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127 results for “optimization methods”
A statistical method to optimize the chemical etching process of Zinc Oxide thin films
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SELECTION METHODS TO OPTIMIZE THE GAIN AND GENETIC DIVERSITY IN Pinus caribaea var. caribaea
The proposal of this work was to estimate the genetic variability in orchards of Pinus caribaea var. caribaea based on growth traits and to analyze the best selection method. This study was conducted in two areas of P. caribaea var. caribaea situated in Savannah biome. The first orchard was a randomized complete block design with 76 progenies and 4 controls (area 1), the second orchard, the lattice design was 10x10 with 99 progenies and one control (area 2), 28 and 27 years old, respectively. The software SELEGEN was used to estimate genetic parameters trough REML/BLUP method. Significant variation was observed between and with progeny all traits in area 2 and only between plants within plots for height in area 1. The highest estimates of genetic variation and heritability were obtained for area 1. Without the optimization of selection, the highest gain (4.8%) in the selection between and within with a selection intensity of 52%, for area 1. In area 2, the highest gain (2.86%) in individual selection. We conclude that there is low genetic variability in seedlings orchards of P. caribaea var. caribaea. However, area 1 presents higher genetic control than area 2, and should be better explored. For the next generations, it is recommended the infusion of new genetic material to proceed with a forest improvement program, since it was observed low variability and low gains in the selection of P. caribaea var. caribaea.
Data associated with "Adjoint methods for stellarator shape optimization and sensitivity analysis"
<p>All data produced for this dissertation and the associated post-processing scripts have been archived. </p>
Data from: The Shortlist Method for fast computation of the Earth Mover's Distance and finding optimal solutions to transportation problems
Finding solutions to the classical transportation problem is of great importance, since this optimization problem arises in many engineering and computer science applications. Especially the Earth Mover's Distance is used in a plethora of applications ranging from content-based image retrieval, shape matching, fingerprint recognition, object tracking and phishing web page detection to computing color differences in linguistics and biology. Our starting point is the well-known revised simplex algorithm, which iteratively improves a feasible solution to optimality. The Shortlist Method that we propose substantially reduces the number of candidates inspected for improving the solution, while at the same time balancing the number of pivots required. Tests on simulated benchmarks demonstrate a considerable reduction in computation time for the new method as compared to the usual revised simplex algorithm implemented with state-of-the-art initialization and pivot strategies. As a consequence, the Shortlist Method facilitates the computation of large scale transportation problems in viable time. In addition we describe a novel method for finding an initial feasible solution which we coin Modified Russell's Method.
Data from: Don't put all your eggs in one basket: a cost-effective and powerful method to optimize primer choice for rRNA environmental community analyses using the Fluidigm Access Array
With the increasing democratization of high-throughout sequencing (HTS) technologies, along with the concomitant increase in sequence yield per dollar, many researchers are exploring HTS for microbial community ecology. Many elements of experimental design can drastically affect the final observed community structure, notably the choice of primers for amplification prior to sequencing. Some targeted microbes can fail to amplify due to primer-targeted sequence divergence and be omitted from obtained sequences, leading to differences among primer pairs in the sequenced organisms even when targeting the same community. This potential source of taxonomic bias in HTS makes it prudent to investigate how primer choice will affect the sequenced community prior to investing in a costly community-wide sequencing effort. Here we use Fluidigm's micro-fluidic Access Arrays (IFC) followed by Illumina® MiSeq Nano sequencing on a culture-derived local mock community to demonstrate how this approach allows for a low-cost combinatorial investigation of primer pairs and experimental samples (up to 48 primer pairs and 48 samples) to determine the most effective primers that maximize obtained communities whilst minimizing taxonomic biases.
Data from: Optimizing methods for PCR-based analysis of predation
Molecular methods have become an important tool for studying feeding interactions under natural conditions. Despite their growing importance, many methodological aspects have not yet been evaluated but need to be considered to fully exploit the potential of this approach. Using feeding experiments with high alpine carabid beetles and lycosid spiders, we investigated how PCR annealing temperature affects prey DNA detection success and how post-PCR visualization methods differ in their sensitivity. Moreover, the replicability of prey DNA detection among individual PCR assays was tested using beetles and spiders that had digested their prey for extended times postfeeding. By screening all predators for three differently sized prey DNA fragments (range 116–612 bp), we found that only in the longest PCR product, a marked decrease in prey detection success occurred. Lowering maximum annealing temperatures by 4 °C resulted in significantly increased prey DNA detection rates in both predator taxa. Among the three post-PCR visualization methods, an eightfold difference in sensitivity was observed. Repeated screening of predators increased the total number of samples scoring positive, although the proportion of samples testing positive did not vary significantly between different PCRs. The present findings demonstrate that assay sensitivity, in combination with other methodological factors, plays a crucial role to obtain robust trophic interaction data. Future work employing molecular prey detection should thus consider and minimize the methodologically induced variation that would also allow for better cross-study comparisons.
OPTIMIZATION OF DIAPEUTICA METHODS AND X-RAY SURGERY IN THE TREATMENT OF COMPLICATED FORMS OF CELLOLSTONIS DISEASE
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OPTIMIZATION OF DIAGNOSTIC AND THERAPEUTIC METHODS FOR OBSTRUCTIVE BRONCHITIS IN CHILDREN WITH ALLERGIC DISEASES
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Data for "Quantum algorithm for the variational optimization of correlated electronic states with the linear method"
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Models, scripts, simulated data, and results from the article "Evaluation and comparison of methods for neuronal parameter optimization using the Neuroptimus software framework."
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Improving results from touch DNA evidence with optimized direct PCR methods
<p>Improved methods to generate high-quality DNA profiles from touch DNA samples are of considerable interest to forensic DNA laboratories. Direct polymerase chain reaction (PCR) amplification, a sample processing method in which samples are added directly to amplification reactions without prior purification or quantification, has been identified as a method that may improve the generation of genotyping data from such samples; however, laboratories in the United States are required to use standard DNA processing methods to process low-level sample types. In part, this is due to FBI Quality Assurance Standard (QAS) 9.4, which requires all unknown forensic samples to undergo human-specific DNA quantification prior to amplification of short tandem repeat (STR) loci. The goal of this 3-year study was to generate data in support of a reevaluation of QAS 9.4.</p> <p>In two phases, this study examined the following: direct PCR-compatible collection methods in conjunction with mock touch DNA evidence samples on a variety of substrates (Phase I), direct PCR of touch DNA samples that were stored at room temperature for up to six months after collection with the optimum methods identified in Phase I, and direct PCR of touch DNA samples that were re-sampled after initial processing. Nine collection methods and various substrates were examined in Phase I, and three time points were examined in Phase II. In both phases, two processing methods were used: standard processing samples were extracted, quantified, and amplified in accordance with the QAS; and direct PCR samples were directly amplified. All STR profiles were assessed for overall profile quality.</p> <p>This project was supported by Award No. 2019-DU-BX-0009, awarded by the National Institute of Justice, Office of Justice Programs, U.S. Department of Justice. The opinions, findings, and conclusions or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect those of the Department of Justice.</p>
Enhancing Accessibility of Web-based SVG Buttons: An Optimization Method and Best Practices
<p>Here is the relevant dataset and open-source code for the article titled "Enhancing Accessibility of Web-based SVG Buttons: An Optimization Method and Best Practices"</p> <p><strong>Introduction</strong></p> <p>In this paper, we propose a novel approach, named SAM, to classify SVG buttons, create feature templates within these buttons, and then automatically fill their desired alternative texts.</p>
Optimal Method for Mydriasis in Cataract Surgery
ClinicalTrials.gov study NCT02909140. IPD Sharing: NO. Countries: 1. Publications: 0.
Data from: Quantification of the activity of detoxifying enzymes in terrestrial invertebrates: optimization, evaluation and use of in vitro and ex vivo methods
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Data from: Optimizing methods for PCR-based analysis of predation
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Data from: The Shortlist Method for fast computation of the Earth Mover's Distance and finding optimal solutions to transportation problems
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Improving results from touch DNA evidence with optimized direct PCR methods
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Data from: Comparison of capture and storage methods for aqueous macrobial eDNA using an optimized extraction protocol: advantage of enclosed filter
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Data from: Don’t put all your eggs in one basket: a cost-effective and powerful method to optimize primer choice for rRNA environmental community analyses using the Fluidigm Access Array
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Data from: A fast and efficient single-stranded genomic library preparation method optimized for ancient DNA
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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.