Find research datasets worth reusing

opencc-by-4.0Mar 2022View details →

GPT-J Code Clone Detection

This is the dataset of GPT-J code clone detection.   'data/' folder contains the data to replicate our study.   'code/' folder contains the code to replicate our study. `rebuttal/` folder contains the results of the rebuttal. Each folder has its own README, please check the details there.

openother-ncMay 2022View details →

annotation data for art painting detection and identification

Annotated art painting detection and identification image data used in the following paper: Hong, Y., Kim, J. Art painting detection and identification based on deep learning and image local features. Multimed Tools Appl 78, 6513–6528 (2019). https://doi.org/10.1007/s11042-018-6387-5   Label format used in the dataset please refer to yolov2  <pre><code><object-class> <x> <y> <width> <height></code></pre> https://pjreddie.com/darknet/yolo/ https://arxiv.org/abs/1612.08242

Calculations for: Detector dog work assessing probability of detection for Yellow crazy ant

The use of detector dogs within environmental programs has increased greatly over the past few decades, yet their search methods are not standardised, and variation in dog performance remains not well quantified or understood. There is much science to be done to improve the general utility of detector dogs, especially for invertebrate surveys. We report research for detector dog work conducted as part of yellow crazy ant eradication. One dog was first used to quantify probability of detection (POD) within a strictly controlled trial. We then investigated the search patterns of two dogs when worked through sites using different transect spacings. Specifically we quantified their presence within set distances of all locations in each assessment area, as well as the time they took to assess each area. In a GIS we then calculated the relative percentage of the entire search area within six distance categories, and combined this information with the POD values to obtain a site-level POD. The calculated relationship between distance and POD was extremely strong (R2 = 0.998), with POD being 86% at 2 m and 28% at 25 m. For site-level assessments conducted by the two dogs, both dogs achieved highest site-level POD when operated on the lowest transect spacing (15 m), with POD decreasing significantly as transect spacing increased. Both dogs had strong linear relationships between area assessed and time, with the area assessed being greater when the transects had greater spacing. The working style of the two dogs also resulted in significantly different assessment outcomes. In one hour one dog could assess approximately 9.2 ha with transects spaced 20m apart, and 6.8ha with transects spaced 15 m apart, whereas the second dog could only assess approximately 6.9 ha with transects spaced 20 m apart, and 4.9 ha with transects spaced 15 m apart. Our study provides insight into the ability of dogs to detect yellow crazy ants, and sets the basis for further science and protocol development for ant detection. With the lessons learnt from this work we then detail protocols for using detector dogs for ant eradication assessments.

Data from: Early detection of cerebrovascular pathology and protective antiviral immunity by MRI

Central nervous system (CNS) infections are a major cause of human morbidity and mortality worldwide. Even patients that survive CNS infections can have lasting neurological dysfunction resulting from immune and pathogen induced pathology. Developing approaches to noninvasively track pathology and immunity in the infected CNS is crucial for patient management and development of new therapeutics. Here, we develop novel MRI-based approaches to monitor virus-specific CD8+ T cells and their relationship to cerebrovascular pathology in the living brain. We studied a relevant murine model in which a neurotropic virus (vesicular stomatitis virus) was introduced intranasally and then entered the brain via olfactory sensory neurons – a route exploited by many pathogens in humans. Using T2*-weighted high-resolution MRI, we identified small cerebral microbleeds as the earliest form of pathology associated with viral entry into the brain. Mechanistically, these microbleeds occurred in the absence of peripheral immune cells and were associated with infection of vascular endothelial cells. We monitored the adaptive response to this infection by developing methods to iron label and track individual virus specific CD8+ T cells by MRI. Transferred antiviral T cells were detected in the brain within a day of infection and were able to reduce cerebral microbleeds. These data demonstrate the utility of MRI in detecting the earliest pathological events in the virally infected CNS as well as the therapeutic potential of antiviral T cells in mitigating this pathology.

Koala greater glider detection histories: Richmond Range NP

Multi-year investigations of population dynamics are fundamental to threatened species conservation. We used multi-season occupancy based on spotlight surveys to investigate dynamic occupancy of the koala and the greater glider over an 8-year period that encompassed a severe drought in year 6. We combined our occupancy estimates with literature estimates of density to estimate the population sizes of these species within the focal conservation reserve. Both species showed substantial yearly variation in the probability of detection (koala: 0.13–0.24; greater glider: 0.12–0.36). Detection of the koala did not follow any obvious pattern. Low detection of the greater glider coincided with the drought and two subsequent years. We suggest the low detection reflected a decline in abundance. The probability of occupancy of the koala was estimated to be 0.88 (95%CI: 0.75–1.0) in year 8. Autonomous recording units were also used in year 8, enabling an independent occupancy estimate of 0.80 (0.64–0.90). We found no evidence of a drought-induced decline in the koala. Habitat variables had a weak influence on koala occupancy probabilities. The probability of occupancy of the greater glider changed little over time, from 0.52 (95%CI: 0.24–0.81) to 0.63 (0.42–0.85) in year 8. Modelling suggested that the probability of colonisation was positively influenced by the percentage cover of rainforest. Increased cover of these non-browse trees may reflect thermal buffering, site productivity, or soil moisture. We estimate that our study reserve is likely to contain >900 adult koalas and >2400 adult greater gliders. These are among some of the first reserve-wide estimates for these species. Our study reserve can play an important role in the conservation of both species.

Data from: Detecting seminal research contributions to the development of ethnobotany by reference publication year spectroscopy (RPYS)

This study aims to assess the growth in overall publication output in ethnobotany as well as provide a systematic examination of the history of ethnobotanical publications using reference publication year spectroscopy (RPYS). The study is based on 5201 papers published between 1974 and 2019 covering 290006 non-distinct cited references (CRs), indexed in Science Citation Index-Expanded (SCI-Expanded) of Web of Science (WoS). The regression analysis indicated a compound annual growth rate of approximately 11% globally in ethnobotanical publications and the volume of publications doubles every approximately 6 years. The reference publication period was divided into four sub-periods in which a total of 31 peaks are clearly identifiable, including five peaks from the first period (earliest to 1800), ten from the second (1801–1900), nine from the third (1901–1950) and seven from the last period (1951–2000). A total of 44 publications were found to have been especially influential and landmark. Out of them, 31 (70%) were books and 11 (25%) were articles. Out of the 11 articles, 5 (45%) were published in the same journal (Economic Botany). The first period had the lowest number of publications (5), including classic books like the Spanish translation of Dioscorides' Materia Medica and Carolus Linnaeus' Systema naturæ. Interestingly, about 30% of the studies that laid the foundation of ethnobotany and are discussed in this paper come from South Africa, pointing to the contribution of the African Continent to the foundation of the field of ethnobotany.

opencc-zeroJun 2022View details →

Nasopharyngeal swabs vs. saliva sampling for SARS-CoV-2 detection: A cross-sectional survey of acceptability for caregivers and children after experiencing both methods

Background: Saliva sampling is a promising alternative to nasopharyngeal swabs for SARS-CoV-2 testing, but acceptability data is lacking. We characterize the acceptability of saliva sampling and nasopharyngeal swabs for primary decision makers and their children after experiencing both testing modalities. Results: 48 participants and 48 primary decision makers completed the survey. Nasopharyngeal swab acceptability differed between scenarios, ranging 79% [95%CI: 66, 88] to 100% [95%CI: 95, 100]); saliva sampling acceptability was similar across scenarios, ranging 92% [95%CI: 82, 97]) to 98% [95%CI: 89, 99]. 58% of youth described significant pain with nasopharyngeal swabbing, versus none with saliva sampling. 90% of children prefer saliva sampling. 66% of primary decision makers would prefer nasopharyngeal swabbing if it were 10% more sensitive. Conclusion: Though youth prefer saliva sampling over nasopharyngeal swabs, primary decision makers present for testing remain highly accepting of both. Acceptance of nasopharyngeal swabs, however, varies with the testing indication and is influenced by perceived test accuracy. Understanding factors that influence sampling acceptance will inform more successful testing strategies.

opennotspecifiedJul 2016View details →

Distribution. SW Cuba, in Ciénaga de Zapata, Matanzas Province, but now possibly extinct, as it has not been detected since 1978. in Echimyidae

Distribution. SW Cuba, in Ciénaga de Zapata, Matanzas Province, but now possibly extinct, as it has not been detected since 1978.

Dataset: Gauze detection and segmentation in minimally invasive surgery video using convolutional neural networks

Dataset of the Gauze detection and segmentation in minimally invasive surgery video using convolutional neural networks article. Further information is available in the README file.

opencc-by-4.0Apr 2022View details →

Data for for Detecting cell-of-origin and cancer-specific methylation features of cell-free DNA from Nanopore sequencing

Datasets accompanying the paper https://doi.org/10.1101/2021.10.18.464684

Terahertz optoacoustic detection of aqueous salt solutions

We calculate time-domain THz-OA signal intensities of NaCl solutions with different concentration (0.5, 0.75, 1, 1.5, 2, 3 mol/L).

Dataset used in Can process mining help in anomaly-based intrusion detection?

This is the dataset used in the paper Can process mining help in anomaly-based intrusion detection?

The domain structure of keratin 2 and the mutation detected in the present patient.

The location of the mutation in this patient is indicated by the black arrow.

opencc-zeroJun 2022View details →

A synchronous spectrofluorometric technique for simultaneous detection of alfuzosin and tadalafil: Applied to tablets and spiked biological samples

A facile, accurate, eco-friendly, and sensitive spectrofluorometric method was evolved to assay alfuzosin hydrochloride (AFH) and tadalafil (TDF) in different matrices. Such a co-administered combination is clinically used for the treatment of lower urinary tract symptoms. Both compounds are characterized by their native fluorescence spectra upon excitation at specific wavelengths. Their characteristic fluorescence spectra were utilized for sensitive assay of the studied analytes in tablets and human biological samples. The assay principle is based on first-order synchronous spectrofluorometric scan using Dλ = 60 nm in which AFH peaks were recorded at 366 nm. Meanwhile, TDF measurements were recorded at 293 nm in the same scans without overlap with AFH spectra. Recent analytical chemistry trends were implemented to lessen occupational and environmental perils, utilizing ethanol as a diluting solvent for method optimization and application. Linearity ranges were 5.0–90.0 and 10.0–100.0 ng. mL⁻1 for AFH and TDF, respectively in their raw materials with average % recoveries of 100.44 % and 99.73 % in raw materials, 100.15 % and 100.20 % in spiked plasma, and 97.14 % and 99.99 % in spiked urine. The proposed method was successfully applied to Prostetrol® and Starkoprex® commercial tablets with no interference with common tablet additives.

Minimizing Search Areas for Leak Detection in Water Distribution Networks - Code

This database includes the code used to analyze and produce the results for the following research article: Minimizing Search Areas for Leak Detection in Water Distribution Networks by B. Snider, G. Lewis, A.S. Chen, L. Vamvakeridou-Lyroudia, S. Djordjevic, D.A. Savic. Journal of Hydroinformatics. (Accepted - awaiting publication).

opencc-zeroDec 2015View details →

Data from: A submersible, off-axis holographic microscope for detection of microbial motility and morphology in aqueous and icy environments

Sea ice is an analog environment for several of astrobiology's near-term targets: Mars, Europa, Enceladus, and perhaps other Jovian or Saturnian moons. Microorganisms, both eukaryotic and prokaryotic, remain active within brine channels inside the ice, making it unnecessary to penetrate through to liquid water below in order to detect life. We have developed a submersible digital holographic microscope (DHM) that is capable of resolving individual bacterial cells, and demonstrated its utility for immediately imaging samples taken directly from sea ice at several locations near Nuuk, Greenland. In all samples, the appearance and motility of eukaryotes were conclusive signs of life. The appearance of prokaryotic cells alone was not sufficient to confirm life, but when prokaryotic motility occurred, it was rapid and conclusive. Warming the samples to above-freezing temperatures or supplementing with serine increased the number of motile cells and the speed of motility; supplementing with serine also stimulated chemotaxis. These results show that DHM is a useful technique for detection of active organisms in extreme environments, and that motility may be used as a biosignature in the liquid brines that persist in ice. These findings have important implications for the design of missions to icy environments and suggest ways in which DHM imaging may be integrated with chemical life-detection suites in order to create more conclusive life detection packages.

Raw images, annotations, and vvipr code archive to support 'Evaluating thermal and color sensors for automating detection of penguins and pinnipeds in images collected with an unoccupied aerial system''

Images, annotations, and code archived here were used in the paper "Evaluating a machine learning approach to detect penguins and pinnipeds in thermal and color images collected with an unoccupied aerial system" submitted for publication in Drones. The files contain raw thermal and color images of aggregations of gentoo (Pygoscelis papua) and chinstrap  (P. antarcticus) penguins and Antarctic fur seals (Arctocephalus gazella). All images were collected with the Flir DuoPro R camera (Teledyne FLIR LLC, Wilsonville, OR, U.S.A.), carried into flight under an APH-28 hexacopter (Aerial Imaging Solutions, LLC, Old Lyme, CT, U.S.A.) at Cape Shirreff, Livingston Island, Antarctica (60.79 °W, 62.46 °S), during the austral summer of 2019-20. All aerial surveys occurred under the Marine Mammal Protection Act Permit No. 20599 granted by the Office of Protected Resources/National Marine Fisheries Service, the Antarctic Conservation Act Permit No. 2017-012, NMFS-SWFSC Institutional Animal Care and Use Committee Permit No. SWPI 2014-03R, and all domestic and international UAS flight regulations. The annotations of the images were conducted using VIAME desktop software (v 0.16.1 or later;<a href="https://github.com/VIAME/VIAME">https://github.com/VIAME</a>) or the online using the DIVE interface (https://viame.kitware.com/). Model results were assessed with the vvipr code (v.0.3.2), archived here and available online (https://github.com/us-amlr/vvipr/releases/tag/v0.3.2).

opencc-zeroDec 2013View details →

Data from: Phylogenetic signal detection from an ancient rapid radiation: effects of noise reduction, long-branch attraction, and model selection in crown clade Apocynaceae

Crown clade Apocynaceae comprise seven primary lineages of lianas, shrubs, and herbs with a diversity of pollen aggregation morphologies including monads, tetrads, and pollinia, making them an ideal group for investigating the evolution and function of pollen packaging. Traditional molecular systematic approaches utilizing small amounts of sequence data have failed to resolve relationships along the spine of the crown clade, a likely ancient rapid radiation. The previous best estimate of the phylogeny was a five-way polytomy, leaving ambiguous the homology of aggregated pollen in two major lineages, the Periplocoideae, which possess pollen tetrads, and the milkweeds (Secamonoideae plus Asclepiadoideae), which possess pollinia. To assess whether greatly increased character sampling would resolve these relationships, a plastome sequence data matrix was assembled for 13 taxa of Apocynaceae, including nine newly generated complete plastomes, one partial new plastome, and three previously reported plastomes, collectively representing all primary crown clade lineages and outgroups. The effects of phylogenetic noise, long-branch attraction, and model selection (linked versus unlinked branch lengths among data partitions) were evaluated in a hypothesis-testing framework based on Shimodaira–Hasegawa tests. Discrimination among alternative crown clade resolutions was affected by all three factors. Exclusion of the noisiest alignment positions and topologies influenced by long-branch attraction resulted in a trichotomy along the spine of the crown clade consisting of Rhabdadenia + the Asian clade, Baisseeae + milkweeds, and Periplocoideae + the New World clade. Parsimony reconstruction on all optimal topologies after noise exclusion unambiguously supports parallel evolution of aggregated pollen in Periplocoideae (tetrads) and milkweeds (pollinia). Our phylogenomic approach has greatly advanced the resolution of one of the most perplexing radiations in Apocynaceae, providing the basis for study of convergent floral morphologies and their adaptive value.

Data for "Crustal Structure Constraints From the Detection of the SsPp Phase on Mars"

This file contains the event data for eight marsquakes used in the paper entilted "Crustal Structure Constraints From the Detection of the SsPp Phase on Mars" for publication in Earth and Space Science.