cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28193483.v2
title: <b>Management solutions to handle the global-scale reactive nitrogen crisis</b>

description: <b>Abstract</b>The global reactive nitrogen (Nr) crisis presents a pressing challenge, requiring practices that balance Nr losses and crop productivity. Here, we evaluate the effect of 14 common management practices on Nr losses and crop productivity by reviewing 146 available meta-analyses and conduct a second-order meta-analysis based on 6382 unique primary studies comprising 20,167 paired observations. Results show that while most practices involve trade-offs or insufficient evidence, applications of enhanced-efficiency fertilizers, reduced nitrogen inputs, optimized fertilization methods, and biochar amendments consistently achieve ‘win-win’ outcomes by mitigating Nr losses (N₂O, NO, NH₃ emissions, and leaching/runoff) and improving crop productivity (nitrogen use efficiency, nitrogen uptake, and crop yield). By quantifying the average effect and go beyond qualitative information, we reveal the list of ‘win-win’ practices that facilitate global movements commensurate with reactive nitrogen crisis while trade-offs could be minimized.<b>Keywords</b>: Reactive nitrogen; Second-order meta-analysis, Nitrogen mitigation, Crop productivity, Sustainable agriculture
DOI: 10.6084/m9.figshare.28711880.v1
title: T2T genomes of peanut

description: T2T genome assembly of six peanut species.
DOI: 10.6084/m9.figshare.29155043.v1
title: b-gal

description: b-gal for 3m and 20m
DOI: 10.6084/m9.figshare.5126476.v1
title: Supplementary Material for: A P19 and P19CL6 Cell-Based Complementary Approach to Determine Paracrine Effects in Cardiac Tissue Engineering

description: The negligible self-repair potential of the myocardium has led to cell-based tissue engineering approaches to restore heart function. There is more and more consensus that, in addition to cell development, paracrine effects in particular play a pivotal role in the repair of heart tissue. Here, we present two complementary murine P19 and P19CL6 embryonic carcinoma cell-based in vitro test approaches to study the potential of repair cells and the factors secreted by these cells to induce cardiomyogenesis. P19 cells were 3-dimensionally cultured in hanging drops and P19CL6 cells in a monolayer. Both systems, capable of inducible differentiation towards the cardiomyogenic lineage shown by the appearance of beating cells, the expression of connexin 43 and cardiac troponins T and I, were used to test the cardiomyogenesis-inducing potential of human cardiac-derived adherent proliferating (CardAP) cells, which are candidates for heart repair. CardAP cells in coculture as well as CardAP cell-conditioned medium initiated beating in P19 cells, depending on the cell composition and concentration of the medium. CardAP cell-dependent beating was not observed in P19CL6 cultures, but connexin 43 and cardiac troponin formation as well as expression of GATA-binding protein 4 indicated the dose-dependent stimulatory cardiomyogenic effect of human CardAP cells. In summary, in different ways, P19 and P19CL6 cells have shown their capability to detect paracrine effects of human CardAP cells. In a complementary approach, they could be beneficial for determining the stimulatory cardiomyogenic potential of candidate cardiac-repair cells in vitro.
DOI: 10.17632/454dsrmdyf
title: 2D Binary Images and Effective Thermal Conductivity CFD Results

description: This dataset was originally created to train a CNN for predicting the effective thermal conductivity of these binary structures based on geometry alone. A total of four different ratios of thermal conductivity between the two phases were simulated. The original dataset contains 40,000 unique 128x128 binary structures, and is further expanded by flipping the color scheme, rotating the image 90 degrees, and doing both simultaneously. That is done to the folders CirclePack, EllipsePack, and QuadrilateralPack, expanding the dataset to 130,000 unique structures. Therefore, in the folders below are the 40,000 original images (10,000 in each folder) and all of the CFD results (520,000 total simulation results). For more detail on structure generation and the CFD algorithm, refer to the manuscript. Pre-proof manuscript: Adam, A., Fang, H., & Li, X. (2023). Effective thermal conductivity estimation using a convolutional neural network and its application in topology optimization. In Energy and AI (p. 100310). Elsevier BV. https://doi.org/10.1016/j.egyai.2023.100310
DOI: 10.17632/9f2w56pfnh
title: Vulnerability Datasets for Classification Performance Analysis

description: It contains 5 csv files extracted from NVD using CVE API. The files contain description and a severity rating. The 17-23.csv file contains 130430 vulnerability descriptions reported during 2017-2023. It can be used for model training. 2024.csv file contains 19876 descriptions reported in 2024. It may be used to test the model for temporally separated vulnerabilities. kev_april25.csv contains 1309 vulnerability descriptions present in the KEV (Known Exploit Vulnerability) catalog. It contains high-risk vulnerabilities and may be used for performance analysis. android.csv and windows.csv files contain 7379 and 6190 vulnerability descriptions respectively and may be used for performance analysis of classification models.
DOI: 10.17632/mzgp37947y
title: Supplementary Data for "Emplacement of shergottites in the martian crust inferred from 3D petrofabric and crystal size distribution analyses

description: This dataset contains the supplementary material for manuscript, "Emplacement of shergottites in the martian crust inferred from 3D petrofabric and crystal size distribution analyses" by Eckley, et al.
DOI: 10.6084/m9.figshare.19427006.v2
title: Neural Network based Power Flow Model

description: Please cite the following paper if you use the data and model uploaded here: <br> T. Pham and X. Li, "Neural Network-based Power Flow Model," <em>2022 IEEE Green Technologies Conference (GreenTech)</em>, 2022, pp. 105-109, doi: 10.1109/GreenTech52845.2022.9772026. Disclaimer: The authors do not make any warranty for the accuracy, completeness, or usefulness of any information disclosed; and the author assumes no liability or responsibility for any errors or omissions for the information (data/code/results etc) disclosed.
DOI: 10.6084/m9.figshare.14906499.v1
title: Dataset of DeepOPF-V: Modified IEEE 300-bus system with real-time load data

description: This dataset was generated for the case study in modified IEEE 300-bus system using real-time load data in [1].<br>[1] W. Huang, X. Pan, M. Chen, and S. H. Low, "DeepOPF-V: Solving AC-OPF Problems Efficiently," arXiv preprint arXiv:2103.11793, 2021.<br>
DOI: 10.6084/m9.figshare.19193282.v1
title: Zoom class survey data (raw data to be process).xlsx

description: An online survey was designed in Qualtrics, which was made up of two parts: 1-5 on learner effort in this course; 6 (33 statements) regarding language class anxiety.<br>The scale with 33 statements was revised from FLCAS by Horwitz et al. (1986).
DOI: 10.6084/m9.figshare.23170403.v1
title: Database- Egyptian Physician-influencers on Social Media

description: Details of 42 Egyptian popular physicians on social media including their professional email addresses and telephone numbers. <br> The dataset includes the following details for each physician-influencer: Name, Gender, Specialization, YouTube Channel, Instagram Account, Facebook Page, Email Address, Telephone, Most Popular Social Network and the Highest Number of followers they had in April 2021.
DOI: 10.17632/n9vc6vb98t
title: Environmental changes and large wading birds

description: Diversity changes of large wading birds from 2010-2019 at different sites
DOI: 10.17632/xknhpz5t96
title: Raw dataset with accelerometer, gyroscope and magnetometer data for activities with motion

description: This raw dataset presents the data related to the walking, running, standing, walking upstairs, and walking downstairs captured with accelerometer, gyroscope and magnetometer sensors available in off-the-shelf mobile devices.
DOI: 10.17632/z3v6jdnwh6
title: Photo Archive of In Situ Benthic Imagery from the Gully Marine Protected Area

description: The Gully is located approximately 200 kilometres off Nova Scotia, Canada to the east of Sable Island where it incises the edge of the Scotian Shelf. Over 65 km long and 15 km wide, the Gully is the largest underwater canyon in the western North Atlantic. In May, 2004 Canada created a marine protected area (MPA) of 2,363 km2 with four conservation objectives: 1. Minimize harmful impacts from human activities on cetacean populations and their habitats; 2. Minimize the disturbance of seafloor habitat and associated benthic communities caused by human activities; 3. Maintain and monitor the quality of water and sediments of the Gully; and 4. Manage human activities to minimize impacts on other commercial and non-commercial living resources. The Gully ecosystem encompasses shallow sandy banks, a deep-water canyon environment, and portions of the continental slope and abyssal plain, providing habitat for a wide diversity of species. The Gully’s size, shape, and location have an effect on currents and local circulation patterns, concentrating nutrients and small organisms within the canyon. The Gully is home to the endangered Scotian Shelf population of Northern bottlenose whales and is an important habitat for 15 other species of whales and dolphins. Tiny plankton, a variety of fish such as sharks, tunas and swordfish, and seabirds inhabit surface waters, while halibut, skates, cusk and lanternfish can be found as deep as one kilometre. The ocean floor supports crabs, sea pens, anemones, brittle stars, and approximately 30 species of cold-water corals. Fisheries and Oceans, Canada has collected benthic imagery from the Gully environs from the late 1990s, before the creation of the MPA. Benthic imagery has been collected opportunistically from 1997 to the present on a number of research missions led by the Department. As part of a data rescue mission to preserve such data associated with the Gully MPA and surrounds, we have compiled all of the imagery data held by the research team led by Dr. Ellen Kenchington at the Bedford Institute of Oceanography. These constitute video and still images from 9 research missions conducted by DFO, with links to data collected by NOAA Okeanos Explorer EX1905L2 in 2019 in a jointly planned expedition. In 2023 Dalhousie University conducted benthic imagery work in the Gully MPA (Dr. Owen Sherwood, PI), but those data are not included in this submission. Here we provide PDF maps of each cruise, provide the metadata for 143 operations which produced 101 hours of video and 3554 photos. None of these images have been edited and we provide the complete collection series recognizing that some of the photos and video may not be suitable for analyses. We are currently investigating whether video collected from 1997 to 2000 can be rescued and digitized. If successful those video will be published at a later date.
DOI: 10.6084/m9.figshare.24312436.v5
title: Data for current and historical resource nitrogen supply affects the eco-physiological traits and the ionome of a diazotrophic cyanobacterium.

description: Culture experiment using Dolichospermum UTEX 1444 long-term adapted to different N-supplies for 45 months. The long-term adapted and our stock Dolichosermum were grown across an N-supply gradient for 27 days. We measured cumulative biomass, N-fixation rates, P uptake rates, elemental stoichiometry (ionome), chlorophyll a, phycobilin pigment concentrations, cyanophycin concentrations, and photosynthetic efficiency.File structure:Readme file that explains the data and R code used to analyze the data and create the figures.Attributes files contain the units and descriptions of the column headings for the data generated.
DOI: 10.6084/m9.figshare.1007654.v3
title: Figures of: Tweets vs. Mendeley readers: How do these two social media metrics differ?

description: A set of 1.4 million biomedical papers was analyzed with regards to how often articles are mentioned on Twitter or saved by users on Mendeley. While Twitter is a microblogging platform used by a general audience to distribute information, Mendeley is a reference manager targeted at an academic user group to organize scholarly literature. Both platforms are used as sources for so-called “altmetrics” to measure a new kind of research impact. This analysis shows in how far they differ and compare to traditional citation impact metrics based on a large set of Pubmed PubMed papers. <strong>Figure 1</strong>: Frameworks representing Mendeley (A) and Twitter data (B) on the level of NSF specialties. Specialties are shown if they were represented in PubMed by more than 100 papers for the 2010-2012 period and more than 30 read (A) or tweeted (B) papers in 2011. <strong>Figure A1</strong>: Scatterplot of number of citations and number of tweets (A, ρ=0.181**) and Mendeley readers (B, ρ=0.677**) for papers published in General Biomedical Research in 2011. The respective three most tweeted (A) and read (B) papers are labeled showing the first author. All values were increased by 1 to include all data points in the logarithmic representation. <strong>Figure A2</strong>: Scatterplot of number of citations and number of tweets (A, ρ=0.074**) and Mendeley readers (B, ρ=0.351**) for papers published in Public Health in 2011. The respective three most tweeted (A) and read (B) papers are labeled showing the first author. All values were increased by 1 to include all data points in the logarithmic representation.
DOI: 10.6084/m9.figshare.24553000.v1
title: Data from: <b>Dollo parsimony overestimates ancestral gene content reconstructions</b>

description: Ancestral reconstruction is a widely-used technique that has been applied to understand the history of gain and loss of gene families over evolutionary time scales, and to produce hypotheses on how these gains and losses may have influenced the evolutionary trajectories of extant organisms.Ancestral gene content can be reconstructed via different phylogenetic methods, such as maximum likelihood or Bayesian inference, but many current and previous studies employ Dollo parsimony. We hypothesize that Dollo parsimony is not appropriate for ancestral gene content reconstruction inferences based on sequence homology, as Dollo parsimony is derived from the assumption that a complex character can only be gained once in evolutionary history. This premise does not accurately model molecular sequence evolution, in which false orthology can result from sequence convergence (including random sequence similarity and parallel gene gains), non-orthologous homology or lateral gene transfer. The aim of this study is to test Dollo parsimony's suitability for ancestral gene content reconstruction and to compare its inferences with a maximum likelihood-based approach which allows a gene family to be gained more than once within a tree.In order to test our hypothesis, we first compared the performance of the two approaches on a series of artificial datasets each of 5,000 genes that were simulated according to a spectrum of evolutionary rates. Next, we reconstructed protein domain evolution on a phylogeny representing known eukaryotic diversity. We observed that Dollo parsimony produced numerous ancestral gene content overestimations, which were more pronounced at nodes closer to the root of the tree. These observations led us to the conclusion that, confirming our hypothesis, Dollo parsimony is not an appropriate method for ancestral reconstruction studies based on sequence homology.<br>bppancestor_input_domains.txt: Input file to Bppancestor to reconstruct the evolution of protein domains in eukaryotes.bppancestor_input_simulations.zip: Input files to Bppancestor to simulate the evolution of 5,000 sequences using metazoan phylogeny.dollop_input_domains.phylip: Input file to PHYLIP Dollop to reconstruct the evolution of protein domains in eukaryotes.dollop_input_simulations.zip: Input files to PHYLIP Dollop to simulate the evolution of 5,000 sequences using metazoan phylogeny.
DOI: 10.6084/m9.figshare.27004879.v1
title: <b>Enhancing Android Malware Detection: The Influence of ChatGPT on Decision-centric Task</b>

description: We explore the transformative impact of non-decision models, specifically ChatGPT, on the traditional decision-centric task of Android malware detection. Through a series of carefully designed experiments using publicly available datasets, this study reveals a paradigm shift. It reveals a serious lack of interpretability in decision-driven solutions, raising concerns about their reliability. In contrast, ChatGPT, as a non-decision-making model, is good at providing comprehensive analysis reports and significantly enhances interpretability. We give developers more insights through a non-decision-making perspective.<b>ChatGPT</b>You can find ChatGPT’s analysis report on [APK_Analysis].<b>Project Structure</b>APK List: It contains the SHA256 of malicious and benign samples.<b>Dataset</b>All samples we used in our experiments you can find at [kronodroid].<b>Survey Results</b>We collect responses from <b>101 participants</b> and process their data by removing <b>personal or sensitive information</b>.Data preparation includes:Converting speech to textTranslating Chinese responses to EnglishRemoving redundant modal particlesThese processes ensure that the data is <b>clean and structured</b>, allowing for <b>accurate and efficient analysis</b>.<br>
DOI: 10.6084/m9.figshare.28639475.v1
title: Supplementary Material for: DRESS syndrome following dalbavancin and oritavancin administration in a patient with osteomyelitis

description: Dalbavancin and oritavancin are newer long-acting antibiotics with potent activity against gram-positive organisms, including MRSA. Their prolonged half-life, 257 hours for dalbavancin and 195 hours for oritavancin, allows for less frequent dosing. However, a long half-life also leads to prolonged drug exposure, should adverse effects occur. Here we report the first case of drug reaction with eosinophilia and systemic symptoms (DRESS) syndrome in a patient treated with dalbavancin and oritavancin.
DOI: 10.17632/8xd387h3vf
title: pyMOE: Mask design and modeling for micro optical elements and flat optics

description: We introduce a new open-source software package written in Python to design and model micro optical elements, such as diffractive lenses, holograms, as well as other components within the broad area of flat optics, and generate their corresponding (production-ready) lithography mask files. To this aim, the package provides functions to design a multitude of kinoform lenses, phase masks and holograms, but is versatile and the user can implement any arbitrary numerical or analytical optical component designs. For validating the designs, this package provides scalar diffraction propagation to simulate optical field propagation in different regimes covering near- and far-field regions (Fresnel, Fraunhofer and Rayleigh-Sommerfeld). Particularly, by implementing Rayleigh-Sommerfeld propagation, we demonstrate accurate field propagation within near- and far-field ranges, providing versatility and accuracy. Importantly, the package allows to directly export production-ready multilevel/binary lithography mask files of the designed optical components. Additionally, metasurface masks can conveniently be generated for any user-defined meta-element library given as input. Finally, the software package capabilities are illustrated with examples of mask design and modeling of diffractive lenses, holograms, and metasurfaces susceptible of being fabricated via lithography techniques. Beyond lithography, the package can also straightforwardly be used in other applications requiring mask generation, such as beam shaping, optical trapping and digital holography.
DOI: 10.17632/cmysh52k96
title: Laser Beam Synthetic Dataset: Gaussian, Super-Gaussian, Bessel, Multimode, and Speckled Beams

description: This dataset, titled "Laser Beam Synthetic Dataset: Gaussian, Super-Gaussian, Bessel, Multimode, and Speckled Beams," contains 10,000 computer-generated laser beam images with various intensity distributions. These beams are widely used in optics, photonics, and laser physics research and serve as a valuable resource for machine learning-based beam classification, optical simulations, and laser system analysis.

Dataset Composition: 
- 9,500 synthetic laser beam images generated using numerical simulations 
- 500 reference Gaussian beam images to serve as a standard baseline 
- Metadata file (`metadata.csv`) containing beam characteristics, including type and quality factor 

Each image is 256×256 pixels, grayscale (8-bit, PNG format), ensuring compatibility with computer vision models, deep learning frameworks, and scientific image analysis tools.

Beam Types Included:
1. Reference Gaussian: Standard Gaussian beams used as a baseline 
2. Gaussian Beam: Intensity follows a normal distribution, simulating laser beams with a single mode 
3. Super-Gaussian Beam: Higher-order Gaussian beam with sharper edges, often used in high-power laser applications 
4. Bessel Beam: Non-diffracting beam generated using Bessel functions, useful in optical trapping and microscopy 
5. Multimode Beam: Superposition of multiple Gaussian beams to simulate real-world laser outputs with multiple transverse modes 
6. Speckled Beam: Randomized intensity distribution mimicking speckle patterns found in scattered laser light 

Beam Quality Metrics:
Each beam image is analyzed using multiple beam quality factors, stored in the metadata file: 
- Beam_Quality_Factor (M²): Measures beam propagation characteristics 
- Symmetry Score: Assesses left-right symmetry of the beam profile 
- Circularity Index: Evaluates the beam's shape compared to an ideal circle 
- Full-Width at Half Maximum (FWHM): Measures beam width for intensity profile analysis 

Applications of this Dataset:
- Deep Learning & AI: Train neural networks for beam classification and segmentation 
- Optical System Design: Simulate and optimize laser systems based on different beam profiles 
- Laser Diagnostics: Develop automated tools for beam quality assessment 
- Biomedical Imaging: Enhance laser applications in medical imaging and microscopy 
- Computational Optics: Explore structured light, wavefront shaping, and non-diffracting beam propagation 

Why This Dataset?
This dataset is designed to bridge the gap between theoretical optics and AI-based analysis. Unlike real-world laser beam datasets, which require expensive laboratory setups, this synthetic dataset provides a cost-effective, noise-controlled, and scalable solution for training and evaluating optical AI models. 

Researchers, engineers, and machine learning practitioners can use this dataset to test deep learning algorithms, validate optical theories, and develop automated beam analysis tools.
DOI: 10.17632/h8d2wdrxzt
title: Dataset for Self-serving Regret: Experimental Evidence from a Reciprocity Game

description: This dataset includes all raw data generated in laboratory experiments conducted in the Behavioral and Experimental Social Science Laboratory (BESSL) at Beijing Foreign Studies University (BFSU), in the spring of 2022. The data was used to study for Self-serving Regret: Experimental Evidence from a Reciprocity Game. The paper is now published on Humanities and Social Sciences Communications. Accepted: 17 December 2024; Published: 25 January 2025
DOI: 10.6084/m9.figshare.25242787.v2
title: Effect of herbivory on vegetation response to prescribed burning in an East African Savanna

description: This data set is obtained from experimental exclosure plots in a savanna ecosystem in the Northern parts of Kenya, Laikipia. It details vegetation composition changes over time following herbivory on fire treated plots, and their respective controls. The aim of the data set was to investigate how herbivory, and by different herbivore groups influence vegetation composition response to fire.