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7,378 results for “case”
INSYDE model - Testing empirical and synthetic flood damage models: the case of Italy
<p>This repository contains the R code for <a href="http://www.nat-hazards-earth-syst-sci.net/16/2577/2016/">INSYDE, a synthetic, probabilistic flood damage model based on explicit cost analysis</a>.</p> <p>Correspondence to: Rui Figueiredo (<a href="mailto:rui.figueiredo@iusspavia.it">rui.figueiredo@iusspavia.it</a>)</p>
Comparing adaptive capacity index across scales: The case of Italy
<p>Measuring adaptive capacity as a key component of vulnerability assessments has become one of the mostchallenging topics in the climate change adaptation context. Numerous approaches, methodologies and con-ceptualizations have been proposed for analyzing adaptive capacity at different scales. Indicator-based assess-ments are usually applied to assess and quantify the adaptive capacity for the use of policy makers. Nevertheless,they encompass various implications regarding scale specificity and the robustness issues embedded in thechoice of indicators selection, normalization and aggregation methods. We describe an adaptive capacity indexdeveloped for Italy's regional and sub-regional administrative levels, as a part of the National Climate ChangeAdaptation Plan, and that is further elaborated in this article. The index is built around four dimensions and tenindicators, analysed and processed by means of a principal component analysis and fuzzy logic techniques. As aninnovative feature of our analysis, the sub-regional variability of the index feeds back into the regional levelassessment. The results show that composite indices estimated at higher administrative or statistical levels ne-glect the inherent variability of performance at lower levels which may lead to suboptimal adaptation policies.By considering the intra-regional variability, different patterns of adaptive capacity can be observed at regionallevel as a result of the aggregation choices. Trade-offs should be made explicit for choosing aggregators thatreflect the intended degree of compensation. Multiple scale assessments using a range of aggregators with dif-ferent compensability are preferable. Our results show that within-region variability can be better demonstratedby bottom-up aggregation methods.</p>
How to achieve a higher selection plateau in forest tree breeding? Fostering heterozygote x homozygote relationships in optimal contribution selection in the case study of Populus nigra
<p><span><span><span><span><span><span>In breeding, Optimal Contribution Selection (OCS) is one of the most effective strategies to balance short- and long-term genetic responses, by maximizing genetic gain and minimizing global coancestry. Considering genetic diversity in the selection dynamic – through coancestry – is undoubtedly the reason for the success of OCS, as it avoids intial loss of favorable alleles. Originally formulated with the pedigree relationship matrix, global coancestry can nowadays be assessed with one of the possible formulations of the realized genomic relationship matrix. Most formulations were optimized for genomic evaluation, but few for the management of coancestry. We introduce here an alternative formulation specifically developed for Genomic OCS (GOCS), intended to better control heterozygous loci, and thus better account for Mendelian sampling. We simulated a multi-generation breeding program with mate allocation and under GOCS for twenty generations, solved with quadratic programming. With the case study of </span></span></span><span><i><span>Populus nigra</span></i></span><span><span><span>, we have shown that, although the dynamic was mainly determined by the trade-off between genetic gain and genetic diversity, better formulations of the genomic relationship matrix, especially those fostering individuals carrying multiple heterozygous loci, can lead to better short-term genetic gain and a higher selection plateau. </span></span></span></span></span></span></p>
A boreal forest model benchmarking dataset for North America: a case study with the Canadian Land Surface Scheme including Biogeochemical Cycles (CLASSIC)
<p>A boreal forest model benchmarking dataset for North America by harmonizing eddy covariance and supporting measurements from black spruce (Picea mariana)-dominated mature forest stands.</p> <p>Dataset glossary and users’ instructions are documented in ‘README.md’. </p>
Improving triaging from primary care into secondary care using heterogeneous data-driven hybrid machine learning: A real-world case study of decision support system using blood test & GP referral letters - Bing Wang and Prof Weizi (Vicky) Li (University of Reading)
<p>This video is the sixth talk from our two day Future Blood Testing: Challenges & Opportunities Event that took place on the 13/09/2022.</p> <p>Improving triaging from primary care into secondary care using heterogeneous data-driven hybrid machine learning: A real-world case study of decision support system using blood test & GP referral letters - Bing Wang and Prof Weizi (Vicky) Li (University of Reading)</p> <p>Bio: Dr Weizi (Vicky) Li is the PI of the Future Blood Testing Network, an Associate Professor of Informatics and Digital Health, Deputy Director in Informatics Research Centre, Henley Business School, University of Reading. She is an interdisciplinary researcher focusing on using informatics, data science, machine learning, and digital information systems to solve real-world healthcare challenges. She is the academic lead of a large collaborative project of Improving the Quality of Healthcare through an Integrated Clinical Pathway Management Approach and Cloud based Digital Data Integration Platform, which was awarded ESRC O2RB Excellence in Impact Award in 2018 for her research impact on healthcare quality improvement. She is the academic lead of machine learning based decision support system for outpatient management which has successfully been implemented in Royal Berkshire NHS Foundation Trust and has received Research Engagement and Impact award in 2020. She has been PI on projects funded by ESRC, EPSRC, The Health Foundation, NHS and companies, working on data-driven decision support systems that use real-world data (under privacy preserving framework) from multiple sources including Electronic Patient Record in acute, community hospital and primary care settings, remote health monitoring and patient reported outcomes to develop novel technologies (including AI based methods) to support clinical and operational decision makings in patient pathway. Bing Wang is currently a PhD candidate in informatics and system science at the Informatics Research Center, Henley Business School, University of Reading. Bing’s research interests are Natural Language Processing, Machine Learning and Graph Machine Learning. Bing been working as a data scientist at Royal Berkshire NHS Foundation Trust since December 2019 during his PhD.</p> <p>Further details on this event can be found at: https://futurebloodtesting.org/event/13-14-09-2022/</p> <p>This video is an output from the Future Blood Testing Network which is funded by EPSRC under Grant Number EP/W000652/1</p> <p>YouTube Link: https://youtu.be/W6EH5l80NmU</p>
Additional set of photos for the publication "The oldest case of paedomorphosis in rove beetles: a new genus of Paederinae from Cretaceous amber (Coleoptera: Staphylinidae)"
<p>Additional set of photos of two specimens of extinct <em>Midinudon juvenis</em> Tokareva & Żyła gen. et sp. nov. (Coleoptera: Staphylinidae) in Burmese amber. Accession codes of specimens in the collection of the Leibniz Institute for the Analysis of Biodiversity Change are GPIH05515 and GPIH05516.</p>
Analyzing Satellite-Derived 3D Building Inventories and Quantifying Urban Growth towards Active Faults: A Case Study of Bishkek, Kyrgyzstan
<p>#############################################################################################################<br> Datasets supporting the publication:<br> Analyzing satellite-derived 3D building inventories and quantifying urban growth towards active faults:<br> a case study of Bishkek, Kyrgyzstan.<br> <a href="https://doi.org/10.3390/rs14225790">https://doi.org/10.3390/rs14225790</a></p> <p>-Please refer to the publication for details on the production of each dataset.<br> -Datasets are ordered following the publication figures.<br> -Please cite the publication and this dataset repository when using the data.<br> #############################################################################################################</p> <p>------------------------<br> Structure:<br> File ID<br> -[fields:] description<br> ------------------------</p> <p>KH9_1979_builtup.shp<br> -KH9 1979 built-up area classification</p> <p>S2_2021_builtup.tif<br> -Sentinel-2 2021 built-up area classification.</p> <p>S2_2021_corine_land_cover_class.tif<br> -Sentinel-2 2021 land cover classification in Corine 2018 land-cover classes.</p> <p>S2_KH9_DN_change_aggregated.shp<br> -Proportional DN change aggregated to a 1 km^2 grid for areas ≥50% built-up.</p> <p>building_characteristics.shp<br> -build_count: building count in 500 m square grid cell.<br> -mean_area: mean building size (m^2) in 500 m square grid cell.<br> -median_area: median building size(m^2) in 500 m square grid cell.<br> -cell_coverage: %building coverage of 500 m square grid cell.</p> <p>pleiades_buildings_all.shp<br> -All building detections from Pleiades data. Confidence values are output from the deep learning model.</p> <p>pleiades_buildings_heights.shp<br> -Building detections from the Pleiades data that were allocated heights (m).<br> -Zmean, Zmedian,... refer to heights (m)</p> <p>wv2_buildings_all.shp<br> -All building detections from WorldView-2 data. Confidence values are output from the deep learning model.</p> <p>wv2_buildings_heights.shp<br> -Building detections from the WorldView-2 data that were allocated heights (m).<br> -Zmean, Zmedian,... refer to heights (m)</p> <p>trained_rcnn.zip<br> -ArcGIS Pro deep learning model (DLPK) used to extract building footprints.</p>
Operator-Software Impact in Local Tie Networks: Case study at Geodetic Observatory Wettzell (Data set)
<p>The operator-software impact describes the differences between results introduced by different operators using identical software packages but applying different analysis strategies to the same data. This contribution studies the operator-software impact in the framework of local tie determination, and compares two different analysis approaches. Both approaches are used in present local tie determinations and mainly differ in the consideration of the vertical deflection within the network adjustment. However, no comparison study has yet been made so far. Selecting a suitable analysis approach is interpreted as a model selection problem, which is addressed by information criteria within this investigation. A suitable model is indicated by a sufficient goodness of fit and an adequate number of model parameters. Moreover, the stiffness of the networks is evaluated by means of principle component analysis. Based on the date of a measurement campaign performed at the Geodetic Observatory Wettzell in 2021, the impact of the analysis approach on local ties is investigated. For that purpose, an innovated procedure is introduced to obtain reference points of space geodetic techniques defining the local ties. Within the procedure, the reference points are defined independently of the used reference frame, and are based on geometrical conditions. Thus, the results depend only on the estimates of the performed network adjustment and, hence, the applied network analysis approach. The comparison of the horizontal coordinates of the determined reference points shows a high agreement. The differences are less than 0.2 mm. However, the vertical components differ by more than 1 mm, and exceed the coverage of the estimated standard deviations. The main reasons for these large discrepancies are a network tilting and a network bending, which is confirmed by a residual analysis.</p>
RML Tabular Views Test Cases
<p>Test cases for <a href="https://ceur-ws.org/Vol-1184/ldow2014_paper_01.pdf">RML</a> tabular views based on the <a href="https://www.w3.org/2001/sw/rdb2rdf/test-cases/">R2RML test cases</a>. The test cases use the CSV data format similarly to the <a href="https://doi.org/10.1007/978-3-030-21395-4_12">RML test cases</a>.</p>
Replication Package: Model-Driven Engineering for the Interoperability of Simulation Modeling Languages: a Case Study in the Space Industry
<p>Replication package "Architectural Support for Software Performance in Continuous Software Engineering: a Systematic Mapping Study".</p>
Database on soil properties of the CS1 Study case
<p>Soil properties dataset of the CS1 Study Case corresponding to the article "The combination of crop diversification and no tillage enhances key 1 soil quality parameters related to soil functioning without compromising crop yields in a low-input rainfed almond orchard under semiarid Mediterranean conditions" by Almagro et al.</p>
The linked data ecosystem for SSH and a case study from the cultural heritage domain
<p>Semantic Web, an extension of the current web, focuses on the structure of data. The aim is to develop data structures that will be more effectively processable by computers, in contrast to the limited functionality of the contemporary scriptocentric web. Semantic Web, therefore, aims to transform the web into a global ‘database’ and lead the developments toward the Web of Data. The specifications developed or related to this aim, as well as the processes and rules for achieving it, are known as Linked Data, i.e. (inter)connected data from different sources. Linked Data creates a content-agnostic, as well as software-agnostic ecosystem, which can be used for encoding and publishing all types of information from various domains.</p> <p>The first presentation of this webinar introduces the basic concepts of Linked Data and shows that Linked Data are particularly suitable for Social Sciences and Humanities (SSH) since they do not emphasize metrics and quantifications but conceptualizations and reason. After presenting the paradigm shift introduced by linked data concerning the development of the web, a case study from the cultural heritage domain will be discussed.</p> <p>The second presentation showcases SearchCulture.gr, the Greek cross-domain Cultural Data Aggregator, as a state-of-the-art case, for the use of Linked data in the cultural domain. The National Documentation Centre of Greece (EKT) develops this service, which has collected a growing number of 800.000 digitized Cultural Heritage Objects (CHOs) from 73 cultural institutions. Moreover, it is the Accredited National Aggregator for Europeana having provided more than 580.000 CHOs so far. Addressing metadata heterogeneity has been a key target from the start. Controlled Linked Data vocabularies for item types, historical periods, subjects and persons have been developed over the course of the past years and are being used for the semantic enrichment of the CHOs’ metadata. This presentation addresses the challenges, methodology and tools used over the past 7 years for the process of enriching the aggregated CHOs’ metadata. This process classifies and disambiguates the aggregated data, provides multilinguality and adds significant browse and search functionalities to the portal and, therefore, opens new horizons for SSH research.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - PROLONGED CASE 1 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (PROLONGED CASE 1 FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - PROLONGED CASE 1 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (PROLONGED CASE 1 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - CONTROL CASE 1 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a non-COVID-related pneumonia donor (CONTROL CASE 1, FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - CHRONIC CASE 2 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (CHRONIC CASE 2 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Datasets of the manuscript "Rational design of profile HMMs for sensitive and specific sequence detection with case studies applied to viruses, bacteriophages, and casposons"
<p><strong>DATASETS</strong></p> <p>Rational design of profile HMMs for sensitive and specific sequence detection with case studies applied to viruses, bacteriophages, and casposons</p> <p>Liliane S. Oliveira, Alejandro Reyes, Bas E. Dutilh and Arthur Gruber<sup>*</sup></p> <p>* Correspondence: <a href="mailto:argruber@usp.br">argruber@usp.br</a> (AG); Tel. +55 11 3091 7274</p> <p> </p> <p>Here we provide different data of <em>Microviridae</em>, <em>Flavivirus</em> and casposons used throughout the work:</p> <ul> <li>Microviridae folder <ul> <li>conserved_HMMs – profile HMMs constructed with TABAJARA in Conservation mode for <em>Microviridae</em></li> <li>discriminative_HMMs – profile HMMs constructed with TABAJARA in Discrimination mode for <em>Microviridae</em></li> <li>sequences – different sequence datasets and respective multiple sequence alignments <ul> <li>Microviridae_113-seq_training_set.fasta - 113 VP1 sequences covering diversity of the <em>Microviridae</em> family</li> <li>Microviridae_113-seq.aln – multiple sequence alignment of the 113-protein dataset</li> <li>Microviridae_1836-seq_testset.fasta - 1,836 sequence dataset covering 1,836 sequences of the major capsid protein (VP1) comprising 501 <em>Alpavirinae</em> sequences, 1,040 <em>Gokushovirinae</em> sequences and 295 <em>Pichovirinae</em> sequences</li> <li>Microviridae_1866-seq.aln - multiple sequence alignment of the 1,866-protein <em>Microviridae</em> dataset used in the experiment of Figure 4</li> </ul> </li> </ul> </li> <li>Flavivirus folder <ul> <li>conserved_HMMs – profile HMMs constructed with TABAJARA in Conservation mode for <em>Flavivirus</em></li> <li>discriminative_HMMs – profile HMMs constructed with TABAJARA in Discrimination mode for <em>Flavivirus</em> <ul> <li>full-length – models constructed from full-length protein sequences</li> <li>short - models constructed from selected short alignment blocks of the protein sequences</li> </ul> </li> <li>sequences – different sequence datasets and respective multiple sequence alignments <ul> <li>Flavivirus_127-seq_training_set.fasta - 127 polyprotein sequences covering species diversity of the genus <em>Flavivirus</em></li> <li>Flavivirus_127-seq.aln – multiple sequence alignment of the 127-protein dataset</li> <li>Flavivirus_6364-seq_testset.fasta - 6,364 sequence dataset covering species diversity of <em>Flavivirus</em>, including 3,919 of dengue virus (DENV), 327 of Zika virus (ZIKV), 63 of yellow fever virus (YFV), and the remaining 2,055 sequences covering other available flaviviruses</li> <li>Flavivirus_6364-seq.aln - multiple sequence alignment of the 6,364-protein <em>Flavivirus</em> dataset</li> </ul> </li> </ul> </li> <li>Casposons folder <ul> <li>casposon_generic_HMMs – profile HMMs constructed with TABAJARA in Discrimination mode for the generic detection of all casposons and discrimination from CRISPRs.</li> <li>casposon_family_discriminative_HMMs – profile HMMs constructed with TABAJARA in Discrimination mode for the specific discrimination among casposon families and from CRISPRs.</li> <li>sequences – different sequence datasets and respective multiple sequence alignments <ul> <li>casposons_crisprs.fasta – 106 Cas1 <em>bona fide</em> sequences derived from 52 CRISPRs and 54 casposons</li> <li>casposon_family_discrimination.aln - multiple sequence alignment of 52 <em>bona fide</em> CRISPR and 54 casposon sequences, with appropriate nomenclature to run TABAJARA for the discrimination of each casposon family.</li> <li>casposons_crisprs_discrimination.aln - multiple sequence alignment of 52 <em>bona fide</em> CRISPR and 54 casposon sequences, with appropriate nomenclature to run TABAJARA for discrimination of CRISPRs and casposons.</li> </ul> </li> </ul> </li> </ul>
Data set for publication Sikora P., Techman M., Federowicz K., El-Khayatt A.M., Saudi H.A., Abd Elrahman M., Hoffmann M., Stephan D., Chung S.-Y. Insight into the microstructural and durability characteristics of 3D printed concrete: Cast versus printed specimens. Case Studies in Construction Materials (2022), 17, e01320.
<p>Open dataset for publication Sikora P., Techman M., Federowicz K., El-Khayatt A.M., Saudi H.A., Abd Elrahman M., Hoffmann M., Stephan D., Chung S.-Y. Insight into the microstructural and durability characteristics of 3D printed concrete: Cast versus printed specimens. <strong>Case Studies in Construction Materials (2022)</strong>, 17, e01320. <a href="https://doi.org/10.1016/j.cscm.2022.e01320">https://doi.org/10.1016/j.cscm.2022.e01320</a></p> <p>File 1 - Mechanical characteristics - *.opju (Origin)</p> <p>File 2 - Particle size distributions of used materials - *.opju (Origin)</p> <p>File 3 - Sorptivity measurement data - *.opju (Origin)</p> <p>File 4 - G-code for printing of 1 layered specimen - *txt</p> <p>File 5 - G-code for printing of 3 layered specimens - *txt</p>
Benefits and limitations of environmental magnetism for completing citizen science on air quality: a case study in a street canyon.
<p>Inside a street canyon in Montpellier (France) a total of 72 deposimeters were deployed in 29 households for a period of 3 months to measure local air quality. This street canyon was chosen because dwellers were already mobilized against the street traffic, and because they were in conflict on this issue with policy makers. The project aimed to include all the stakeholders through co-construction. The closure of the street during the metrological campaign and the absence of agreement curbed their involvement and motivation. However, the feedbacks from the citizen partners promote the fact that this study supported their claims and brought them a deeper understanding on the micro-scale air quality monitoring. Indeed, it is increasingly difficult for citizens, who seemed specifically interested in what is happening right outside their front door, to understand this measure with the emergence of ever more low-cost sensors. For that reason, we examined the citizen’s degree of confidence in magnetic monitoring of air quality and how can this technique be useful in their claims. The results show that magnetism can be a measurement technique favorable to citizen participation because it provides a large amount of data at the micro-scale of the street level, while the data from the certified associations for monitoring air quality requires a spatial interpolation to map variations on a neighborhood scale. In this study, we proposed a magnetic air quality index to standardize and democratize the magnetic monitoring of air quality to facilitate the dialogue with all stakeholders.</p>
Supplementary Data and Code: Determinants of range sizes pinpoint vulnerability of groundwater species to climate change: a case study on subterranean amphipods from the Dinarides
<p>Supplementary Data and R code for phylogenetic analyses for manuscript entitled <em>Determinants of range sizes pinpoint vulnerability of groundwater species to climate change: a case study on subterranean amphipods from the Dinarides.</em></p> <p><strong>The dataset contains</strong></p> <p><em>beast.tree</em> → data for import into R: maximum credibility phylogeny<br> <em>data_lambert.csv</em> → data for import into R: data on habitat and distribution for 52 <em>Niphargus </em>species<br> <em>morpho.csv</em> → data for import into R: morphometric data (body length) for 52 <em>Niphargus </em>species<br> <em>niphargus_ranges.Rmd</em> → fully reproducible R markdown file<br> <em>niphargus_ranges.html </em>→ html output of Rmd file</p> <p>To be able to run the analysis put the data files into folder <data> and run the Rmd script.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.