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120 results for “Commonality analysis”
Isotopic analysis reveals landscape patterns in the diet of a subsidized predator, the common raven
<p>1. Anthropogenic subsidies to native predators can have cascading effects on sensitive prey populations, but the spatial mechanisms behind these effects are often unknown.</p> <p>2. We used a stable isotope mixing model to reconstruct spatially naïve assimilated diets of common raven (Corvus corax) chicks and then used regression analysis to investigate landscape patterns in assimilated chick diet, with particular respect to the eggs and chicks of greater sage-grouse (Centrocercus urophasianus).</p> <p>3. Assimilated raven diets were primarily composed of mammal carrion, followed by anthropogenic food and sage-grouse eggs and chicks.</p> <p>4. Raven diets showed landscape gradients, whereby raven chicks in nests near active greater sage-grouse breeding leks consumed a higher proportion of sage-grouse eggs, sage-grouse chicks, and insects in their diet and less mammal carrion. A majority of raven nests on anthropogenic nesting structures (78.7%) were within 5 km of the nearest sage-grouse lek. Ravens nesting in high-probability greater sage-grouse nesting habitat consumed more insects and plants and less mammal carrion.</p> <p>5. In landscapes devoid of natural raven nesting substrates, such as our study area, anthropogenic nesting substrates can 'anchor' breeding ravens nearer to greater sage-grouse leks, with concomitant increases in raven predation on greater sage-grouse nests. Curtailment of anthropogenic nesting substrates within 5 km of a sage-grouse lek may have a disproportionately positive impact on sage-grouse populations. More generally, these findings highlight that the spatial arrangement of anthropogenic subsidies can result in indirect interactions between humans and predators with direct implications for predators and prey.</p>
Complications of biliary stenting versus T-tube insertion after common bile duct exploration: A systematic review and meta-analysis
<p><strong>Complications of biliary stenting versus T-tube insertion after common bile duct exploration: A systematic review and meta-analysis</strong></p>
FIGURE. DnaSP DNA polymorphism analysis - Nucleotide variability (Pi) comparison between Strobilanthes lupulina and S. glandulata. The window length and step size were set to 600bp and 200bp respectively. The most varying regions and the commonly used barcoding regions are listed against the base-pair differences found. in Strobilanthes glandulata (Acanthaceae), a new species from Sri Lanka based on the morphological and molecular evidences
FIGURE. DnaSP DNA polymorphism analysis - Nucleotide variability (Pi) comparison between Strobilanthes lupulina and S. glandulata. The window length and step size were set to 600bp and 200bp respectively. The most varying regions and the commonly used barcoding regions are listed against the base-pair differences found.
Source data for "Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics"
<p>Source data of "Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics".</p> <p>For reproduction of main and supplementary figures.</p> <p>MS raw files, spectral libraries, and MS data search results are stored in iProX with identifier IPX0004576001.</p> <p> </p>
FIGURE 6. Principal component analysis of the nine call measurements for various species selections. A: all small Anthus species except A. cervinus; B: two types of calls of A. r. rubescens and A. [r.] japonicus. C: only common-type calls of A. r. rubescens and A. [r.] japonicus; D: A. petrosus and different A. spinoletta subspecies; E: A. petrosus and A. s. spinoletta. in --Molecular--and--acoustic--evidence--support--the--species--status--of--Anthus rubescens rubescens and--Anthus [rubescens] japonicus--(Passeriformes:--Motacillidae)
FIGURE 6. Principal component analysis of the nine call measurements for various species selections. A: all small Anthus species except A. cervinus; B: two types of calls of A. r. rubescens and A. [r.] japonicus. C: only common-type calls of A. r. rubescens and A. [r.] japonicus; D: A. petrosus and different A. spinoletta subspecies; E: A. petrosus and A. s. spinoletta.
Retrospective Analysis of Balloon Expandable Covered Stenting in the Common Femoral Artery
ClinicalTrials.gov study NCT05220540. IPD Sharing: NO. Countries: 1. Publications: 11.
Isotopic analysis reveals landscape patterns in the diet of a subsidized predator, the common raven
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Data from: The relationship between blood parasites and ornamentation depends on the level of analysis in the common yellowthroat
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Data from: Population genetic analysis of Chadian Guinea worms reveals that human and non-human hosts share common parasite populations
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Data from: Genotypic diversity mitigates negative effects of density on plant performance: a field experiment and life-cycle analysis of common evening primrose Oenothera biennis
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Data from: A critical analysis of the potential for EU Common Agricultural Policy measures to support wild pollinators on farmland
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Data from: De novo transcriptome analysis of the common New Zealand stick insect Clitarchus hookeri (Phasmatodea) reveals genes involved in olfaction, digestion and sexual reproduction
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Data from: A comparative analysis of common methods to identify waterbird hotspots
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Data from: Relative accuracy of three common methods of parentage analysis in natural populations
Parentage studies and family reconstructions have become increasingly popular for investigating a range of evolutionary, ecological and behavioral processes in natural populations. However, a number of different assignment methods have emerged in common use, and the accuracy of each may differ in relation to the number of loci examined, allelic diversity, incomplete sampling of all candidate parents, and the presence of genotyping errors. Here we examine how these factors affect the accuracy of three popular parentage inference methods (COLONY, FaMoz and an exclusion-Bayes' theorem approach by Christie et al. (2010a)) to resolve true parent-offspring pairs using simulated data. Our findings demonstrate that accuracy increases with the number and diversity of loci. These were clearly the most important factors in obtaining accurate assignments explaining 75-90% of variance in overall accuracy across 60 simulated scenarios. Furthermore, the proportion of candidate parents sampled had a small but significant impact on the susceptibility of each method to either false positive or false negative assignments. Within the range of values simulated, COLONY outperformed FaMoz, which outperformed the exclusion-Bayes' theorem method. However, with 20 or more highly polymorphic loci, all methods could be applied with confidence. Our results show that for parentage inference in natural populations, careful consideration of the number and quality of markers will increase the accuracy of assignments and mitigate the effects of incomplete sampling of parental populations.
Data from: Use of anisotropy, 3D segmented atlas, and computational analysis to identify gray matter subcortical lesions common to concussive injury from different sites on the cortex
Traumatic brain injury (TBI) can occur anywhere along the cortical mantel. While the cortical contusions may be random and disparate in their locations, the clinical outcomes are often similar and difficult to explain. Thus a question that arises is, do concussions at different sites on the cortex affect similar subcortical brain regions? To address this question we used a fluid percussion model to concuss the right caudal or rostral cortices in rats. Five days later, diffusion tensor MRI data were acquired for indices of anisotropy (IA) for use in a novel method of analysis to detect changes in gray matter microarchitecture. IA values from over 20,000 voxels were registered into a 3D segmented, annotated rat atlas covering 150 brain areas. Comparisons between left and right hemispheres revealed a small population of subcortical sites with altered IA values. Rostral and caudal concussions were of striking similarity in the impacted subcortical locations, particularly the central nucleus of the amygdala, laterodorsal thalamus, and hippocampal complex. Subsequent immunohistochemical analysis of these sites showed significant neuroinflammation. This study presents three significant findings that advance our understanding and evaluation of TBI: 1) the introduction of a new method to identify highly localized disturbances in discrete gray matter, subcortical brain nuclei without postmortem histology, 2) the use of this method to demonstrate that separate injuries to the rostral and caudal cortex produce the same subcortical, disturbances, and 3) the central nucleus of the amygdala, critical in the regulation of emotion, is vulnerable to concussion.
Thermodynamic analysis of amyloid fibril structures reveals a common framework for stability in amyloid polymorphs
<p>Supplementary data, input files and R scripts, to reproduce figures in publication.</p>
Genetic analysis of marsh spot resistance in cranberry common bean (Phaseolus vulgaris L.)
<p>Appendix Table 7,8,15</p>
Dataset for the analysis in "Purifying selection on deleterious variants affected by the combination of subgenomes and gene expression in common wheat"
<p>Multiple alignment files including outgroups used for the evolutionary genomics conducted in the research paper, Purifying selection on deleterious variants affected by the combination of subgenomes and gene expression in common wheat. The compressed file size is 164.6 MB and will be 2.98 GB after decompression.</p>
Figure 3 from: Colihueque N, Gantz A, Rau JR, Parraguez M (2015) Genetic divergence analysis of the Common Barn Owl Tyto alba (Scopoli, 1769) and the Short-eared Owl Asio flammeus (Pontoppidan, 1763) from southern Chile using COI sequence. ZooKeys 534: 135-146. https://doi.org/10.3897/zookeys.534.5953
Figure 3 - Unrooted haplotype network of COI gene sequence, based on a median-joining network for the Common Barn Owl and the Short-eared Owl. The area of each circle is proportional to the number of individuals containing the haplotype. Open circles indicate mutational events and numbers refer to the variable nucleotide positions. A Common Barn Owl; Solid black: Chile/South America; white with cross lines: Argentina/South America; white with forward diagonal lines: USA/ North America; white with horizontal lines: El Salvador/ Central America; white with vertical lines: Canada/ North America; white with backward diagonal lines: Sweden/ northern Europe; white with backward diagonal cross lines: Australia/ Australasia. B Short-eared Owl; Solid black: Chile/South America; white with cross lines: Argentina/South America; white with forward diagonal lines: USA/ North America; white with horizontal lines: Canada/ North America; white with backward diagonal lines: Sweden/ northern Europe; white with horizontal lines: Russia/ northern Asia; white with cross diagonal lines: Norway/ northern Europe.
Figure 2 from: Colihueque N, Gantz A, Rau JR, Parraguez M (2015) Genetic divergence analysis of the Common Barn Owl Tyto alba (Scopoli, 1769) and the Short-eared Owl Asio flammeus (Pontoppidan, 1763) from southern Chile using COI sequence. ZooKeys 534: 135-146. https://doi.org/10.3897/zookeys.534.5953
Figure 2 - Haplotype designation, variable nucleotide positions of COI gene sequence analysis, with the haplotype frequency observed in each locality. A Haplotypes of Common Barn Owls (n = 21) B haplotypes of Short-eared Owl (n = 10). Number refers to positions identified in the alignment. For all haplotypes, variable nucleotides are indicated while identity is indicated by slashes.
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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.