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13 results for “Hybridization density”
Growth parameters and resistance to Sphaerulina musiva-induced canker are more important than wood density for increasing genetic gain from selection of Populus spp. hybrids for northern climates
<p>The data was collected from a common garden genetics trial established in 2008 in northern Alberta, Canada. The trial represents 1978 (initial number) hybrid poplar clones from 63 families and includes interspecific crosses between <em>Populus deltoides</em> (D), <em>Populus nigra</em> (N), <em>Populus balsamifera</em> (B), <em>P. maximowiczii</em> (M), and <em>P. × petrowskyana</em> (<em>P. laurifolia</em> × <em>P. nigra</em>). Female clone 24 (‘Walker’ = (<em>Populus deltoides </em>× (<em>P. laurifolia × P. nigra</em>))) and male progeny clone 2403 (‘Okanese’ = (‘Walker’ × (<em>P. laurifolia × P. nigra</em>))) were used as reference clones. The study design was a randomized complete block design, with one ramet per clone in each of four blocks. Measurements were carried out after three, eight, and 10 growing seasons on the genetics trial. Results presented in ‘HybridPoplarsTrial.csv’ file, show is the raw data, while ‘Summary data.csv’ contains the mean values for clones obtained from the four blocks. Measured and calculated traits include: DBH (diameter at breast height; 1.3 m); H (height); canker (canker severity caused by <em>Sphaerulina musiva</em> (scale 0-3)); MAI (mean annual increment), V (volume).</p> <p>Description of headings:</p> <p>Trait [unit] - Description</p> <p>DBH_Age_3 [cm] - diameter at breast height at age 3</p> <p>H_Age_3 [m] - height at age 3</p> <p>DBH_Age_8 [cm] - diameter at breast height at age 8</p> <p>H_Age_8 [m] - height at age 8</p> <p>H_Age_10 [m] - height at age 10</p> <p>DBH_Age_10 [cm] - diameter at breast height at age 10</p> <p>Canker_Age_8 - canker severity caused by <em>Sphaerulina musiva</em> (scale 0-3)</p> <p>Canker_Age_10 - canker severity caused by <em>Sphaerulina musiva</em> (scale 0-3)</p> <p>V_Age_8 [m<sup>3</sup> ha<sup>-1</sup>] - volume at age 8</p> <p>MAI_Age_8 [m<sup>3</sup> ha<sup>-1</sup> yr<sup>-1</sup>] - mean annual increment at age 8</p> <p>V_Age_10 [m<sup>3</sup> ha<sup>-1</sup>] - volume at age 10</p> <p>MAI_Age_10 [m<sup>3</sup> ha<sup>-1</sup> yr<sup>-1</sup>] - mean annual increment at age 10</p> <p>WD_Age_10 [kg m<sup>-3</sup>] - wood density at age 10</p> <p> </p>
Density functional theory calculations of 1D hybrid nanoobjects composed of alternating polycyclic hydrocarbon regions and double carbon chains
<p>It has been proposed recently based on molecular dynamics simulations that electron irradiation of graphene nanoribbons of alternating width can lead to creation of 1D hybrid nanoobjects composed of alternating double carbon chains and polycyclic hydrocarbon regions [1]. We have performed density functional theory calculations of such 1D hybrid nanoobjects using Quantum ESPRESSO [2]. Semi-local exchange and correlation functional of Perdew, Burke and Ernzerhof [3] and screened exchange hybrid density functional of Heyd, Scuseria and Ernzerhof [4] were used. The dependences of structure, magnetic and electronic properies on the length of chains and type of the polycyclic hydrocarbon region were studied.</p> <p>I.V.L acknowledges the IKUR HPC project "First-principles simulations of complex condensed matter in exascale computers" funded by MCIN and by the European Union NextGenerationEU/PRTR-C17.I1, as well as by the Department of Education of the Basque Government through the collaboration agreement with nanoGUNE within the framework of the IKUR Strategy, computer resources at MareNostrum and the technical support provided by Barcelona Supercomputing Center (RES grant nos. FI-2022-1-0023, FI-2022-2-0035, FI-2022-3-0048 and FI-2023-1-0037). A.M.P., and Y.E.L. acknowledge the support by the Russian Science Foundation grant No. 23-42-10010, https://rscf.ru/en/project/23-42-10010/. S.A.V. and N.A.P. acknowledge support by the Belarusian Republican Foundation for Fundamental Research (Grant No. F23RNF-049) and by the Belarusian National Research Program "Convergence-2025".</p> <p>[1] A. S. Sinitsa, I. V. Lebedeva, Y. G. Polynskaya, D. G. de Oteyza, S. V. Ratkevich, A. A. Knizhnik, A. M. Popov, N. A. Poklonski, and Y. E. Lozovik, “Transformation of a graphene nanoribbon into a hybrid 1D nanoobject with alternating double chains and polycyclic regions,” Phys. Chem. Chem. Phys. 23, 425–441 (2021).</p> <p>[2] P. Giannozzi et al., “Advanced capabilities for materials modelling with Quantum ESPRESSO,” J. Phys.: Condens. Matter 29, 465901 (2017).</p> <p>[3] J. P. Perdew, K. Burke, and M. Ernzerhof, “Generalized gradient approximation made simple,” Phys. Rev. Lett. 77, 3865–3868 (1996).</p> <p>[4] J. Heyd, G. E. Scuseria, and M. Ernzerhof, “Hybrid functionals based on a screened Coulomb potential,” J. Chem. Phys. 118, 8207–8215 (2003).</p>
Tailoring the hybridization density of DNA biosensors through tunable surface functionalization
<p>Raw data and metadata associated to the study "Tailoring the hybridization density of DNA biosensors through tunable surface functionalization"</p> <p>Metadata file.</p> <p>Raw data for molecular characterization (NMR and MS analyses).</p> <p>Raw data for surface characterization (XPS analyses and fluorescence quantification).</p> <p>Copy of labbook for synthesis and surface functionalization protocols.</p> <p> </p>
Data from: Density-dependent unidirectional hybridization between the Japanese pond turtle, Mauremys japonica and the exotic Reeves' pond turtle, Mauremys reevesii in Japan, inferred from molecular and morphological analyses
<p>Hybridisation between the indigenous Japanese pond turtle, <em>Mauremys japonica</em>, and the exotic Reeves' pond turtle, <em>Mauremys reevesii</em>, is widespread in Japan. In this study, we examined this hybridisation using an analysis of mtDNA and 11 microsatellite markers (MS) combined with morphometry. In a Bayesian clustering analysis of MS, the admixture of two clusters equivalent to the two species was detected in the Seto Inland Sea and Ise Bay regions. While mtDNA showed reciprocal hybridisation between the two species, their hybrids tended to possess the mtDNA of the rarer species at each locality. Contrary to preceding studies, F2/later generations outnumbered F1 generations. In addition, the admixture of two mtDNA lineages (Chinese and Korean) of <em>M. reevesii</em> was widely observed in all regions, together with the range expansion of the recently introduced Chinese lineage. A significant correlation was observed between plastron morph and assignment probability of MS, showing that plastron morphology reflects the degree of introgression by <em>M. reevesii</em> in <em>M. japonica</em>. This finding means that the reproductive interference of the dominant species on a rarer species is a major factor driving the hybridisation of the two Mauremys species. In addition, the range expansion of the Chinese lineage of M. reevesii appears to enhance the introgression by <em>M. reevesii</em> in <em>M. japonica</em>.</p>
Supplementary material for "Hybrid-Vlasov modelling of ion velocity distribution functions associated with the Kelvin-Helmholtz instability with a density and temperature asymmetry"
<p>Supplementary material for the article:</p> <p>"Hybrid-Vlasov modelling of ion velocity distribution functions associated with a density and temperature asymmetry" by</p> <p><strong>V. Tarvus</strong>, L. Turc, H. Zhou, T. Nakamura, A. Settino, K.Blasl, G. Cozzani, U. Ganse, Y. Pfau-Kempf, M. Alho, M. Battarbee, M. Bussov, M. Dubart, E. Gordeev, F. Tesema Kebede, K. Papadakis, J. Suni, I. Zaitsev and M. Palmroth</p> <p> </p> <p><strong>Supplementary video A</strong>:</p> <p>The development of the Kelvin-Helmholtz instability (KHI) in a purely transverse geometry (velocity shear perpendicular to the magnetic field), simulated using the hybrid-Vlasov model Vlasiator. The parameters shown are: Proton temperature (panel a), the non-Maxwellianity of the proton velocity distribution function (panel b), proton heat flux (panel c) and vorticity (panel d). A black contour in each panel shows the region where the magnitude of the proton temperature gradient is larger than the maximum gradient at the beginning of the simulation. Arrows in panel d) show the velocity field. The evolution of KHI proceeds from the formation of linear surface waves (t<50 Ω<sub>c,p</sub><sup>-1</sup>, with proton gyroperiod Ω<sub>c,p</sub><sup>-1</sup>) to the waves rolling up into vortices (t>50 Ω<sub>c,p</sub><sup>-1</sup>). Due to the steepening of the velocity shear layer, whose thickness tends towards the thermal proton Larmor radius, finite Larmor radius effects become active at the vortex edges, manifesting as enhanced non-Maxwellianity (panel b) and a heat flux (panel c), which originates from the temperature gradient according to the mechanism described by Braginskii (1965). At the end of the simulation (t=90-100 Ω<sub>c,p</sub><sup>-1</sup>), non-Maxwellianity increases also in the vortex interior, as protons from the two initial regions are mixed together.</p> <p> </p> <p><strong>Supplementary video B</strong>:</p> <p>The same as Supplementary video A, but with an added in-plane magnetic field of the form (<em>B</em><sub>0,z</sub>/5) tanh(x/a) <strong>y</strong>,<strong> </strong>where <em>B</em><sub>0,z</sub> is the magnitude of the background magnetic field perpendicular to the velocity shear. Analogous behavior is found compared to the simulation without an in-plane magnetic field (Supplementary video A), with the exception of the suppression of secondary instabilities by the added magnetic tension. This leads to less irregularities in the vortex structure during the non-linear stage (t>~50 Ω<sub>p</sub><sup>-1</sup>).</p>
Dataset for the article "A deep equivariant neural network approach for efficient hybrid density functional calculations"
<p>Dataset files for DeepH-hybrid, containing structures and preprocessed Hamiltonian matrices computed with HSE06 hybrid functional and ABACUS DFT package.</p> <p>Enclosed include:</p> <ol> <li>The four datasets corresponding to the four DeepH-hybrid models mentioned in DeepH-hybrid's paper, each containing material structures and electronic structure properties of </li> <li>Basis set files for the ABACUS DFT package</li> <li>Snapshot of a version of the additional codes utilized to preprocess hybrid DFT Hamiltonians (also available via this <a href="https://github.com/aaaashanghai/DeepH-hybrid">GitHub link</a>)</li> </ol> <p>Note only the additional codes of DeepH-hybrid is provided, and it may be used in combination with DeepH-E3 package for neural-network training. For additional details please refer to the "README" file of the code.</p>
Achieving high hybridization density at DNA biosensor surfaces using branched spacer and click chemistry
<p>Raw data and metadata associated to the study " Achieving high hybridization density at DNA biosensor surfaces using branched spacer and click chemistry".</p> <p>Copy of labbook for synthetic procedures and surface functionalization procedures.</p> <p>Data for surface characterizations (XPS measurements and fluorescent quantification).</p> <p>Data for molecular characterizations: NMR and Mass Spectrometry.</p>
Data from: Does density influence relative growth performance of farm, wild, and F1 hybrid Atlantic salmon in semi-natural and hatchery common garden conditions?
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Data from: Density-dependent unidirectional hybridization between the Japanese pond turtle, Mauremys japonica and the exotic Reeves’ pond turtle, Mauremys reevesii in Japan, inferred from molecular and morphological analyses
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Multistate hybrid time-dependent density functional theory with surface hopping accurately captures ultrafast thymine photodeactivation
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Cassini RPWS Electron Densities from Upper Hybrid and Plasma Wave Frequencies
This bundle provides electron number density values derived from features observed in plasma wave data obtained by the Cassini Radio and Plasma Wave Science (RPWS) instruments, along with observed or derived characteristic frequencies, and useful positional parameters for the spacecraft and related bodies. When present, frequency values of narrowband emissions at the upper hybrid resonance were digitized and combined with measured or model magnetic field to derive electron number density. At other times, features such as the upper cutoff in auroral hiss or electron plasma oscillations were used to determine the plasma frequency and electron density.
A Comprehensive Hybridization Model Allows Whole HERV Transcriptome Profiling Using High Density Microarray
GEO Series GSE87134. Homo sapiens. 29 samples. Type: Expression profiling by array.
Density dependence influences competition and hybridization at an invasion front - occupancy and istope data
<p>Occupancy data and stable isotope data associated with the publication ' Density dependence influences competition and hybridization at an invasion front' in <em>Diversity and Distributions.</em></p>
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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.
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DANDI Archive for NWB datasets
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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.