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1,940 results for “data sample”
Sample input data for beamModelTester
<p>Sample data for use with beamModelTester. the HDF5 file represents an observation from LOFAR station SE607 of CasA on 16th-17th March 2018. The CSV file represents a dreamBeam model of that observation. </p>
Detecting and removing sample contamination in phylogenomic data: An example and its implications for Cicadidae phylogeny (Insecta: Hemiptera)
<p class="MsoNormal">Contamination of a genetic sample with DNA from one or more non-target species is a continuing concern of molecular phylogenetic studies, both Sanger sequencing studies and Next-Generation Sequencing (NGS) studies. We developed an automated pipeline for identifying and excluding likely cross-contaminated loci based on detection of bimodal distributions of patristic distances across gene trees. When the contamination occurs between samples within a dataset, comparisons between a contaminated sample and its contaminant taxon will yield bimodal distributions with one peak close to zero patristic distance. Here we present an automated pipeline for identifying and excluding likely cross-contaminated loci based on detection of these bimodal distributions of patristic distances between taxa across gene trees. This new method does not rely on <em>a priori</em> knowledge of taxon relatedness nor does it determine the process(es) that caused the contamination. Exclusion of putatively contaminated loci from a dataset generated for the insect family Cicadidae showed that these sequences were affecting some topological patterns and branch supports, although the effects were sometimes subtle, with some contamination-influenced relationships exhibiting strong bootstrap support. Long tip branches and outlier values for one anchored phylogenomic pipeline statistic (AvgNHomologs) were correlated with the presence of contamination. While the AHE markers used here, which target hemipteroid taxa, proved effective in resolving deep and shallow level Cicadidae relationships in aggregate, individual markers contained inadequate phylogenetic signal, in part probably due to short length. The cleaned dataset, consisting of 90 genera representing 44 of 56 current Cicadidae tribes, and 429 loci, supported three of the four sampled Cicadidae subfamilies in concatenated-matrix (IQ-TREE ML) and multispecies coalescent-based (ASTRAL-III) species tree analyses, with the fourth subfamily weakly supported in the ML trees. No well-supported patterns from previous family-level Sanger sequencing studies of Cicadidae phylogeny were contradicted. One taxon (<em>Aragualna plenalinea</em>) did not fall with its current subfamily in the genetic tree, and this genus and its tribe Aragualnini is reclassified to Tibicininae following morphological re-examination. Only subtle differences were observed in trees after removal of loci for which divergent base frequencies were detected. Greater success may be achieved by increased taxon sampling and developing a probe set targeting a more recent common ancestor and longer loci. Searches for contamination are an essential step in phylogenomic analyses of all kinds and our pipeline is an effective solution.</p>
Sample based prevalence data complementing the European Union One Health 2021 Zoonoses Report - Norway
<p>This dataset contains monitoring data on zoonoses and zoonotic agents under the Directive 2003/99/EC. This Directive requires Member Sates (MSs) to collect, evaluate and report data on zoonoses and zoonotic agents. MSs can also report monitoring data and information on some other pathogenic microbiological agents in foodstuffs. Relevant EU legislation: Commission Regulation (EC) No 2073/2005,Commission Regulation (EC) No 1441/2007, Commission Regulation (EU) No 1086/2011, Commission Regulation (EU) No 209/2013, Commission Regulation(EU) No 217/2014.</p>
Current nest box designs may not be optimal for the larger forest dormice; pre-hibernation increase in body mass might lead to sampling bias in ecological data
<p>Biologists commonly use nest boxes to study small arboreal mammals, including forest dormouse (Dryomys nitedula). Hibernating dormouse species often experience pronounced seasonal variations in body mass, which might lead to sampling biases if it is not taken into account when designing nest boxes. In our study of forest dormouse, we noticed that the entrance hole of nest boxes had been gnawed on. We hypothesized that this behavior was exhibited by individual dormice who had higher body mass and, therefore, were unable to pass through the entrance holes. To test our hypothesis, we categorized individual dormice present inside nest boxes based on their body mass; then compared the seasonal body mass dynamics with the timing of the gnawing behavior. We also compared nest box occupancy by forest dormouse before and after the gnawing behavior. Interestingly, we found that the gnawing behavior was displayed exclusively when part of the dormouse population increased considerably in body mass, which supports our hypothesis. Additionally, nest box occupancy decreased significantly from 20% before to 4.6% after the gnawing behavior. We suggest that researchers use nest boxes with entrance holes larger than 4 cm in future studies of forest dormouse to prevent the possible exclusion of the conspecifics that have higher body mass before hibernation. This type of sampling bias can probably happen in studies of other species, such as fat dormouse, that similarly show pronounced seasonal variations in body mass. We recommend that biologists consider the seasonal body mass dynamics of the target species when designing nest boxes to minimize bias in ecological data and improve management actions.</p>
HSI maize sample data for transfer learning
<p>HSI maize sample data for transfer learning</p>
Data for samples #090 and #084
<p>Data for samples #090 and #084.</p>
Data for samples #090 and #084
<p>Data for samples #090 and #084</p>
Vizgen small data sample
<p>Little image crop with new VPT run</p>
data sample
<p>n.a.</p>
Negative Sampling Data
<p>Data from training graph models with different approaches to negative sampling.</p>
Supplementary material 1 from: Hubancheva A, Bozicevic V, Morinière J, Goerlitz HR (2023) DNA metabarcoding data from faecal samples of the lesser (Myotis blythii) and the greater (Myotis myotis) mouse-eared bats from Bulgaria. Metabarcoding and Metagenomics 7: e106844. https://doi.org/10.3897/mbmg.7.106844
Metabarcoding data from M. myotis and M. blythii from Bulgaria
animal soup sample data, ground truth dataset, and pre-trained models
<p>- sample data and ground truth files for animal soup tests</p> <p>- pre-trained models</p>
A Study Involving Collection of Samples and Data From Sarcoma Patients Receiving Immunotherapy
ClinicalTrials.gov study NCT06113315. IPD Sharing: YES. Countries: 1. Publications: 0.
Convenience Sample Data Collection for INVSENSOR00045
ClinicalTrials.gov study NCT04894669. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Data from: Deep mitochondrial origin outside the sampled alphaproteobacteria
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Data from: Multi-year genetic sampling indicates maternal gene flow via colony emigrations in the army ant Eciton burchellii parvispinum
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Data from: Interpreting ELISA analyses from wild animal samples: some recurrent issues and solutions
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Data from: How should genes and taxa be sampled for phylogenomic analyses with missing data? An empirical study in iguanian lizards
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Data from: Conserved genes, sampling error, and phylogenomic inference
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Microsatellite genotype data from seven loci for a phylogeographic/population genetic study of the South African endemic freshwater crab Potamonautes lividus sampled from eight localities in the KwaZulu-Natal and Eastern Cape provinces in South Africa
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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.