cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7987418
title: Direction Dependence Analysis in the Presence of Confounders: Applications to Linear Mediation Models Using Observational Data

description: Statistical methods to identify mis-specifications of linear regression models with respect to the direction of dependence (i.e. whether x→y or y→x better approximates the data-generating mechanism) have received considerable attention. Direction dependence analysis (DDA) constitutes such a statistical tool and makes use of higher-moment information of variables to derive statements concerning directional model mis-specifications in observational data. Previous studies on direction of dependence mainly focused on statistical inference and guidelines for the selection from the two directionally competing candidate models (x→y versus y→x) while assuming the absence of unobserved common causes. The present study describes properties of DDA when confounders are present and extends existing DDA methodology by incorporating the confounder model as a possible explanation. We show that all three explanatory models can be uniquely identified under standard DDA assumptions. Further, we discuss the proposed approach in the context of testing competing mediation models and evaluate an organizational model proposing a mediational relation between school leadership and student achievement via school safety using observational data from an urban school district. Overall, DDA provides strong empirical support that school safety has indeed a causal effect on student achievement but suggests that important confounders are present in the school leadership–safety relation.
DOI: 10.5281/zenodo.4109839
title: Wikipedia sample

description: Wikipedia sample used in the paper : Contextual Characters with Segmentation Representation for Named Entity Recognition in Chinese
DOI: 10.5281/zenodo.4109838
title: Wikipedia sample

description: Wikipedia sample used in the paper : Contextual Characters with Segmentation Representation for Named Entity Recognition in Chinese
DOI: 10.34760/5f5b7d1ed60e8
title: Evaluation of systemic awareness training for medical students

description: Data categories: Survey data
Material collected: Not available
Experimental data: Not available
Number of donors: 373
Sex: Female, Male
Age: 19-29 Year
DOI: 10.34760/5f5b7d056ac9d
title: Self-monitoring and personalized feedback as a tool to boost depression treatment

description: Pragmatic randomized controlled trial to study the efficacy of two experience sampling intervention modules for depression.
description: Data categories: Other, Survey data
Number of donors: 161
Sex	: Female, Male
Age: 18-65 Year
Diseases studied: Depressive episode
DOI: 10.5281/zenodo.4059803
title: Database of wide beams and slabs under concentrated loads failing in different shear failure modes

description: This database includes information about loading, geometry, failure loads, and failure modes of slabs under concentrated loads under different support conditions.
DOI: 10.5281/zenodo.4059802
title: Database of wide beams and slabs under concentrated loads failing in different shear failure modes

description: This database includes information about loading, geometry, failure loads, and failure modes of slabs under concentrated loads under different support conditions.
DOI: 10.34760/5f5b7cbbb7653
title: Technical development in junior speed skaters

description: Longitudinal and cross-sectional data of technique development during a 1500m for junior speed skaters. Observational data from healthy people.
description: Data categories: Other
Material collected: Other
Experimental data: Other
Sex: Female, Male
Age: 16-21 Year
DOI: 10.34760/5f5b7c9fee352
title: Thyroid cancer

description: Extensive phenotyping; trio setup
description: Data categories: Biological samples
Material collected: DNA
Number of donors: 600
Sex: Unknown
Diseases studied: Malignant neoplasm of thyroid gland
DOI: 10.6084/m9.figshare.13118132
title: IDENT_TRAIT_DATABASE_2020-10-20.xlsx

description: Functional trait dataset for IDENT (https://treedivnet.ugent.be/ExpIDENT.html) experiment gathered from online databases and literature.<br>Check metadata for more details.<br>Species list :Abies balsamea, Acer platanoides, Acer rubrum, Acer saccharum, Betula alleghaniensis, Betula papyrifera, Betula pendula, Larix decidua, Larix laricina, Picea abies, Picea glauca, Picea omorika, Picea rubens, Pinus resinosa, Pinus strobus, Pinus sylvestris, Quercus robur, Quercus rubra, Thuja occidentalis, Tilia cordata.<br><br>Trait list :Net maximum photosynthesis by leaf area, Net maximum photosynthesis by leaf mass, Root branching index (2nd root order), Root branching index (3rd root order)Drought tolerance, Stomatal conductances by leaf areaLeaf dry matter content, Leaf Carbon/Nitrogen ratio, Leaf Nitrogen content by leaf area, Leaf Nitrogen content by leaf mass, Litter Carbon content, Litter Nitrogen content, Leaf lifespan, Root Carbon/Nitrogen ratio, Root Nitrogen content by root mass, Root mean diameter (1st root order), Root mean diameter (2nd root order), Root mean diameter (3rd root order), Seed mass (per 1000 seeds), Shade toleranceSpecific leaf area (1/LMA) petiola included, Specific root length (fine root), Wood density / Specific stem density, Waterlogging tolerance<br>
DOI: 10.5517/cct8rld
title: CCDC 753194: Experimental Crystal Structure Determination

description: Related Article: De-Nian Kong, Zai-Lai Xie, Jian-Rong Li, Mei-Ling Feng, Xiao-Ying Hung|2009|Jiegou Huaxue|28|1373|
DOI: 10.5517/ccxvlnz
title: CCDC 859712: Experimental Crystal Structure Determination

description: Related Article: I.G.Fomina,V.V.Chernyshev,Yu.A.Velikodnyi,M.A.Bykov,I.P.Malkerova,A.S.Alikhanyan,Yu.S.Zavorotnyi,Zh.V.Dobrokhotova,I.L.Eremebko|2013|Izv.Akad.Nauk SSSR,Ser.Khim.||429|
DOI: 10.34760/5f5b7c7014245
title: Universitair Medisch Centrum Groningen - Chronic Obstructive Pulmonary Disease

description: 100 asthmatics followed from childhood over 30 years, 280 asthma patients with follow up >30 years from which 200 families with proband with asthma (n=1259), 200 unrelated asthma, asthma trios (n=405), Rhinitis trios (n=226), untreated asthma and controls (n=150), 200 asthmapatients with airway biopsies, followed over >5 years), 75 families with two children with asthma.
description: Data categories: Biological samples
Material collected: DNA, Other, peripheral blood cells, Serum, Tissue; cryo preserved
Number of donors: 3000
Sex: Female, Male
Diseases studied: Chronic obstructive pulmonary disease: unspecified, Other, allergic rhinitis, Asthma
DOI: 10.5517/ccdc.csd.cc1jt7zk
title: CCDC 1424449: Experimental Crystal Structure Determination

description: Related Article: Reza Golbedaghi, Licínia L.G. Justino, Marzyeh Bahrampour, Rui Fausto|2021|Inorg.Chim.Acta|515|120061|doi:10.1016/j.ica.2020.120061
DOI: 10.5517/ccdc.csd.cc1mw3wh
title: CCDC 1515617: Experimental Crystal Structure Determination

description: Related Article: Kalyanmoy Jana, Ribhu Maity, Horst Puschmann, Anindita Mitra, Rita Ghosh, Subhas Chandra Debnath, Aparna Shukla, Arun Kumar Mahanta, Tithi Maity, Bidhan Chandra Samanta|2021|Inorg.Chim.Acta|515|120067|doi:10.1016/j.ica.2020.120067
DOI: 10.34760/5f5b7c5d3987d
title: Kind, Ouders en gezondheid: Aandacht voor Leefstijl en Aanleg

description: birth cohort, extensive environmental measures; 1600 trio's
description: Data categories: Biological samples
Material collected: DNA, Feaces, Serum
Number of donors: 2800
Sex: Unknown
Diseases studied: No information available
DOI: 10.21227/03hj-r980
title: Model2

description: Starting from December, KNN of the month and predict November by the same values.
DOI: 10.6084/m9.figshare.13089435.v1
title: Responses to iron oxide and zinc oxide nanoparticles in echinoderm embryos and microalgae: uptake, growth, morphology, and transcriptomic analysis

description: We investigated the toxicity of Iron oxide and Zinc oxide engineered nanoparticles (ENPs) on <i>Paracentrotus lividus</i> sea urchin embryos and three species of microalgae. Morphological responses, internalization, and potential impacts of Fe<sub>2</sub>O<sub>3</sub> and ZnO ENPs on physiology and metabolism were assessed. Both types of ENPs affected <i>P. lividus</i> larval development, but ZnO ENPs had a much stronger effect. While growth of the alga <i>Micromonas commoda</i> was severely impaired by both ENPs, <i>Ostreococcus tauri</i> or <i>Nannochloris sp.</i> were unaffected. Transmission electron microscopy showed the internalization of ENPs in sea urchin embryonic cells while only nanoparticle interaction with external membranes was evidenced in microalgae, suggesting that marine organisms react in diverse ways to ENPs. Transcriptome-wide analysis in <i>P. lividus</i> and <i>M. commoda</i> showed that many different physiological pathways were affected, some of which were common to both species, giving insights about the mechanisms underpinning toxic responses.
DOI: 10.4231/d3pc2t87s
title: Large Scale Testing of Hybrid Masonry

description: A large-scale specimen underwent testing at the University of Illinois at Urbana-Champaign in the Multi-Axial Full-Scale Sub-Structured Testing and Simulation (MUST-SIM) facility, which is part of the National Science Foundation (NSF) George E. Brown, Jr. Network for Earthquake Engineering Simulation (NEES). The specimen consisted of a frame with a masonry panel height-to-length aspect ratio of 1.0. Different types of masonry panels and connector elements were the subject of investigations. Loading and Boundary Condition Boxes (LBCBs) in the MUST-SIM facility were used to apply vertical load, lateral load, and release the overturning moment on the structure to evaluate the behavior and performance of the test specimens under various loading conditions. Instrumentation, such as strain gages, displacement transducers, and an advanced noncontact coordinate measurement system, were tracking the displacements and strains in the system for the purpose of determining the load path, developing design guidelines, and calibrating analytical models.
DOI: 10.5281/zenodo.4110025
title: Near-optimal robust bilevel linear instances

description: This repository contains the bilevel instances used in the paper Near-Optimal Robust Bilevel Optimization (https://arxiv.org/abs/1908.04040). They come in four groups, small, medium, large and mips instances, with different numbers of variables and constraints as described in the paper. The MIPS instances are constructed from the MIPS/RANDOM instances from https://coral.ise.lehigh.edu/data-sets/bilevel-instances/ The /data folder contains instances in JLD format, the DataReader folder contains a Julia project for reading the data.
DOI: 10.5281/zenodo.4009108
title: Near-optimal robust bilevel linear instances

description: This repository contains the bilevel instances used in the paper Near-Optimal Robust Bilevel Optimization (https://arxiv.org/abs/1908.04040). They come in four groups, small, medium, large and mips instances, with different numbers of variables and constraints as described in the paper. The MIPS instances are constructed from the MIPS/RANDOM instances from https://coral.ise.lehigh.edu/data-sets/bilevel-instances/ The /data folder contains instances in JLD format, the DataReader folder contains a Julia project for reading the data.
DOI: 10.5281/zenodo.3965792
title: Supplementary Material for the Paper "Configurable Verification of Timed Automata with Discrete Variables"

description: The tool we used for producing the experimental data is implemented as a prototype in the open source model checking framework Theta. Source code is available on GitHub. The experimental data is based on this commit. <strong>Prerequisites</strong> Java SE Runtime Environment 11 <strong>Building the tool</strong> See the build instructions. <strong>Usage</strong> <pre><code> $ java -jar theta-xta-cli.jar --clock &lt;LU|FWITP|BWITP&gt; Refinement strategy for clock variables --discrete &lt;NONE|FWITP|BWITP&gt; Refinement strategy for clock variables --model &lt;MODEL&gt; Path of the input model --search &lt;BFS|DFS|RANDOM&gt; Search strategy </code> </pre> <strong>Example</strong> <pre><code> $ java -jar theta-xta-cli.jar --model models\c1.xta --clock FWITP --discrete BWITP --search DFS </code> </pre> <strong>Sample output</strong> <pre><code> AlgorithmTimeInMs: 3482 // Total execution time in ms ExpandTimeInMs: 2128 // Time spend with expansion in ms CloseTimeInMs: 1301 // Time spent with covering nodes in ms ExpandExplRefinementTimeInMs: 901 // Expand refinement time for explicit domain in ms ExpandZoneRefinementTimeInMs: 84 // Expand refinement time for zone domain in ms CloseExplRefinementTimeInMs: 890 // Close refinement time for explicit domain in ms CloseZoneRefinementTimeInMs: 145 // Close refinement time for zone domain in ms CoverageChecks: 628201 // Number of coverage checks CoverageAttempts: 6069 // Number of attempts for forced coverage CoverageSuccesses: 6065 // Number of successes for forced coverage ExplRefinementSteps: 33560 // Number of refinements steps for explicit domain ZoneRefinementSteps: 1544 // Number of refinements steps for zone domain ArgDepth: 879 // Depth of the reachability graph ArgNodes: 14973 // Number of nodes in the reachability graph ArgNodesExpanded: 9307 // Number of expanded nodes in the reachability graph </code> </pre> For the experiments, we used JVM switches <code>-Xmx6G</code> and <code>-Xss8m</code>.
DOI: 10.5281/zenodo.3965791
title: Supplementary Material for the Paper "Configurable Verification of Timed Automata with Discrete Variables"

description: The tool we used for producing the experimental data is implemented as a prototype in the open source model checking framework Theta. Source code is available on GitHub. The experimental data is based on this commit. <strong>Prerequisites</strong> Java SE Runtime Environment 11 <strong>Building the tool</strong> See the build instructions. <strong>Usage</strong> <pre><code> $ java -jar theta-xta-cli.jar --clock &lt;LU|FWITP|BWITP&gt; Refinement strategy for clock variables --discrete &lt;NONE|FWITP|BWITP&gt; Refinement strategy for clock variables --model &lt;MODEL&gt; Path of the input model --search &lt;BFS|DFS|RANDOM&gt; Search strategy </code> </pre> <strong>Example</strong> <pre><code> $ java -jar theta-xta-cli.jar --model models\c1.xta --clock FWITP --discrete BWITP --search DFS </code> </pre> <strong>Sample output</strong> <pre><code> AlgorithmTimeInMs: 3482 // Total execution time in ms ExpandTimeInMs: 2128 // Time spend with expansion in ms CloseTimeInMs: 1301 // Time spent with covering nodes in ms ExpandExplRefinementTimeInMs: 901 // Expand refinement time for explicit domain in ms ExpandZoneRefinementTimeInMs: 84 // Expand refinement time for zone domain in ms CloseExplRefinementTimeInMs: 890 // Close refinement time for explicit domain in ms CloseZoneRefinementTimeInMs: 145 // Close refinement time for zone domain in ms CoverageChecks: 628201 // Number of coverage checks CoverageAttempts: 6069 // Number of attempts for forced coverage CoverageSuccesses: 6065 // Number of successes for forced coverage ExplRefinementSteps: 33560 // Number of refinements steps for explicit domain ZoneRefinementSteps: 1544 // Number of refinements steps for zone domain ArgDepth: 879 // Depth of the reachability graph ArgNodes: 14973 // Number of nodes in the reachability graph ArgNodesExpanded: 9307 // Number of expanded nodes in the reachability graph </code> </pre> For the experiments, we used JVM switches <code>-Xmx6G</code> and <code>-Xss8m</code>.
DOI: 10.21227/7x0r-1y06
title: Model9

description: New loss
DOI: 10.5281/zenodo.4110130
title: BSGatlas GFF3 file

description: The Bacillus Subtilis Genome atlas (BSGatlas) was obtained by integrating and curating existing annotation sources. The annotation is available as a genome browser hub and as a standardized GFF3 download. See: https://rth.dk/resources/bsgatlas/ <br> The browser enables a user to directly compare their experimental data with the annotation which was not directly possible beforehand. This doi contains the annotation GFF3 file and the genome sequence. For increased technical portability (the various genome browser tools), the genome sequence is referred to as "basu168", yet it is identical to the NCBI reference assembly "AL009126.3". The scripts that generated this annotation are under https://doi.org/10.5281/zenodo.3478329
DOI: 10.21985/n2-tq7q-q880
title: NAES College Library Card Catalog
DOI: 10.22003/xfel.eu-data-002193-00
title: Non-linear electronic interaction of atoms with x-rays
DOI: 10.35111/wcbv-pj21
title: Corpus of Law, Academic, and News

description: Introduction
<br>
<br>Corpus of Law, Academic, and News consists of 400 Persian documents divided into three genres: legal, academic, and news.
<br>
<br>The legal section contains texts from official publications, including the civil penal code, the criminal penal code, and the constitution of the Islamic Republic of Iran. The academic sub-corpus is comprised of published academic abstracts in various disciplinary areas, such as Art and Humanities, Social Sciences, and Natural Sciences. The news sub-corpus was extracted from an archive of ten Iranian news outlets spanning the period 2010- 2020.
<br>Data
<br>
<br>The document and token counts are as follows: 48 legal documents, 88,170 tokens; 274 academic documents, 85,765 tokens; and 78 news documents, 101,055 tokens.
<br>
<br>Each document contains metadata in the file's header with information such as specific text type, dates and source, and also contains annotations marking title and body paragraphs.
<br>
<br>All documents are presented as UTF-8 encoded XML with internal DTDs.
<br>Samples
<br>
<br>Please view this sample (XML).
<br>Updates
<br>
<br>None at this time.
<br>Copyright
<br>Portions © 2020 Ariana N. Mohammadi, © 2020 Trustees of the University of Pennsylvania
DOI: 10.5258/soton/d1409
title: Dataset for: Validation of a method to quantify microfibers present in aquatic surface microlayer

description: Here we present the accomaning dataset for 'Validation of a method to quantify microfibers present in aquatic surface microlayer'- Birkenhead et al., 2020. Many of the methods for microplastics quantification in the environment are criticised creating problems with data validity. Quantification of microplastics in the surface microlayer of aquatic environments using glass plate dipping holds promise as a simple field method, but its efficiency has yet to be validated. We tested a standard glass plate dipping method to assess recovery of four common polymer microfibres and two common natural fibres, under three different salinities (freshwater, brackish water, saltwater). Overall recovery rates were low (26.8 ± 1.54%) but higher recoveries were observed under saltwater treatments (36.5 ± 3.01 %) than brackish water (24.5 ± 1.92%) or freshwater (19.3 ± 1.92%). The fibre types showed different recovery rates, with acrylic yielding significantly higher recovery rates (37.0 ± 2.71%) than other fibres across treatments. No clear relationship between the density of the fibres and the recovery efficiency was seen. We suggest that, where this method is used for monitoring microplastics, the results will typically underestimate the total amount present, but that recovery is sufficiently consistent to allow comparison of differences between sampling locations. When comparing data across river-estuarine or similar transects salinity should be monitored to account for salinity-induced differences in sampling recovery.
DOI: 10.5258/soton/d1579
title: Dataset for: The importance of the heel effect in X-ray CT imaging of soils

description: Dataset supports the paper K. Liu, R. Boardman, M. Mavrogordato, F. A. Loveridge, and W. Powrie 'The importance of the heel effect in X-ray CT imaging of soils' in Environmental Geotechnics.
DOI: 10.6084/m9.figshare.12682382
title: Soil-microorganism-mediated invasional meltdown in plants

description: This is the data, codes and reports of the paper 'Soil-microorganism-mediated invasional meltdown in plants' by Zhijie Zhang, Yanjie Liu, Caroline Brunel and Mark van Kleunen, which was accepted in Nature Ecology and Evolution in 2020.<br>We experimentally tested whether and how a third plant species affected the competitive outcomes between alien and native plants through its soil legacy. We first conditioned soil with one of ten species (six natives and four aliens) or without plants. Then, we grew on these 11 soils, five aliens and five natives without competition, or with intra- or interspecific competition.<br>It is also deposited at GitHub (https://github.com/ecozhang/Invasional-meltdown).
DOI: 10.6084/m9.figshare.12682382.v3
title: Soil-microbes-mediated invasional meltdown in plants

description: This is the data, codes and reports of the paper 'Soil-microbes-mediated invasional meltdown in plants' by Zhijie Zhang, Yanjie Liu, Caroline Brunel and Mark van Kleunen, which was accepted in Nature Ecology and Evolution in 2020.<br>We experimentally tested whether and how a third plant species affected the competitive outcomes between alien and native plants through its soil legacy. We first conditioned soil with one of ten species (six natives and four aliens) or without plants. Then, we grew on these 11 soils, five aliens and five natives without competition, or with intra- or interspecific competition.<br>It is also deposited at GitHub (https://github.com/ecozhang/Invasional-meltdown).
DOI: 10.5287/bodleian:2zvx4a2ar
title: Supporting Data - Carbon Emcoating Architecture Boosts Lithium Storage of Nb2O5
DOI: 10.6084/m9.figshare.13118405
title: List of genomes used a reference for the functional annotation of proteins in new genomes

description: We used Prokka (version 1.12) (Seemann 2014) to annotate the new genomes sequences, with the following notable options: “--force --addgenes --locustag --compliant –usegenus –genus Rhizobium --kingdom Bacteria --gcode 11”. We used a reference database of annotated protein based on proteomes predicted from all available complete genomes from the <i>Rhizobium</i>/<i>Agrobacterium</i> group (n=206), as downloaded from the NCBI RefSeq Assembly database on the 15 Dec 2017 using the query ‘txid227290[Organism:exp] AND ("latest refseq"[filter] AND ("scaffold level"[filter] OR "chromosome level"[filter] OR "complete genome"[filter]) AND all[filter] NOT anomalous[filter])’. These proteomes were merged into a non-redundant dataset that was thinned by retaining a single representative protein for each protein cluster as determined by the CD-HIT clustering program (version 4.6) (Fu et al. 2012), used with the options ‘-T 0 -M 0 -G 1 -s 0.8 -c 0.9’. The resulting dataset was used as a subject database for a BLASTP (Camacho et al. 2009) similarity search during the annotation process.
DOI: 10.21227/572a-7r74
title: Model9_2

description: Autoencoder
DOI: 10.5517/cc5bst2
title: CCDC 159334: Experimental Crystal Structure Determination

description: Related Article: N.W.Mitzel, C.Lustig|2001|Z.Naturforsch.,B:Chem.Sci.|56|443|
DOI: 10.21227/hn3t-ay57
title: Tuberculosis (TB) Chest X-ray Database

description: A team of researchers from Qatar University, Doha, Qatar, and the University of Dhaka, Bangladesh along with their collaborators from Malaysia in collaboration with medical doctors from Hamad Medical Corporation and Bangladesh have created a database of chest X-ray images for Tuberculosis (TB) positive cases along with Normal images. In our current release, there are 3500 TB images, and 3500 normal images.Note: The research team managed to classify TB and Normal Chest X-ray images with an accuracy of 98.3%. This scholarly work is published in IEEE Access Link. Please make sure you give credit to us while using the dataset, code, and trained models.Credit should go to the following:Tawsifur Rahman, Amith Khandakar, Muhammad A. Kadir, Khandaker R. Islam, Khandaker F. Islam, Zaid B. Mahbub, Mohamed Arselene Ayari, Muhammad E. H. Chowdhury. "Reliable Tuberculosis Detection using Chest X-ray with Deep Learning, Segmentation and Visualization". [Accepted: IEEE Access] [https://arxiv.org/ftp/arxiv/papers/2007/2007.14895.pdf]