Find research datasets worth reusing

Reference interval of optimal vitamin D level for an adult population of Bangladesh

<div> <div> <h3>Description of the data and file structure</h3> The study collected data from healthy fishermen in Bangladesh to determine the reference interval for vitamin D levels in this population. Additionally, data from an urban population were gathered to identify the parathyroid hormone (PTH) deflection point in relation to vitamin D levels <h4>Files and variables</h4> <h5>File: Urban_final.sav</h5> Description: This file contains data from an urban population aimed at identifying the parathyroid hormone (PTH) deflection point in relation to vitamin D levels. <h5>File: Fishermen_final.sav</h5> Description: This file contains data from healthy fishermen in Bangladesh, collected to determine the reference interval for vitamin D levels in this population. <h3>Code/software</h3> IBM SPSS v25 with Python plug-in software was used to analyse the data. Medcalc version-14 statistical software was used to calculate reference intervals. </div> </div>

Experimental and theoretical data generated on optimization of the wetting-drying characteristics of hydrophobic metal organic frameworks via crystallite size

Open access to experimental data generated by the project <a href="https://www.electro-intrusion.eu/en">Electro-Intrusion</a> (101017858, Horizon 2020, European Union) along with the research on the mechanical behaviour of hydrophobic porous materials to be used in intrusion-extrusion applications. Research pertaining to Task 2.1 (WP2). Underlying data for the publication Johnson, L. J. W. et al. Optimization of the wetting-drying characteristics of hydrophobic metal organic frameworks via crystallite size: The role of hydrogen bonding between intruded and bulk liquid. Journal of Colloids and Interface Science 2023, 645, 775-783. <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.jcis.2023.04.059" target="_blank" rel="noreferrer noopener">https://doi.org/10.1016/j.jcis.2023.04.059</a>. Data related to Figures 2, 4, 5 and S1 in the article.

Raw data for optimization and calibration of Micellar liquid chromatography as a sustainable tool to quantify three statins in oral solid dosage forms

A method based on micellar liquid chromatography has been developed to determine rosuvastatin, lovas- tatin and simvastatin in oral solid dosage forms. Samples were solved in mobile phase up to the target concentration, filtered and directly injected. The three statins were resolved in 30 min, using an aqueous solution of 0.10 M sodium dodecyl sulfate –7.0% 1-butanol, buffered at pH 3 with 0.01 M phosphate salt as mobile phase, running under isocratic mode at 1 mL/min through a C 18 column. Detection was at 240 nm. The effect of sodium dodecyl sulfate on elution strength was more important than that of the organic solvent. The procedure was successfully validated by the guidelines of the International Coun- cil for Harmonization in terms of: specificity, linearity ( r 2 > 0.990), calibration range (1.5 - 15 mg/L for rosuvastatin, 0.5–10 mg/L for lovastatin and simvastatin), limit of detection (0.4, 0.2 and 0.15 mg/L for ro- suvastatin, lovastatin and simvastatin, respectively), trueness (98.8–101.7%), precision ( < 2.7%), carry-over effect, robustness, and stability. Values were inside the acceptance criteria of the Methods, Method Veri- fication and Validation, Food and Drug Administration-Office of Regulatory Affairs, thus ensuring the re- liability of the results. The main feature was the low proportion of organic solvent used, thus making the procedure sustainable and green. Besides, it was easy-to-conduct and with high sample-throughput, and then useful for routine analysis in pharmaceutical quality control. Finally, it was applied to commercial pharmaceutical preparations.

Simulation Dataset: Collective anti-predator escape manoeuvres through optimal attack and avoidance strategies

This is a supplementary simulation dataset to reproduce Fig. 3C,D of the manuscript "Collective anti-predator escape manoeuvres through optimal attack and avoidance strategies" by Bartashevich et al. The zip folder contains the following 3 files in h5 format: front attack (out_Npred1_pred_angle0.0.h5), side attack (out_Npred1_pred_angle1.5707963267948966.h5), back attack (out_Npred1_pred_angle3.141592653589793.h5). Each file has the following "keys": KeysViewHDF5 ['circ_seg', 'end', 'endD', 'end_PosVel', 'fount', 'part', 'partD', 'pavas', 'pred', 'predD', 'start', 'start_fountain', 'start_pred', 'swarm', 'swarm_pred0', 'swarm_predD']. The key necessary to reproduce Fig. 3C,D of the aforementioned paper is "fount" (<HDF5 dataset "fount": shape (40, 1200, 100, 8), type "<f8">). Namely, "fount" data array consists of 40 simulation runs, 1200 time points, 100 agents, and 8 metrics. The metric with index "0" depicts the value of the Euclidean distance from the agent i to the simulated predator. The metric with index "1" depicts the value of the position angle (theta 1 in rad) of the agent i relative to the simulated predator. The metric with index "2" depicts the value of the flee angle (theta 2 in rad) of the agent i relative to the simulated predator. To estimate the start and the end of the fountain evasion, one can use the following script in Python: import numpy as np m = h5py.File(filename, "r") for key in m.keys():    print(key) fount_runs = m[key]["fount"] for j in range(40):    fnt_start[j]  =   np.where(fount_runs[j, 0:1200, 0:100,5]==1)[0][0]      fnt_end[j]   =   np.where(fount_runs[j, 0:1200, 0:100,5]==1)[0][-1]

Empirical Dataset: Collective anti-predator escape manoeuvres through optimal attack and avoidance strategies

<h3>Description of the data and file structure</h3> The files contain the source data for Fig. 1 and Fig. 3A,B of the manuscript "Collective anti-predator escape manoeuvres through optimal attack and avoidance strategies" by Bartashevich et al. <h4>Files and variables</h4> <h5>File: Fountain_Fish_coordinates.zip</h5> Description:  The zip file contains 30 folders, each containing information on one predator attack and respective prey evasion. Each folder is named according to the drone ID used for the filming (e.g., DJI _1, DJI _2, DJI _3) and the respective frame number (e.g., f930) from the video recording.  <h5>File naming</h5> Each folder contains JPG and CSV files.  The JPG files show the image from the footage at the corresponding frame indicated in the files' name (e.g., frame_001_im). There are 2 types of CSV files. Files with the name 'polygon.csv' contain coordinates (in pixels) of points (x, y) defining the polygon outlining the prey school at the particular frame as indicated in the files' name (e.g., frame001) and corresponding to the image in the JPG file with the same frame number. Files with the name 'sardines_and_marlin.csv' contain coordinates (in pixels) of points (x, y), defining the head (columns 1 and 2) and the dorsal fin (columns 3 and 4) of single sardine individuals (by rows), and of the respective attacking marlin: marlin's head (columns 5 and 6), marlin's dorsal fin (columns 7 and 8), and marlin's tip of the bill (columns 9 and 10). These coordinates correspond to the respective image with the same frame number.

Efficiency circularity assessment and optimization tool_CZ

Inputs and results for the WIDER UPTAKE H2020 project's case study of reusing treated wastewater for park irrigation in the Czech Republic.

opencc-by-4.0Nov 2024View details →

Comparison Results for Global Optimization Solvers Using a MIMO System With Two, Three and Four Active Layers as a Benchmark

Benchmark data for GPU-based interval optimization of a simulated MIMO system with two, three and four active layers. We compare popular optimization tools from C-XSC and GNU Octave to purely brute-force based techniques for the GPU. Execution times were measured in seconds.

opencc-zeroDec 2015View details →

Data from: Optimizing countershading camouflage

Because the sun and sky are above us, natural illumination is directional and the cues from shading reveal shape and depth. However, many animals are darker on their backs and, over 100 years ago, it was proposed that this phenomenon was camouflage: countering the cues to shape that directional illumination creates. However, does this camouflage work in practice? We predicted the optimal countershading for different lighting conditions and tested this possibility with correspondingly patterned model "caterpillars" predated by birds in the wild. Predation rates varied with coloration and lighting in exactly the manner predicted. Such subtlety in the effects of countershading vindicates conclusions from prior evidence demonstrating stronger countershading in animals in more brightly lit habitats.

opencc-zeroDec 2017View details →

Data from: Integrating vital rates explains optimal worker size for resource return by bumble bee workers

1. Size-number trade-offs in reproduction are commonly observed in nature. Bumble bee (Bombus spp.) colonies produce workers that vary considerably in size. This variation suggests that colonies face potential size-number trade-offs when producing workers. 2. Here, we estimated size-based vital rates of Bombus vosnesenskii workers using colonies reared from wild caught queens. We conducted a mark-recapture study to estimate worker survival as a function of body size. We also collected data on pollen and nectar loads as well as foraging trips using a radio-frequency identification system to estimate daily resource return as a function of body size. We integrated survival and daily resource return to estimate lifetime resource collection and offset these estimates by the size-based worker production costs. 3. We found size-based trade-offs among workers of different sizes. Smaller workers had higher survival, but larger workers returned with more resources per day. The largest workers made slightly fewer foraging trips per day. 4. Overall, larger workers made the greatest lifetime contribution to both nectar and pollen collection. However, once the benefits of larger workers are offset by their higher production costs, intermediate-sized workers were the optimal for net resource contribution according to our models. Many previous studies have found that larger workers outperformed smaller workers with foraging and in-nest tasks, yet these studies have not integrated multiple fitness components or worker production costs to quantify net resource contribution towards colony growth. 5. Accounting for tradeoffs between costs and performance changed our conclusions about optimal body size from being large to being near the observed average. Similar approaches of integrating multiple vital rates may resolve apparently suboptimal life histories in other taxa.

opencc-zeroOct 2019View details →

Data from: Optimization and characterization of PLGA nanoparticles loaded with Astaxanthin and evaluation of anti-photodamage effect in vitro

Astaxanthin is a xanthophyll carotenoid with high beneficial biological activities, such as antioxidant function and scavenging oxygen free radicals, but its application is limited because of poor water solubility and low bioavailability. Here, we prepared and optimized poly (lactic-co-glycolic acid) (PLGA) nanoparticles loaded with astaxanthin using the emulsion solvent evaporation technique and investigated the anti-photodamage effect in HaCaT cells. The four-factor three-stage Box-Behnken design was used to optimize the nanoparticle formulation. The experimental determination of the optimal nanoparticle size was 154.4 ± 0.35 nm, the zeta potential was 22.07 ± 0.93 mV, encapsulation efficiency was 96.42 ± 0.73%, and drug loading capacity was 7.19 ± 0.12%. The physicochemical properties of the optimized nanoparticles were characterized by dynamic light scattering, SEM, TEM, FTIR, XRD, DSC, and TGA. In vitro study exhibited the excellent cell viability and cellular uptake of optimized nanoparticle on HaCaT cells. The anti-photodamage studies (cytotoxicity assay, ROS content, and JC-1 assessment) demonstrated that the optimized nanoparticles were more effective and safer than pure astaxanthin in HaCaT cells. These results suggest that our PLGA-coated astaxanthin nanoparticles synthesis method was highly feasible, and can be used in cosmetics or the treatment of skin diseases.

opencc-zeroDec 2013View details →

Data from: RAD sequencing, genotyping error estimation and de novo assembly optimization for population genetic inference

Restriction site-associated DNA sequencing (RADseq) provides researchers with the ability to record genetic polymorphism across thousands of loci for non-model organisms, potentially revolutionising the field of molecular ecology. However, as with other genotyping methods, RADseq is prone to a number of sources of error that may have consequential effects for population genetic inferences, and these have received only limited attention in terms of the estimation and reporting of genotyping error rates. Here we use individual sample replicates, under the expectation of identical genotypes, to quantify genotyping error in the absence of a reference genome. We then use sample replicates to (1) optimize de novo assembly parameters within the program Stacks, by minimizing error and maximizing the retrieval of informative loci, and; (2) quantify error rates for loci, alleles and SNPs. As an empirical example we use a double digest RAD dataset of a non-model plant species, Berberis alpina, collected from high altitude mountains in Mexico.

opencc-by-4.0Jun 2021View details →

Data for the paper "Stellarator optimization for good magnetic surfaces at the same time as quasisymmetry"

Input and output files for computations in the publication "Stellarator optimization for good magnetic surfaces at the same time as quasisymmetry"

opencc-zeroJun 2021View details →

Time-Optimal Planning for Quadrotor Waypoint Flight

Quadrotors are amongst the most agile flying robots. However, planning time-optimal trajectories at the actuation limit through multiple waypoints remains an open problem. This is crucial for applications such as inspection, delivery, search and rescue, and drone racing. Early works used polynomial trajectory formulations, which do not exploit the full actuator potential due to their inherent smoothness. Recent works resorted to numerical optimization, but require waypoints to be allocated as costs or constraints at specific discrete times. However, this time-allocation is a priori unknown and renders previous works incapable of producing truly time-optimal trajectories. To generate truly time-optimal trajectories, we propose a solution to the time allocation problem while exploiting the full quadrotor's actuator potential. We achieve this by introducing a formulation of progress along the trajectory, which enables the simultaneous optimization of the time-allocation and the trajectory itself. We compare our method against related approaches and validate it in real-world flights in one of the world's largest motion-capture systems, where we outperform human expert drone pilots in a drone-racing task.

opencc-by-4.0Dec 2013View details →

FIG. 2 in Direct optimization, sensitivity analysis, and the evolution of the hymenopteran superfamilies

FIG. 2. (continued).

opencc-by-4.0Jul 2021View details →

Interface between Trapped-Ion Qubits and Traveling Photons with Close-to-Optimal Efficiency

Datasets for the publication "Interface between Trapped-Ion Qubits and Traveling Photons with Close-to-Optimal Efficiency", PRX Quantum (2021)

opencc-by-4.0Jul 2021View details →

Comparing and Combining Existing and Emerging Data Collection and Modeling Strategies in Support of Signal Control Optimization and Management (Project M2)

For decades, traffic signal management agencies have used signal timing optimization tools combined with fine-tuning of signal timing based on field observations in their updates of time-of-day signal timing plans.  These traditional signal optimization methods and tools use very limited amount of data and depend on default values in the signal timing optimization/simulation tools to estimate network performance under different signal optimization strategies. In recent years, new data collection technologies are emerging including high resolution controller data, more advanced detection technologies such as video image detection that are based on vehicle tracking and possible integration with microwave detectors, automatic-vehicle based identification technologies, third party crowdsourcing data, connected vehicles, and connected automated vehicles data.  The objective of the proposed study is to propose methods and algorithms to combine data collected from existing and emerging sources with enhanced models and optimization algorithms to optimize and manage signal operations. The results from applying the developed methods and algorithms will be compared with traditional signal timing and optimization methods currently used by transportation agencies.

opencc-by-4.0Jul 2021View details →

Dataset for the publication of "WRF model parameter calibration to improve the prediction of tropicalcyclones over the Bay of Bengal using Machine Learning-basedMultiobjective Optimization"

The dataset consists of the modified WRF model software, that can be extracted and used in any Linux system with preinstalled required software. The namelists_file.zip consists of the namelist.input files that are used for the default and calibration simulations with different driving data namely, FNL files at 1deg with two nested domains, ERA files at 1deg with two nested domains, ERA files at 0.25deg with a single domain, and the ERA files at 0.25deg with two nested domains.

opencc-by-4.0Aug 2021View details →

Aerostructural Topology Optimization using High Fidelity Modeling

The files included define shape and topology optimization problems with fluid-structure interaction (modelled with SU2) that were presented in: P. Gomes and R. Palacios, “Aerostructural Topology Optimization using High Fidelity Modeling,” in AeroBest 2021, July 2021.

opencc-zeroSep 2021View details →

Optimizing parameters for using the parallel auditory brainstem response (pABR) to quickly estimate hearing thresholds

Objectives: Timely assessments are critical to providing early intervention and better hearing and spoken language outcomes for children with hearing loss. To facilitate faster diagnostic hearing assessments in infants, the authors developed the parallel auditory brainstem response (pABR), which presents randomly timed trains of tone pips at five frequencies to each ear simultaneously. The pABR yields high-quality waveforms that are similar to the standard, single-frequency serial ABR but in a fraction of the recording time. While well-documented for standard ABRs, it is yet unknown how presentation rate and level interact to affect responses collected in parallel. Furthermore, the stimuli are yet to be calibrated to perceptual thresholds. Therefore, this study aimed to determine the optimal range of parameters for the pABR and to establish the normative stimulus level correction values for the ABR stimuli. Design: Two experiments were completed, each with a group of 20 adults (18 – 35 years old) with normal hearing thresholds (≤ 20 dB HL) from 250 to 8000 Hz. First, pABR electroencephalographic (EEG) responses were recorded for six stimulation rates and two intensities. The changes in component wave V amplitude and latency were analyzed, as well as the time required for all responses to reach a criterion signal-to-noise ratio of 0 dB. Second, behavioral thresholds were measured for pure tones and for the pABR stimuli at each rate to determine the correction factors that relate the stimulus level in dB peSPL to perceptual thresholds in dB nHL. Results: The pABR showed some adaptation with increased stimulation rate. A wide range of rates yielded robust responses in under 15 minutes, but 40 Hz was the optimal singular presentation rate. Extending the analysis window to include later components of the response offered further time-saving advantages for the temporally broader responses to low frequency tone pips. The perceptual thresholds to pABR stimuli changed subtly with rate, giving a relatively similar set of correction factors to convert the level of the pABR stimuli from dB peSPL to dB nHL. Conclusions: The optimal stimulation rate for the pABR is 40 Hz, but using multiple rates may prove useful. Perceptual thresholds that subtly change across rate allow for a testing paradigm that easily transitions between rates, which may be useful for quickly estimating thresholds for different configurations of hearing loss. These optimized parameters facilitate expediency and effectiveness of the pABR to estimate hearing thresholds in a clinical setting.