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573 results for “Structure analysis”
Genomic analysis of geographical structure and diversity in the capercaillie (Tetrao urogallus)
<p>The capercaillie is widespread throughout the boreal forests of northern Eurasia but faces serious conservation challenges in the southernmost mountain ranges, where the populations are fragmented and some are critically endangered. To develop effective conservation strategies for these populations, it is essential to have information on both their genetic diversity and the genetic structure of the species. In this work, we used a reduced representation (ddRAD) genomic sequencing technique to analyze the genetic structure of the capercaillie across its European range and to assess the inbreeding levels in some of the most threatened populations. Our population structure analysis suggested the existence of two evolutionarily significant units, one formed by the two populations from the Iberian Peninsula and the other by the populations from the rest of Europe. Genetic diversity showed a significant decrease in the Iberian populations with respect to the other European populations. An isolation-with-migration model supported these results and allowed us to estimate the parameters of the population tree. The inbreeding coefficients estimated for the Iberian capercaillies showed relatively low levels in the Pyrenees. However, some individuals with very high inbreeding values were detected in the Cantabrian Mountains, suggesting that some of its subpopulations are substantially isolated. The population structure results and the genomic monitoring method we used to assess inbreeding levels may be crucial for the conservation and recovery of the most endangered capercaillie populations.</p>
HARP Analysis of cryoEM Structures in the PDB
<p><i>HARP_results.hdf5</i> contains the results of a hierarchical atomic resolution perception (HARP) calculation on each of the cryoEM structures deposited in the Protein Data Bank (PDB) prior to January 1, 2023. Top-level group names are the PDB IDs of the structures. HDF5 group attributes for each entry are certain metadata extracted from the mmCIF files associated with each entry. HDF5 datasets within each group are indexed relative to each other (<i>i.e.</i>, are of the same length). They are:</p><ul><li>authids (char): the author deposited ID of each residue (<i>e.g.</i>, "114")</li><li>chains (char): the chain ID of each residue (<i>e.g.</i>, "AC")</li><li>resids (int): the residue index of each residue (<i>e.g.</i>, 12)</li><li>renames (char): the residue name of each residue (<i>e.g.</i>, "cys")</li><li>probs (double): the HARP probability value, P, for each residue (<i>e.g.</i>, 0.897)</li></ul>
Supplementary data for "DNATCO v5.0: Integrated Web Platform for 3D Nucleic Acid Structure Analysis"
<p>Supplementary data for "DNATCO: efficient and accurate analysis of nucleic acid structures"</p> <p>The data in "dnatco.datmos.org_1ehz_4qvi_5hix.zip" contains the DNATCO-annotated extended mmCIF files, full validation reports and NtC-specific restraint files for the three example PDB structures (1ehz, 4qvi, and 5hix) is deposited.</p> <p>A snapshot of the core structure processing library source code from the https://github.com/cernylab/libLLKA repository is included in the "libLLKA-main.zip" file.</p> <p>The fully offline multi-platform CLI version of the dnatco.datmos.org using Node.js is provided in the "dnatco.zip" file</p>
Analysis of genome-wide DNA arrays reveals the genomic population structure and diversity in autochthonous Greek goat breeds
<p>Genotyping data in ped and map format (ped/map) for 72 goats and 53,347 genotypes.</p>
Data from: Assessing behavioral associations in a hybrid zone through social network analysis: complex assortative behaviors structure associations in a hybrid quail population
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Mixed-stock analysis using Rapture genotyping to evaluate stock-specific exploitation of a walleye population despite weak genetic structure
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Microsatellite-based analysis of genetic structure and gene flow of Mythimna separata (Walker) (Lepidoptera: Noctuidae) in China
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Aboveground herbivory causes belowground changes in twelve oak Quercus species: a phylogenetic analysis of root biomass and non‐structural carbohydrate storage
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Data from: Range-wide genetic analysis of an endangered bumble bee (Bombus affinis) reveals population structure, isolation by distance, and low colony abundance
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Data from: Genetic analysis of red deer (Cervus elaphus) administrative management units in a human-dominated landscape - patterns of genetic diversity, population structure and gene flow
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Population density and size structure data for macroecology analysis on <em>Littorina littorea</em> from different locations along the Atlantic North American coast
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The socioecology of elephants: Analysis of the processes creating multitiered social structures
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Numerical code and data for the stellar structure and dynamical instability analysis of generalised uncertainty white dwarfs
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Structure parameter optimization and bearing limit analysis of the expansion unit of three-roller tube expander
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Data from: Pan-genome analysis highlights the role of structural variation in the evolution and environmental adaptation of Asian honeybees
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Genomic analysis of geographical structure and diversity in the capercaillie (Tetrao urogallus)
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Data from: Bringing multivariate support to multiscale codependence analysis: assessing the drivers of community structure across spatial scales
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Arthropod food webs in the foreland of a retreating Greenland glacier: Integrating molecular gut content analysis with Structural Equation Modelling
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Data from: Seasonal differences in fish community structure in the upper Yangtze river based on eDNA metabarcoding: A multi-dimensional analysis
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Data from: Quality and quantity of genetic relatedness data affect the analysis of social structure
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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.