Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
65
datasets available to search
ShareScore release 0.9.0
Dataset results
65 results for “Design methods”
Galaxy Training Data for "Designing plasmids encoding predicted pathways by using the BASIC assembly method"
<p>This dataset provides the data needed for the Galaxy BASIC assembly workflow training tutorial (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>). This workflow provides a pathway to design plasmids encoding predicted metabolic pathways using the BASIC assembly method (<a href="https://doi.org/10.1021/sb500356d">https://doi.org/10.1021/sb500356d</a>). It generates scripts allowing the automatic construction of these plasmids using an Opentrons liquid handling robot. After downloading these scripts on a computer connected to an Opentrons (<a href="https://opentrons.com">https://opentrons.com</a>), the user can perform the automatic construction of the plasmids on the bench.</p> <p>The content of the dataset is as follows:</p> <ul> <li> <p>an SBML file modeling a heterologous pathway producing lycopene such as those produced by the Pathway Analysis Workflow (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>).</p> </li> <li> <p>a CSV file listing the parts to be used (linkers, backbone and promoters) in the constructions.</p> </li> <li> <p>two YAML files providing two examples of settings, i.e. providing the identifiers of the laboratory equipment and the parameters of the DNA robot.</p> </li> </ul>
Data from: AgMate: an optimal mating software versus other mate pair designing methods on long-term breeding of Pinus taeda L
<p>Breeding objectives aim to optimize two crucial but contrasting goals of maximizing genetic gain while managing genetic diversity. In advanced generations, this becomes a challenge in monoecious conifer tree species breeding programs because they suffer from inbreeding. Developing an algorithm that maximizes genetic gain while maintaining genetic diversity for monoecious species is imperative. While methods and algorithms for animal breeding are well-established, an efficient algorithm suited to monoecious species remains elusive. Towards this goal, we have adopted an evolutionary genetic algorithm, the Differential Evolution algorithm, to optimize mate pair designing in <em>Pinus taeda</em> (loblolly pine), a widely planted pine species in the southern USA. AgMate, an optimal mating for monoecious species software, is a multi-functional, completely automated optimization software. It utilizes genetic relationships and breeding values as input to create an optimal mating list. AgMate maximizes the genetic gain and minimizes the increase in average coancestry and inbreeding in the proposed progeny. AgMate was more effective in optimizing mating lists than positive assortative mating and random mating in short-term and long-term settings. AgMate mating list resulted in an average 93% genetic gain each cycle for ten cycles while simultaneously minimizing the increase in coancestry to 0.086. The framework and methods adapted for Pinus taeda are also relevant to the breeding of other monoecious species.</p>
Optimizing the design of a bioabsorbable metal stent using computer simulation methods: Supporting Data
<p>Data including UMATs and Abaqus input files related to the paper 'Optimizing the design of a bioabsorbable metal stent using computer simulation methods' <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.biomaterials.2013.07.010" target="_blank" rel="noreferrer noopener"><span>https://doi.org/10.1016/j.biomaterials.2013.07.010</span></a></p> <p> </p>
Fig. 5 in Veterinary monitoring of gastrointestinal parasites in European bison, Bison bonasus designated for translocation: Comparison of two coprological methods
Fig. 5. The relationship between the prevalence of Eimeria spp. oocysts in European bison feces measured by the Willis and modified McMaster techniques (each point represents an individual parasite species).
Fig. 1 in Veterinary monitoring of gastrointestinal parasites in European bison, Bison bonasus designated for translocation: Comparison of two coprological methods
Fig. 1. Probability of detection of Eimeria spp. oocysts with the modified McMaster technique based on the number of oocysts detected using the Willis technique.
Fig. 4 in Veterinary monitoring of gastrointestinal parasites in European bison, Bison bonasus designated for translocation: Comparison of two coprological methods
Fig. 4. The relationship between the prevalence of various taxa eggs/oocysts in European bison feces measured by the Willis and modified McMaster techniques (each point represents an individual taxon/genus, blue points stand for oocysts and red point for eggs). (For interpretation of the references to colour in this figure legend, the reader is referred to the Web version of this article.)
Fig. 3 in Veterinary monitoring of gastrointestinal parasites in European bison, Bison bonasus designated for translocation: Comparison of two coprological methods
Fig. 3. Probability of detection of Trichostrongylidae eggs with the modified McMaster technique based on the number of eggs detected using the Willis technique.
Fig. 2 in Veterinary monitoring of gastrointestinal parasites in European bison, Bison bonasus designated for translocation: Comparison of two coprological methods
Fig. 2. Probability of detection of Trichuris sp. eggs with the modified McMaster technique based on the number of eggs detected using the Willis technique.
To design, or not to design? Comparison of beetle ultraconserved element probe set utility based on phylogenetic distance, breadth, and method of probe design
<p>This repository contains Materials and designed UCE probe sets for the manuscript entitled "To design or not to design? Comparison of beetle ultraconserved element probe set utility based on phylogenetic distance, breadth, and method of probe design".</p>
Data from: AgMate: an optimal mating software versus other mate pair designing methods on long-term breeding of Pinus taeda L
Open the record for dataset details and reuse information.
Follow-up: Prospective compound design using the ‘SAR Matrix’ method and matrix-derived conditional probabilities of activity
<p>Details of the conditional probability calculations on exemplary the matrix provided in Figure 3 of the publication (see Gupta-Ostermann, Hirose, Odagami & Bajorath, Follow-up: Prospective compound design using the ‘SAR Matrix’ method and matrix-derived conditional probabilities of activity, F1000Research 2015, 4:75 , DOI: 10.12688/f1000research.6271.1 ) is provided in an excel sheet. </p> <p>Informative SARMs from the PRISM library are included. Due to proprietary issues the structural information of compounds is not included. Key and value fragments of SARMs are provided with an identifier.</p>
Data from: Exploring the multi-level impacts of a youth-led comprehensive sexuality education model in Madagascar using human-centered design methods
<p>Comprehensive sexuality education (CSE) is recognized as a critical tool for addressing sexuality and reproductive health challenges among adolescents. However, little is known about the broader impacts of CSE on populations beyond adolescents, such as schools, families, and communities. This study explores multi-level impacts of an innovative CSE program in Madagascar, which employs young adult CSE educators to teach a three-year curriculum in government middle schools across the country. The two-phased study embraced a participatory approach and qualitative Human-centered Design (HCD) methods. In phase 1, 90 school principals and administrators representing 45 schools participated in HCD workshops, which were held in six regional cities. Phase 2 took place one year later, which included 50 principals from partner schools, and focused on expanding and validating findings from phase 1. From the perspective of school principals and administrators, the results indicate several areas in which CSE programming is having spill-over effects, beyond direct adolescent student sexuality knowledge and behaviors. In the case of this youth-led model in Madagascar, the program has impacted the lives of students (e.g., increased academic motivation and confidence), their parents (e.g., strengthened family relationships and increased parental involvement in schools), their<br>schools (e.g., increased perceived value of schools and teacher effectiveness), their communities (e.g., increased community connections), and impacted broader structural issues (e.g., improved equity and access to resources such as menstrual pads). While not all impacts of the CSE program were perceived as positive (e.g., students start experimenting with sex and love), the findings uncovered opportunities for targeting investments and refining CSE programming to maximize positive impacts at family, school, and community levels.</p>
A method for designated target anti-interference tracking combining YOLOv5 and SiamRPN for UAV tracking and landing control
<p>The <strong>experiment data</strong> includes the experimental results of each part of Chapter 3 of the article. The <strong>simulation code</strong> is used to implement the simulation experiments in Chapter 3.</p>
Simulation Results of the Paper entitled "The Design of a Zone-Picking System with Cooperation Area between Neighboring Zones and Its Cooperation Methods" (submitted to International Journal of Production Research)
<p>Simulation Results of the Paper entitled “The Design of a Zone-Picking System with Cooperation Area between Neighboring Zones and Its Cooperation Methods” (submitted to International Journal of Production Research)</p>
R code and simulation output for Efford, M. G. & Boulanger, J. 2019. Fast evaluation of study designs for spatially explicit capture-recapture. Methods in Ecology and Evolution
<p>R code and simulation output for Efford, M. G. & Boulanger,<br> J. 2019. Fast evaluation of study designs for spatially explicit<br> capture-recapture. Methods in Ecology and Evolution In press.</p> <p>R code draws on previously published R packages 'secr' and 'secrdesign' available from CRAN:</p> <p><a href="https://CRAN.R-project.org/package=secr">https://CRAN.R-project.org/package=secr</a></p> <p><a href="https://CRAN.R-project.org/package=secrdesign">https://CRAN.R-project.org/package=secrdesign</a></p>
Raw data files for "A Simple, Transition Metal Catalyst-Free Method for the Design of Complex Organic Building Blocks Used to Construct Porous Metal-Organic Frameworks" manuscript
<p>Raw data files for a manuscript "A Simple, Transition Metal Catalyst-Free Method for the Design of Complex Organic Building Blocks Used to Construct Porous Metal-Organic Frameworks".</p> <p>All files are organized by instrumental methods, except Figure 1 in the manuscript and Figure S1, S52 in the SI, plots for which are reported as separate files. The file headers contain the necessary information such as column designations, units, etc.</p> <p> </p>
Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence
<p>Dataset for paper: Z. Qin, L. Wu, H. Sun, S. Huo, T. Ma, E. Lim, P.-Y. Chen, B. Marelli, M.J. Buehler, Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence, Extreme Mechanics Letters, Vol. 36, 100652, 2020. <a href="https://doi.org/10.1016/j.eml.2020.100652">https://doi.org/10.1016/j.eml.2020.100652</a>.</p> <p>Code: https://github.com/lamm-mit/MNNN/ </p>
Data for "Absolute binding free energy calculation based on the fragment molecular orbital method and its application in designing novel SHP-2 allosteric inhibitors"
<p>Data for publication "Absolute binding free energy calculation based on the fragment molecular orbital method and its application in designing novel SHP-2 allosteric inhibitors".All structures of complex and input files for FMO , FMO/SMD , FMO/PCM , and COSMO calculation are provided .</p>
Data from: Exploring the multi-level impacts of a youth-led comprehensive sexuality education model in Madagascar using human-centered design methods
Open the record for dataset details and reuse information.
Project Panormos Archaeological Survey: Method Design (survey-design)
<p>This forms part of the preliminary open data release for the Project Panormos archaeological survey.</p> <p>This "panormos/survey-design" repository contains data collection templates used to record the survey data (particularly the intensive part of the survey), both electronic versions based on XLSForm and XForm format (e.g. for access with ODK software, CSV versions of the XLS formats are also preserved for long-term readability), as well as paper forms (such as walker collection books). </p> <p><strong>Release 0.2.0</strong> includes templates from the 2015, 2017 and 2019 seasons. The design of the forms is released under a CC BY-SA license, which means that users may re-use, adapt and create derivative versions on condition that the source is attributed and that any modified versions are released under the same terms.</p> <p><strong>Release 0.1.0</strong> includes templates from the 2015 season. The design of the forms is released under a CC BY-SA license, which means that users may re-use, adapt and create derivative versions on condition that the source is attributed and that any modified versions are released under the same terms.</p> <p><strong>Releases below 1.0.0 represent preprint working datasets before final publication. </strong>Although every effort has been made to reduce errors and make the datasets available in a form that should be easy to navigate, the status of the data as a form of "beta" should be borne in mind.</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.