Find research datasets worth reusing

opencc-by-4.0Apr 2020View details →

Data for synthetic simulation in "Topography curvature effects in shallow-water models"

Synthetic topographies and initial masses used in "Topography curvature effects in shallow-water models"

opencc-by-4.0Jun 2020View details →

Synthetic LOS and interarrival time data for COPD patients in the Cwm Taf region

This archive contains two artificial datasets for the length of stay (LOS) and interarrival times of patients with COPD. Each dataset is split amongst four clusters as identified in the work that these datasets support. The rest of the associated paper is available at <a href="https://github.com/daffidwilde/copd-paper">https://github.com/daffidwilde/copd-paper</a>

opencc-by-4.0Jul 2020View details →

Synthetic data based on IPUMS microcensus data for mobility between NUTS3 areas of Europe

This dataset predicts mobility across all NUTS3 regions of Europe using microcensus data from IPUMS international (<a href="https://international.ipums.org/international/">https://international.ipums.org/international/</a>). Please see doc in zip file for further information.

opencc-by-4.0Sep 2020View details →

Synthetic MISE Data for Radiation Robustness Analysis

This dataset contains synthetic observations similar to those that will be produced by the Mapping Imaging Spectrometer for Europa (MISE) instrument. The dataset was created by taking visible Galileo Solid-State Imaging (SSI) experiment observations resized to 300x300 pixels, using pixel intensity as a proxy for albedo, and linearly mixing two 451-channel spectra in proportion to albedo for each pixel. The contents of this directory include the original SSI images and PDS label files, rescaled versions of the images, and the spectral cubes in HDF5 format corresponding to synthetic MISE digital number (DN) measurements. The cube files contain two datasets, "cube" containing the DN values, and "wavelengths," which holds the wavelength in nanometers corresponding to each value in a spectrum. The dataset was created to evaluate the radiation robustness of the Reed-Xiaoli (RX) algorithm used for spectral anomaly detection. For the radiation robustness analysis, only the first 421 channels of the spectra are used. The full dataset size is roughly 781 MB.

opencc-zeroJul 2020View details →

Data from: Biomimicry of iridescent, patterned insect cuticles: comparison of biological and synthetic, cholesteric microcells using hyperspectral imaging

Biological systems inspire the design of multifunctional materials and devices. However, current syynthetic replicas rarelyy capture the range of structural complexityy observed in natural materials. Prior to the definition of a biomimetic design, a dual investigation with a common set of criteria for comparing the biological material and the replica is required. Here, we deal with this issue by addressing the non-trivial case of insect cuticles tessellated with polygonal microcells with iridescent colors due to the twisted cholesteric organization of chitin fibers. By using hyperspectral imaging within a common methodology, we compare, at several length scales, the textural, structural and spectral properties of the microcells found in the two-band cuticle of the scarab beetle Chrysina gloriosa with those of the polygonal texture formed in flat films of cholesteric liquid crystal oligomers. The hyperspectral imaging technique offers a unique opportunity to reveal the common features and differences in the spectral-spatial signatures of biological and synthetic samples at a 6-nm spectral resolution over 400 nm-1000 nm and a spatial resolution of 150 nm. The biomimetic design of chiral tessellations is relevant to the field of non-specular properties such as deflection and lensing in geometric phase planar optics.

opencc-by-4.0Dec 2020View details →

Synthetic population data for Belgium for STRIDE

This repository contains population files with 11 million individuals for Belgium we used to explore the impact of contact tracing and household bubbles on Belgian deconfinement strategies after the COVID-19 related lockdown in 2020 (Willem et al 2021) and universal testing strategies for COVID-19 mitigation (Libin et al 2021). We created census-based synthetic populations for Belgium consisting of individuals that are part of “contact pools”, representing a household, school-class, workplace, or community. References: Willem L, Abrams S, Libin JK P, Petrof O, Coletti P, Kuylen E,  Møgelmose S, Wambua J, Herzog S A, Faes C, SIMID COVID19 team, Beutels P, Hens N: The impact of contact tracing and household bubbles on deconfinement strategies for COVID-19. Nature Communications 12, 1524 (2021) (<a href="https://doi.org/10.1038/s41467-021-21747-7">https://doi.org/10.1038/s41467-021-21747-7</a>). Libin JK P, Willem L, Verstraeten T, Torneri A, Vanderlocht J, Hens N. Assessing the feasibility and effectiveness of household-pooled universal testing to control COVID-19 epidemics. PLoS Computational Biology 17(3): e1008688 (2021) (<a href="https://doi.org/10.1371/journal.pcbi.1008688">https://doi.org/10.1371/journal.pcbi.1008688</a>)

opencc-zeroDec 2012View details →

Data from: The effects of synthetic estrogen exposure on pre-mating and post-mating episodes of selection in sex-role-reversed Gulf pipefish

Environmental estrogens have been shown to affect populations of aquatic organisms in devastating ways, including feminization of males, alterations in mating behaviors, and disruption of sexual selection. Studies have shown 17α-ethinylestradiol (EE2) exposure to induce female-like secondary sexual traits in male Gulf pipefish, changing how females perceive affected males. We aimed to understand the effects of EE2 exposure on the sex-role-reversed mating system and the strength of selection in Gulf pipefish. We used artificial Gulf pipefish breeding aggregations and microsatellite-based parentage analysis to determine maternity. We then calculated the opportunity for selection and selection differentials on body size for both sexes during three consecutive episodes of selection. Exposure to EE2 did not affect the strength of selection, likely due to the unusual sex-role-reversed mating system found in this species. With respect to multiply mated females, EE2 exposed females produced more eggs with higher embryo survivorship than non-exposed females. Thus, short-term exposure to low concentrations (2.0 ng/L) of EE2 in Gulf pipefish enhanced female reproductive success. However, higher EE2 concentrations (5.0 ng/L) caused complete reproductive failure in Gulf pipefish males. These results call for more work on the long-term effects of EE2 exposure in Gulf pipefish in artificial and natural populations.

opencc-zeroDec 2015View details →

Data from: Analyzing negative feedback using a synthetic gene network expressed in the Drosophila melanogaster embryo

Background: A complex network of gene interactions controls gene regulation throughout development and the life of the organisms. Insights can be made into these processes by studying the functional interactions (or "motifs") which make up these networks. Results: We sought to understand the functionality of one of these network motifs, negative feedback, in a multi-cellular system. This was accomplished using a synthetic network expressed in the Drosophila melanogaster embryo using the yeast proteins Gal4 (a transcriptional activator) and Gal80 (an inhibitor of Gal4 activity). This network is able to produce an attenuation or shuttling phenotype depending on the Gal80/Gal4 ratio. This shuttling behavior was validated by expressing Gal3, which inhibits Gal80, to produce a localized increase in free Gal4 and therefore signaling. Mathematical modeling was used to demonstrate the capacity for negative feedback to produce these varying outputs. Conclusions: The capacity of a network motif to exhibit different phenotypes due to minor changes to the network in multi-cellular systems was shown. This work demonstrates the importance of studying network motifs in multi-cellular systems.

opencc-zeroDec 2018View details →

Data from: Varying the spatial arrangement of synthetic herbivore-induced plant volatiles and companion plants to improve conservation biological control

1.Conservation biological control aims to control pests by promoting wild populations of natural enemies. One challenge is to attract and retain efficient natural enemies in crop fields, which often are a suboptimal environment. Towards this goal, the attract-and-reward strategy relies on combining attractive synthetically produced herbivore-induced plant volatiles (HIPVs) with companion plants (non-crop plants which provide alternative resources to the targeted natural enemies). Although severely overlooked, the spatial arrangement of HIPV dispensers and rewards inside crop fields may strongly influence the foraging behaviour and persistence of natural enemies and thus the success of this pest management strategy. 2.We tested the impact of two contrasting spatial arrangements of HIPV dispensers and rewards, alternatively inside and around a block of target apple trees, on the efficacy of the biological control of Aphis citricola populations by the common predatory ladybird Propylea japonica in apple orchards in northern China. We used synthetic methyl salicylate (MeSA) as an attractant and the companion plant Calendula officinalis as a reward. To better understand how the spatial arrangement of MeSA dispensers and companion plants affected the attraction and foraging behaviour of adult ladybirds, we conducted indoor experiments in a flight mill, an olfactometer and a wind-tunnel. 3.Blocks of target trees treated with MeSA dispensers inside and companion plants around provided the most efficient pest control in orchards, compared with the opposite spatial arrangement. 4.The synthetic MeSA dispenser and the companion plant synergistically attracted ladybirds in the olfactometer and enhanced their flight activity in the flight mill. In the wind-tunnel, MeSA served as a spatial cue for ladybirds to find nearby prey, while companion plants were sought in the absence of prey. 5.Synthesis and applications. The present study will help further improvements of aphid control in apple orchards through a careful spatial arrangement of herbivore-induced plant volatiles dispensers (HIPVs) and rewards (companion plants) in optimized attract-and-reward strategies. Without such assessment, these strategies may be hazardous even with well-identified targeted natural enemies. Associated lab experiments highlight that HIPVs and companion plants interactively influence ladybird foraging pattern, and that their spatial arrangement can modulate the ability of such key predators to find their prey.

opencc-by-4.0Aug 2016View details →

Dataset for the publication "Neutrophilic Bioleaching of Synthetic Covellite – A Model System Combining Experimental Data and Geochemical Modeling"

This dataset contains data, which were used in preparation of the publication "Neutrophilic Bioleaching of Synthetic Covellite – A Model System Combining Experimental Data and Geochemical Modeling"

Synthetic Observation of Column Density Maps Derived from Cloud Factory Data via Radiative Transfer Simulations

This dataset contains synthetic observation data derived from Cloud Factory data, processed through radiative transfer simulations using POLARIS. The data focuses on several star-forming regions, providing valuable insights into the evolution of filaments within these areas. The dataset is presented at three different resolutions: high (0.25 pc/pixel), medium (0.5 pc/pixel), and low (1 pc/pixel), to cater to various analytical needs. Files labeled as RA, RB, and RC correspond to three distinct regions under study. Additionally, each file is tagged with a 's' followed by a number, indicating the snapshot sequence.

Code and Data Repository for "Identifying microbiota community patterns important for plant protection using machine learning in synthetic community experiments"

The repository includes data and R code necessary to reproduce all figures and analyses presented in the study titled "Identifying microbiota community patterns important for plant protection using machine learning in synthetic community experiments".

Dataset in csv format containing labor force data in a synthetic population

Open the record for dataset details and reuse information.

opencc-by-4.0Sep 2023View details →

Code and processed data - Control points for design of taxonomic composition in synthetic human gut consortia

Code, optical density data, and sequencing tally files (relative abundance from 16S sequencing of defined communities) for Control points for design of taxonomic composition in synthetic human gut consortia. Files are organized by experiment with a readme file contained within the .zip file. "Setup" folders have information about expeirmental design, "rawData" folders have optical density and tallyfiles, "analysis" folders have scripts used to analyze data and generate models.

Data supporting the publication "Observation of Landau levels and chiral edge states in photonic crystals through pseudomagnetic fields induced by synthetic strain"

Data supporting the publication "Observation of Landau levels and chiral edge states in photonic crystals through pseudomagnetic fields induced by synthetic strain". Version 2: updated Figure 1c1

opencc-by-4.0Nov 2024View details →

Evaluating Text-to-Image Diffusion Models for Texturing Synthetic Data

Data accompanying our paper on: Evaluating Text-to-Image Diffusion Models for Texturing Synthetic Data   <a href="https://github.com/tlpss/diffusing-synthetic-data" target="_blank" rel="noopener">github repository</a> meshes.zip contains the 3D meshes used to generate the synthetic data for all three object categories real-datasets.zip contains the real-world image datasets gathered to evaluate the synthetic data

opencc-by-4.0Nov 2024View details →

DeepCanola: Phenotyping Brassica Pods Using Semi-Synthetic Data and Active Learning

Dataset accomapnying the publication: DeepCanola: Phenotyping Brassica Pods Using Semi-Synthetic Data and Active Learning by Van Vliet, Atkins et al. We provide model weights, training and vlidation datasets, as well as phenotype outputs. Each file/folder is outlined below: <ul> <li>deepcanola.pth - Model weights for the final Model 4, named DeepCanola</li> <li>generated_datasets - Datasets generated at each stage of the active learning process, datasets 1-4 <ul> <li>Each folder is an iteration of the active learning process, inside each folder are the generated images and associated annotations stored in the COCO format.</li> </ul> </li> <li>real_world_datasets - Real-world datasets used for either creation of the pod pools or validation. Datasets include: <ul> <li>br9 - Ordered and disordered dataset of images with generated pod length data of the ordered images stored in the `br9_gt_lengths.csv` file</li> <li>br11 - Ordered and disordered dataset of images only</li> <li>br17 - Ordered dataset with ground-truth of images with length annotations collected in ImageJ and stored in the `BR017 POD SCAN DATA.csv` file.</li> <li>misc - Dataset of miscellaneous images including Brassica napus from Rothamstead and brassica relatives</li> </ul> </li> <li>data_generation_pools - Pools used to generate semi-synthetic data at each step of the active learning process. Pools include: <ul> <li>background_pool - Created background images to be selected at random by the semi-synthetic data generation script</li> <li>pod_pools - Pools of pods used in the semi-synthetic data generation process. Pod pools include: <ul> <li>br9 - 673 pods with associated masks</li> <li>br9 and br17 - 673 + 332 pods with associated masks</li> </ul> </li> </ul> </li> <li>deepcanola_outputs - Phenotype data outputs generated by DeepCanola. Each output is stored as a .csv file of both length measurements of each pod (with _objects.csv suffix), and average length measurements per image (with _averages.csv suffix). Outputs include: <ul> <li>br9_ordered</li> <li>br9_disordered</li> <li>br17</li> </ul> </li> </ul>