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1,454 results for “large scale”
Influence of Large-scale Land-sea Atmosphere Interaction on Ozone Pollution in Coastal Cities in the Northern Bohai Sea
<p><strong>O3_obs </strong>includes ozone observations for Qinhuangdao (QHD), Jinzhou (JZ), Yingkou (YK), Dalian (DL) from 29 August to 5 September 2017, and the information of four sites including station code, longitude and latitude. <strong>O3_sim</strong> includes ozone simulation in the four sites extracted according to location of them. <strong>Met_obs</strong> and <strong>Met_sim</strong> include the observations of 2 m temperature (℃), 2 m relative humidity (RH2) and 10 m wind speed for the 4 stations from 29 August to 5 September 2017, and the information of four stations including station code and their location. <strong>Slp_wind_9km.nc</strong> is mean sea-level pressure and wind in Phase Ⅰ and Phase Ⅱ. <strong>O3_wind_9km.nc</strong> is mean simulated surface ozone mixing ratios and wind at 10 m in 19:00-09:00 LT and 10:00-18:00 LT during Phase Ⅰ and Phase Ⅱ. <strong>Process_contribution </strong>includes mean surface O<sub>3</sub> mixing ratios and O<sub>3</sub> contribution at the bottom level in Phase Ⅰ, Phase Ⅱ, and at different heights (AGL) in Phase Ⅱ in four sites, respectively. <strong>O3_source_site</strong> includes time series of O<sub>3 </sub>source in QHD, JZ, YK, and DL. <strong>Mean_source_base_27km.nc </strong>is the mean O­<sub>3</sub> contribution in Phase Ⅰ and Phase Ⅱ from five primary exogenous source regions. <strong>Mean_source_control_27km.nc</strong> is the O<sub>3</sub> contribution in Phase Ⅱ from the BTH and NEC emissions in Phase I, in which BTH and NEC’s emissions in Phase Ⅱ are set zero. <strong>Trjectory_conc_pa</strong> includes three trajectories analyzed in this work and vertical O<sub>3</sub> and NO<sub>X</sub> mixing ratios, and the chemical generations and consumptions of O<sub>3</sub> within the air masses along the trajectories.</p>
The COUGHVID crowdsourcing dataset: A corpus for the study of large-scale cough analysis algorithms
<p><strong>Overview</strong></p> <p>Cough audio signal classification has been successfully used to diagnose a variety of respiratory conditions, and there has been significant interest in leveraging Machine Learning (ML) to provide widespread COVID-19 screening. The COUGHVID dataset provides over 30,000 crowdsourced cough recordings representing a wide range of subject ages, genders, geographic locations, and COVID-19 statuses. Furthermore, experienced pulmonologists labeled more than 2,000 recordings to diagnose medical abnormalities present in the coughs, thereby contributing one of the largest expert-labeled cough datasets in existence that can be used for a plethora of cough audio classification tasks. As a result, the COUGHVID dataset contributes a wealth of cough recordings for training ML models to address the world’s most urgent health crises.</p> <p><strong>Private Set and Testing Protocol</strong></p> <p>Researchers interested in testing their models on the private test dataset should contact us at coughvid@epfl.ch, briefly explaining the type of validation they wish to make, and their obtained results obtained through cross-validation with the public data. Then, access to the unlabeled recordings will be provided, and the researchers should send the predictions of their models on these recordings. Finally, the performance metrics of the predictions will be sent to the researchers. The private testing data is not included in any file within our Zenodo record, and it can only be accessed by contacting the COUGHVID team at the aforementioned e-mail address.</p> <p><strong>New Semi-Supervised Labeling</strong></p> <p>The third version of the COUGHVID dataset contains thousands of additional recordings obtained through October 2021. Additionally, the recordings containing coughs were re-labeled according to a semi-supervised learning algorithm that combined the user labels with those of the expert physicians, which were modeled using ML and expanded on the previously unlabeled data. These labels can be found in the "status_SSL" column of the "metadata_compiled.csv" file.</p>
Bus Violence: a large-scale benchmark for video violence detection in public transport
<p><strong>Dataset</strong></p> <p>The <em>Bus Violence </em>dataset<em> </em>is a large-scale collection of videos depicting violent and non-violent situations in public transport environments. This benchmark was gathered from multiple cameras located inside a moving bus where several people simulated violent actions, such as stealing an object from another person, fighting between passengers, etc. It contains 1,400 video clips manually annotated as having or not violent scenes, making it one of the biggest benchmarks for video violence detection in the literature.</p> <p>Specifically, videos are recorded from three cameras at 25 Frames Per Second (FPS) --- two cameras located in the corners of the bus (with resolution 960x540 px) and one fisheye in the middle (1280x960 px). The clips have a minimum length of 16 frames and a maximum of 48 frames, capturing a very precise action (either violence or non-violence). The dataset is perfectly balanced, containing 700 videos of violence and 700 videos of non-violence.</p> <p>The <em>Bus Violence</em> dataset is intended as a test data benchmark. However, for researchers interested in using our data also for training purposes, we provide training and test splits.</p> <p>In this repository, we provide</p> <ul> <li> <p>the 1,400 video clips divided into two folders named Violence /NoViolence, containing clips of violent situations and non-violent situations, respectively;</p> </li> <li> <p>two txt files containing the names of the videos belonging to the training and test splits, respectively.</p> </li> </ul> <p> </p> <p><strong>Citing our work</strong></p> <p>If you found this dataset useful, please cite the following paper</p> <blockquote> <pre>@inproceedings{bus_violence_dataset_2022, title = {Bus Violence: An Open Benchmark for Video Violence Detection on Public Transport}, doi = {10.3390/s22218345}, url = {https://doi.org/10.3390%2Fs22218345}, year = 2022, month = {oct}, publisher = {{MDPI} {AG}}, volume = {22}, number = {21}, pages = {8345}, author = {Luca Ciampi and Pawe{\l} Foszner and Nicola Messina and Micha{\l} Staniszewski and Claudio Gennaro and Fabrizio Falchi and Gianluca Serao and Micha{\l} Cogiel and Dominik Golba and Agnieszka Szcz{\k{e}}sna and Giuseppe Amato}, journal = {Sensors} } </pre> </blockquote> <p>and this Zenodo Dataset</p> <blockquote> <pre>@dataset{pawel_bus_violence_zenodo, author = {Paweł Foszner, Michał Staniszewski, Agnieszka Szczęsna, Michał Cogiel, Dominik Golba, Luca Ciampi, Nicola Messina, Claudio Gennaro, Fabrizio Falchi, Giuseppe Amato, Gianluca Serao}, title = {{Bus Violence: a large-scale benchmark for video violence detection in public transport}}, month = sep, year = 2022, publisher = {Zenodo}, version = {1.0.0}, doi = {10.5281/zenodo.7044203}, url = {https://doi.org/10.5281/zenodo.7044203} } </pre> </blockquote> <p> </p> <p><strong>Contact Information</strong></p> <p>Blees Sp. z o.o., Gliwice, Poland<br> mstaniszewski@blees.co</p> <p> </p> <p><strong>Acknowledgments</strong></p> <p>The presented dataset was supported by: European Union funds awarded to Blees Sp. z o.o. under grant POIR.01.01.01-00-0952/20-00 “Development of a system for analysing vision data captured by public transport vehicles interior monitoring, aimed at detecting undesirable situations/behaviours and passenger counting (including their classification by age group) and the objects they carry”); EC H2020 project "AI4media: a Centre of Excellence delivering next generation AI Research and Training at the service of Media, Society and Democracy" under GA 951911; research project INAROS (INtelligenza ARtificiale per il mOnitoraggio e Supporto agli anziani), Tuscany POR FSE CUP B53D21008060008.</p> <p> </p> <p><strong>License</strong></p> <p>The <em>Bus Violence </em>dataset was acquired by Blees Sp. z o.o. and is released under a Creative Commons Attribution license for non-commercial use.</p>
LSPO: A Large-Scale Physics ORCiD-Linked Dataset for Author Name Disambiguation
<p>The LSPO dataset, a Large-Scale Physics ORCiD-Linked Dataset for Author Name Disambiguation is comprised of 554,962 NASA/ADS publications linked to 125,486 unique researchers through ORCiD identifiers. The available meta-data fields are: ORCiD identifier, author name, affiliation, title, asbtract, and name block. The dataset can be utilized to make pairs or triplets for training a author name disambiguation model. </p>
Datasets for "Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm"
<p>All datasets required to reproduce the results of publication "Drug-Target Interactions Prediction at Scale: the Komet Algorithm with the LCIdb Dataset"</p>
Archetypes of climate change adaptation among large-scale arable farmers in southern Romania
<p>Supplementary material belonging to the publication.</p> <p>Two files:</p> <p>1. Excel file with database containing raw data and information resulted from surveying a sample of 30 farmers/farm managers in southern lowlands of Romania between April and June 2020.</p> <p>2. PDF with interview guideline</p>
Final model for "Automated Large-Scale Full Seismic Waveform Inversion for North America and the North Atlantic" by Krischer et al. (2018)
<p>The HDF5 file contains the final model of the paper "Automated Large-Scale Full Seismic Waveform Inversion for North America and the North Atlantic" by Krischer et al. (2018), soon to be published in the Journal of Geophysical Research - Solid Earth.</p> <p>The "coordinates_0", "coordinates_1", and "coordinates_2" data sets are the coordinates along each dimension, here colatitude in degree, longitude in degree, and radius in meter, respectively. The regularly sampled data is available in five 3D-arrays in the "data" group: "vp", "vsv", "vsh", "rho", and "Q". Velocities are defined at 1 Hertz and are given in km/s, the density in kg/m^3. Q is Q_mu.</p> <p>The coordinates have to be rotated to yield true spherical Earth coordinates. They have to be rotated around on axis vector of 0.766044443118978/0.6427876096865393/0.0 in cartesian x/y/z coordinates by -30.0 degrees. Conversion of spherical to cartesian coordinates happens with the standard convention:</p> <p>x = r sin(theta) cos(phi)<br> y = r sin(theta) sin(phi)<br> z = r cos(theta)</p>
Large scale and information effects on cooperation in public good games
<pre>This dataset accompanies the paper "Large scale and information effects on cooperation in public good games", https://doi.org/10.1038/s41598-019-50964-w It records participant decisions in a set of Public Goods Games (see details in the paper). Explanation of the data fields: #participant_id: identification number for each participant in each treatment #player_alive: (for each round) 1=participant is still playing; 0=participant has been banned for forgetting three decisions or did not show up the first day. #group_avg_contribution: Average contribution #player_contribution: participant individual contribution to the PGG #round_number: round number #gender #age #treatment: see the publication for details regarding the different treatments # IBSEN metadata # 2017A2ECOCOOPANSA01ONL0000ESPMAD </pre>
WALOWA (WAve LOads on WAlls) - Large-scale Experiments in the Delta Flume on Overtopping Wave Loads on Vertical Walls
<p>Coasts of low lying countries are often comprised of a gentle foreshore and shallow waters, followed by a dike and a promenade. At the end of the promenade buildings or storm walls are constructed. This setting makes it possible for waves to overtop the dike and impact on the storm wall or building. Especially during storm season the overtopping waves induce large loads on these structures. New scenarios for climate change and sea level rise make it worthwhile to invest in research regarding overtopping wave loads.</p> <p>Within the European project 'Wave Loads on Walls' (WaLoWa) model tests in the Delta flume (The Netherlands) were conducted. It is the aim to study overtopping wave loads on storm walls and buildings. The project is coordinated by Ghent University (Belgium), in cooperation with TU Delft (The Netherlands), RWTH Aachen (Germany), University of Bari, University of L'Aquila, University of Calabria and University of Florence (Italy) and Flanders Hydraulics Research (Belgium). The project is financed by a grant by Hydralab+ in the framework of the EC Horizon 2020 program.</p> <p>A model geometry comprised of a sandy beach, a sloping dike, promenade and wall structure was built into the Delta flume. The beach alone consists of 1000m³ sand material and was an essential part of the structure, to obtain the broken wave conditions similar to reality. Waves representing a storm with a 1000 year return period and an additional water level to account for sea level rise result in the tested superstorm conditions.</p> <p>Measurements of the water surface elevation were taken close to the paddle, along the mildly sloping foreshore and at the dike toe location by resistance type wave gauges mounted to the flume side wall. The bathymetry of the sandy foreshore was measured by a mechanical profiler before and after the test. The overtopping flow properties thickness and velocity were measured by resistance type wave gauges, ultra-sonic distance sensors, paddle wheels and an electro-magnetic current meter installed along the promenade. Finally, the impact forces and pressures on the wall were measured by compression load cells and pressure sensors respectively. The data-set was complemented by a number of synoptic measurements, such as laser scan profiles, GoPro images, High-speed camera images, Digital camera images. Due to its large storage size, these data are provided on request.</p>
UnientrezDB: Large-scale Gene Ontology Annotation Dataset and Evaluation Benchmarks with Unified Entrez Gene Identifiers
<p>Our work focuses on providing a comprehensive dataset and benchmarks for evaluating gene ontology annotations using a unified system of Entrez Gene Identifiers.</p>
Dataset - Papyrus 2024 - A large scale curated dataset aimed at bioactivity predictions
<p><strong>This update of release 2024.1 fixes the following:</strong></p> <ul> <li>Metadata in the columns <em>type_IC50</em>, <em>type_EC50</em>, <em>type_KD</em>, <em>type_Ki</em>, and <em>type_other</em> did not contain multiple values when multiple pChEMBL values where available but reported only a single value. This fix ensures all values are reported.</li> <li>Molecules were incorrectly standardized and mixtures were included in the dataset. Standardization (using the <a href="https://github.com/OlivierBeq/papyrus_structure_pipeline" target="_blank" rel="noopener">papyrus_structure_pipeline</a>) is now correctly enforced and mixtures have been removed.</li> </ul> <p><strong>Changes since version 05.6</strong></p> <ul> <li>ChEMBL data was updated to ChEMBL version 34</li> <li>data from the IUPHAR/BPS Guide to PHARMACOLOGY has been included</li> <li>data from Pickett et al.'s publication on MMP-12 has been included (<a href="https://doi.org/10.1021/ml100191f">ACS Med Chem Lett. 2011 Jan 13; 2(1): 28–33. DOI: 10.1021/ml100191f</a>)</li> </ul> <p><strong>Papyrus++:</strong></p> <p>Previous versions mistakenly considered a deviation of 2 log units around compound-target pairs to determine the reproducibility of assays (see published article for more details). This has been fixed to 0.5 log units to ensure data points fall within a maximum range of 1 log unit. As a result, the number of entries in the Papyrus++ set from this release has drastically reduced compared to previous releases.</p>
MultiSubs: A Large-scale Multimodal and Multilingual Dataset
<p>MultiSubs is a dataset of multilingual subtitles gathered from <a href="https://opus.nlpl.eu/OpenSubtitles.php">the OPUS OpenSubtitles dataset</a>, which in turn was sourced from <a href="http://www.opensubtitles.org/">opensubtitles.org</a>. We have supplemented some text fragments (visually salient nouns in this release) within the subtitles with web images, where the word sense of the fragment has been disambiguated using a cross-lingual approach. </p> <p>Please refer to our paper for a more detailed description of the dataset:</p> <p>Josiah Wang, Pranava Madhyastha, Josiel Figueiredo, Chiraag Lala, Lucia Specia (2021). <a href="https://arxiv.org/abs/2103.01910">MultiSubs: A Large-scale Multimodal and Multilingual Dataset</a>. CoRR, abs/2103.01910. Available at: <a href="https://arxiv.org/abs/2103.01910">https://arxiv.org/abs/2103.01910</a></p>
Single objective light-sheet acquired large-scale 3D dataset
<p>This dataset covers Fig. 5 of the following publication:</p> <p>Title: Tilt-invariant scanned oblique plane illumination microscopy for large-scale volumetric imaging<br> Authors: Manish Kumar and Yevgenia Kozorovitskiy <br> Optics Letters Vol. 44, Issue 7, pp. 1706-1709 (2019)<br> https://doi.org/10.1364/OL.44.001706</p> <p>Briefly: The sample imaged is a Thy1GFP expressing transgenic mice brain slice - fixed and coverslipped. No clearing was performed for these.</p> <p>See "readme.txt" for additional info and details about how to use "shearNscaleObliq" file.</p>
Building Large-Scale Gene-Disease Association Datasets for Biomedical Relation Extraction
<p>This repository contains the GDAb and GDAt datasets. GDAb and GDAt are large-scale, distantly supervised, and manually enhanced datasets for Gene-Disease Association (GDA) extraction. Each dataset consists of three text files, corresponding to train, validation, and test sets, plus an additional JSON file containing the mapping between relation names and IDs. Each record in train, validation, or test files corresponds to a single GDA extracted from a sentence. Records are represented as JSON objects with the following structure:</p> <ul> <li><strong>text:</strong> sentence from which the GDA was extracted.</li> <li><strong>relation:</strong> relation name associated to the given GDA.</li> <li><strong>h: </strong>JSON object representing the gene entity, composed of: <ul> <li><strong>id: </strong>UMLS CUI associated to the gene entity.</li> <li><strong>name:</strong> UMLS preferred name associated to the gene entity.</li> <li><strong>pos: </strong>list consisting of starting position and length of the gene mention within text.</li> </ul> </li> <li><strong>t:</strong> JSON object representing the disease entity, composed of: <ul> <li><strong>id: </strong>UMLS CUI associated to the disease entity.</li> <li><strong>name:</strong> UMLS preferred name associated to the disease entity.</li> <li><strong>pos:</strong> list consisting of starting position and length of the disease mention within text.</li> </ul> </li> </ul> <p>Both datasets contain over 2,500,000 sentences and 500,000 bags.<br> The zip file consists of two folders, GDAb and GDAt, containing the files corresponding to the two datasets, respectively.</p> <p> </p>
Human pancreatic islet microRNAs implicated in diabetes and related traits by large-scale genetic analysis
<p>Genetic studies have identified ≥240 loci associated with risk of type 2 diabetes (T2D), yet most of these loci lie in non-coding regions, masking the underlying molecular mechanisms. Recent studies investigating mRNA expression in human pancreatic islets have yielded important insights into the molecular drivers of normal islet function and T2D pathophysiology. However, similar studies investigating microRNA (miRNA) expression remain limited. Here, we present data from 63 individuals, the largest sequencing-based analysis of miRNA expression in human islets to date. We characterize the genetic regulation of miRNA expression by decomposing the expression of highly heritable miRNAs into <em>cis</em>- and <em>trans</em>-acting genetic components and mapping <em>cis</em>-acting loci associated with miRNA expression (miRNA-eQTLs). We find (i) 84 heritable miRNAs, primarily regulated by <em>trans</em>-acting genetic effects, and (ii) 5 miRNA-eQTLs. We also use several different strategies to identify T2D-associated miRNAs. First, we colocalize miRNA-eQTLs with genetic loci associated with T2D and multiple glycemic traits, identifying one miRNA, miR-1908, that shares genetic signals for blood glucose and glycated hemoglobin (HbA1c). Next, we intersect miRNA seed regions and predicted target sites with credible set SNPs associated with T2D and glycemic traits and find 32 miRNAs that may have altered binding and function due to disrupted seed regions. Finally, we perform differential expression analysis and identify 14 miRNAs associated with T2D status—including miR-187-3p, miR-21-5p, miR-668, and miR-199b-5p—and 4 miRNAs associated with a polygenic score for HbA1c levels—miR-216a, miR-25, miR-30a-3p, and miR-30a-5p.</p>
CrusTome: A transcriptome database resource for large-scale analyses across Crustacea
<p>CrusTome_v0.1.0 Prerelease<br> /ReadMe - this file<br> /crustome_aa_BLAST.tar.gz - CrusTome database of amino acid sequences in BLAST format<br> /crustome_aa_DIAMOND.tar.gz - CrusTome database of amino acid sequences in DIAMOND format<br> /crustome_mrna_BLAST.tar.gz - CrusTome database of mRNA sequences in BLAST format<br> /dict - Dictionary file to translate species IDs. For usage with sed/awk see link to Github site below<br> <br> * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *<br> * <br> * Please note, most of the data files contained in this DOI are <br> * compressed into GZip files (.gz extension). <br> * Mac and Linux OS's can extract this file type natively. <br> * Windows OS requires software to extract the archive. 7-Zip <br> * (http://www.7-zip.org) is free and open source software that will <br> * allow windows PCs to open and decompress the archive. <br> * <br> * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *<br> <br> <strong><em>Pérez-Moreno JL, Kozma MT, DeLeo DM, Bracken-Grissom HD, Durica DS, Mykles DL. 2023. CrusTome: A transcriptome database resource for large-scale analyses across Crustacea. G3: Genes, Genomes, Genetics.</em></strong></p> <p><strong>CrusTome: A transcriptome database resource for large-scale analyses across Crustacea</strong></p> <p>Transcriptomes from non-traditional model organisms often harbor a wealth of unexplored data. Examining these datasets can lead <br> to clarity and novel insights in traditional systems, as well as to discoveries across a multitude of fields. Despite significant <br> advances in DNA sequencing technologies and in their adoption, access to genomic and transcriptomic resources for non-traditional <br> model organisms remains limited. Crustaceans, for example, being amongst the most numerous, diverse, and widely distributed taxa on the planet, often serve as excellent systems to address ecological, evolutionary, and organismal questions. While they are <br> ubiquitously present across environments, and of economic and food security importance, they remain severely underrepresented in <br> publicly available sequence databases. Here, we present CrusTome, a multi-species, multi-tissue, transcriptome database of 201 <br> assembled mRNA transcriptomes (189 crustaceans, 30 of which were previously unpublished, and 12 ecdysozoan outgroups) as an evolving, and publicly available resource. This database is suitable for evolutionary, ecological, and functional studies that employ<br> genomic/transcriptomic techniques and datasets. CrusTome is presented in BLAST and DIAMOND formats, providing robust datasets for sequence similarity searches, orthology assignments, phylogenetic inference, etc., and thus allowing for straight-forward incorporation into existing custom pipelines for high-throughput analyses.</p> <p> <br> * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *<br> <br> For questions regarding released datasets contact:<br> Corresponding Author: Jorge L. Perez-Moreno (Colorado State University)<br> jorgepm@colostate.edu / jpere645@fiu.edu<br> <br> <strong> https://github.com/invertome/crustome</strong></p> <p> </p> <p> <br> <strong>PLEASE CITE:</strong></p> <p>Pérez-Moreno JL, Kozma MT, DeLeo DM, Bracken-Grissom HD, Durica DS, Mykles DL. 2023. CrusTome: A transcriptome database resource for large-scale analyses across Crustacea. G3: Genes, Genomes, Genetics.</p> <p> </p> <p><strong>Funder Information</strong></p> <p>Supported by National Science Foundation grants to DLM (IOS-1922701) and DSD (IOS-1922755). In addition, this work was partially funded by two grants awarded from the National Science Foundation: Doctoral Dissertation Improvement Grant (#1701835) awarded to JPM and HBG and the Division of Environmental Biology Bioluminescence and Vision grant (DEB-1556059) awarded to HBG. Samples in the FICC were collected by grants from The Gulf of Mexico Research Initiative (GOMRI), Florida Institute of Oceanography Shiptime Funding awarded to HBG and DMD; the National Science Foundation Division of Environmental Biology Grant 1556059 awarded to HBG; and the National Oceanic and Atmospheric Administration Ocean Exploration Research (NOAA-OER 2015) grant awarded to HBG.</p>
[Dataset] One year of high-precision operational data including measurement uncertainties from a large-scale solar thermal collector array with flat plate collectors, located in Graz, Austria
<p><strong>Highlights:</strong></p> <ul> <li>High-precision measurement data acquired within a scientific research project, using high-quality measurement equipment and implementing extensive data quality assurance measures.</li> <li>The dataset includes data from one full operational year in a 1-minute sampling rate, covering all seasons.</li> <li>Measured data channels include global, beam and diffuse irradiances in horizontal and collector plane. Heat transfer fluid properties were determined in a dedicated laboratory test.</li> <li>In addition to the measured data channels, calculated data channels, such as thermal power output, mass flow, fluid properties, solar incidence angle and shadowing masks are provided to facilitate further analysis.</li> <li>Uncertainties of data channels are provided based on data sheet specifications and GUM error propagation.</li> <li>The dataset refers to a real-scale application which is representative of typical large-scale solar thermal plant designs (flat plate collectors, common hydraulic layout).</li> <li>Additional information is provided in a "Data in Brief" journal article: <a href="https://doi.org/10.1016/j.dib.2023.109224">https://doi.org/10.1016/j.dib.2023.109224</a></li> </ul> <p> </p> <p><strong>Collector array description: </strong>The data is from a flat plate collector array with a total gross collector area of 516 m<sup>2</sup> (361 kW nominal thermal power). The array consists of four parallel collector rows with a common inlet and outlet manifold. Large-area flat-plate collectors from Arcon-Sunmark A/S are used in the plant. Collectors are all oriented towards the south (180°), have a tilt angle of 30° and a row spacing of 3.1 m. The collector array is part of a large-scale solar thermal plant located at Fernheizwerk Graz, Austria (latitude: 47.047294 N, longitude: 15.436366 E). The plant feeds into the local district heating network and is one of the largest Solar District Heating installations in Central Europe.</p> <p> </p> <p><strong>Data files:</strong></p> <ul> <li><strong>FHW_ArcS__main__2017.csv</strong> – This is the main dataset. It is advised to use this file for further analysis. The file contains the full time series of all measured and all calculated data channels and their (propagated) measurement uncertainty (53 data channels in total). Calculated data channels are derived from measured channels (see script make_data.py below) and have the suffix __calc in their channel names. Uncertainty information is given in terms of standard deviation of a normal distribution (suffix __std); some data channels are assumed to have no uncertainty (e.g., sun azimuth or shadowing).</li> <li><strong>FHW_ArcS__main__2017.parquet</strong> – Same as FHW_ArcS__main__2017.csv, but in parquet file format for smaller file size and improved performance when loading the dataset in software.</li> <li><strong>FHW_ArcS__parameters.json</strong> – Contains various metadata about the dataset, in both human and machine-readable format. Includes plant parameters, data channel descriptions, physical units, etc.</li> <li><strong>FHW_ArcS__raw__2017.csv </strong>– Dataset with time series of all measured data channels and their measurement uncertainty. The main dataset FHW_ArcS__main__2017.csv, which includes all calculated data channels, is a superset of this file.</li> </ul> <p> </p> <p><strong>Scripts: </strong></p> <ul> <li><strong>make_data.py</strong> – This Python script exposes the calculation process of the calculated data channels (suffix __calc), including error propagation. The main calculations are defined as functions in the module utils_data.py.</li> <li><strong>make_plots.py</strong> – This Python script, together with utils_plots.py, generates several figures based on the main dataset.</li> </ul> <p> </p> <p><strong>Data collection and preparation</strong>: AEE — Institute for Sustainable Technologies (AEE INTEC), Feldgasse 19, 8200 Gleisdorf, Austria; and SOLID Solar Energy Systems GmbH (SOLID), Am Pfangberg 117, 8045 Graz, Austria</p> <p> </p> <p><strong>Data owner</strong>: solar.nahwaerme.at Energiecontracting GmbH, Puchstrasse 85, 8020 Graz, Austria</p> <p> </p> <p><strong>Additional information</strong> is provided in a journal article in "Data in Brief", titled <a href="https://doi.org/10.1016/j.dib.2023.109224">"One year of high-precision operational data including measurement uncertainties from a large-scale solar thermal collector array with flat plate collectors in Graz, Austria"</a>.</p> <p> </p> <p><strong>Note: </strong>A Gitlab repository is associated with this dataset, intended as a companion to facilitate maintenance of the Python code that is provided along with the data. If you want to use or contribute to the code, please do so using the Gitlab project: <a href="https://gitlab.com/sunpeek/zenodo-fhw-arconsouth-dataset-2017">https://gitlab.com/sunpeek/zenodo-fhw-arconsouth-dataset-2017</a></p> <p> </p>
Data for "Detection of large-scale cloud microphysical changes within a major shipping corridor after implementation of the IMO 2020 fuel sulfur regulations"
<p>Processed data used for the manuscript "Detection of large-scale cloud microphysical changes within a major shipping corridor after implementation of the IMO 2020 fuel sulfur regulations".</p> <p>Includes input data for kriging algorithm as "SSF1deg_shipkrige_Terra.nc" and output data files as "Data_Terra_[VAR]_[YEAR]_C_M[MONTH].nc" for [VAR] Acld (overcast albedo) or cer (cloud droplet effective radius), [YEAR] the starting year of a three-year period starting with 2002 and ending at 2020 or "clim" for the 2002-2019 climatology, and [MONTH] 1to12 (annual mean) or 9to11 (austral spring).</p> <p>For the output data, "Obs" is the original data, "Est" is the mean counterfactual field obtained via kriging, "lowEst" and "highEst" are the 2.5th and 97.5th percentiles of the kriged fields for each grid box, "krSims" stores the results of the 5,000 simulated kriged fields, "Semivariance" is the binned empirical variogram values, "pVal" is the raw field significance (not adjusted for multiple testing), "nOut" is the number of individually significant grid boxes, "tran" is the transform applied (none for cer, logit for Acld), "iniPhi" and "iniSigma2" are the initial values for the fitted variogram, "Phi" and "Sigma2" are the fitted values using weighted least squares, and "parSel" is the list of selected regressors for the mean function that minimize the Bayesian information criterion.</p>
Unraveling the secrets of plant roots: Simplified method for large scale root exudate sampling and analysis in Arabidopsis thaliana
<p>Plants exude a plethora of compounds, both above- and below ground, to communicate with their environment. Although much is known about this communication above ground, we are only beginning to fathom the identity, level of variation, and role of below-ground chemical signals in a plant’s life. There have been many challenges associated with establishing a standardized methodology for studying root-exuded compounds, thus their role in plant-environment communication is still not well described.</p> <p>Here, we develop an interdisciplinary workflow to explore the natural variation in root exudate chemical composition of the model plant <em>Arabidopsis thaliana</em>. We highlight key challenges associated with sampling strategies and develop a framework for analyzing narrow and broad-scale patterns in root exudate composition of a large sample set of natural <em>A. thaliana</em> accessions.</p> <p>Our method consists of <em>in vitro</em> cultivation of individual seedlings inside a plastic mesh followed by a short hydroponic sampling period in micro quantities of ultrapure water. The mesh eases handling individual plants of varying sizes, thus making this setup advantageous for large-scale characterization of root exudates of individual plants in axenic conditions, and can be easily extended for prolonged temporal exudate collection experiments. Furthermore, a short sampling duration minimizes the experiment duration from days to mere hours, and is validated by yielding sufficient signal even with the small volume of sampling solution. An untargeted metabolic profiling analytical approach using ultra-high performance liquid chromatography coupled with mass spectrometry (UHPLC-QTOF-MS), followed by compound identification using open access software MZMine3 and SIRIUS 5, was used to capture a broad picture of the root exudate composition of <em>A. thaliana</em> accessions. This methodology can be broadly applied for investigating the role of root exudates as signals involved in plant belowground interactions. We report the first findings from the analysis here with results from Columbia genotype.</p> <p>We include here</p> <p> </p> <p>In <strong>Raw datafiles</strong>: The raw datasets obtained from MZmine 3 analysis, which contains aligned features of Columbia genotypes (Sheet1) as well as control samples (Sheet2). The dataset consists of <em>feature (row)ID, average (mass-to-charge ratios) m/z</em> and <em>retention times (RT)</em> across samples for individual features. It also includes sample-specific information including <em>feature status, name, m/z, RT, feature peak height,</em> and <em>area</em>. We also include a filtered datasheet excluding the features obtained in control as well as samples (Sheet3). Sheet 4 contains the phenotypic data on the number of leaves and rosette size of the 28 replicates at the time of sampling, along with the total peak area for each sample from MZmine data.</p> <p>In <strong>Supplementary tables</strong>: The 354 metabolites obtained after filtering out control features are listed with their <em>mass-to-charge ratios</em>, <em>retention times, and the mean, variance and coefficient of variation of the peak areas </em>(Supplementary Table 1). Supplementary Table 2 details the features identified by SIRIUS 5 with their <em>mass-to-charge ratios, retention times, chemical formula, chemical annotations,</em> and corresponding <em>probabilities scored by SIRIUS</em></p> <p>In <strong>Extended data analysis:</strong> Contains supporting data analysis for reproducibility and validity of our method for root exudate collection and analysis in <em>Arabidopsis thaliana.</em> These extended data analyses enhance the understanding of the relationship between plant phenotypic traits, peak area, and variation in compound abundance</p>
NPM3D dataset with instance labels used in paper "Toward Accurate Instance Segmentation in Large-scale LiDAR Point Clouds"
<p>NPM3D (https://npm3d.fr/paris-carla-3d) consists of mobile laser scanning (MLS) point clouds collected in four different regions in the French cities of Paris and Lille, where each point has been annotated with two labels: one that assigns it to one out of 10 semantic categories and another one that assigns it to an object instance. When inspecting the data, we found 9 cases where multiple tree instances had not been separated correctly (i.e., they had the same ground truth instance label). These cases were manually corrected using the CloudCompare software (https://www.cloudcompare.org), and 35 individual tree instances were obtained. Our variant of the dataset with 10 semantic categories and enhanced instance labels is publicly available.</p>
ScienceDex guides
Understand access before you commit
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.