for an average colony at the landscape level. Stages in population dynamics are temperature-dependent triggered with a theoretical generalized seasonal progression, which can be informed by growing degree days (GDD). The purpose of the LandscapePhenoBee model is to evaluate the impact of systematic changes and within-season variability in resources on bee population sizes and crop visitation rates. In a simulation study, we used the model to evaluate the impact of the shortage of food resources in the landscape arising from extreme drought events in different types of landscapes (ranging from different proportions of semi-natural habitats and early and late flowering crops) on bumblebee populations.</span></p>
Biodata Resource Inventory Training Stats ( prelim)
<p>Each file contains training statistics on the training and validation sets. These are preliminary results. They are being uploaded to perform proof of concept of using Binder to allow the R Markdown notebooks to be run in the browser.</p>
ScienceDex guides
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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.