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FIGURE 4 in Variation in patterns of fish assemblage and their environmental correlates in a tropical river basin from the Gulf of Mexico slope
FIGURE 4 | Multivariate regression tree of transformed species abundances and environmental data. Percentage of improvement in the model is shown under each node; discriminating environmental variables and threshold values are shown at each split. DO, dissolved oxygen; ORD, stream order; n, number of samples.
FIGURE 3 in Variation in patterns of fish assemblage and their environmental correlates in a tropical river basin from the Gulf of Mexico slope
FIGURE 3 | Principal component analysis plot of environmental data. DO, dissolved oxygen; DU, distance to the confluence with the Usumacinta River; EC, electric conductivity; FC, forest cover; ORD, stream order.
FIGURE 4 in Estimated richness and environmental correlates of miniature fish assemblages in the rio Jacundá, Brazil
FIGURE 4 | Pairwise Pearson correlations in species abundance across the 20 sampling locations showing positive correlations in blue and negative correlations in red. Species codes are Aama (Ammoglanis amapaensis), Amin (Ammocryptocharax minutus), Epul (Elachocharax pulcher), Fpal (Fluviphylax palikur), Haft (Hemigrammus aff. tridens), Mwei (Microcharacidium weitzmani), Pana (Physopyxis ananas), Phas (Potamoglanis hasemani) and Tsp (Tyttobrycon sp.).
FIGURE 1 in Estimated richness and environmental correlates of miniature fish assemblages in the rio Jacundá, Brazil
FIGURE 1 | Study area map illustrating A. The location of the rio Jacundá in the lower Amazon Basin, B. The two areas sampled on the western edge of the Reserva Extrativista Ipaú-Anilzinho, Pará, Brazil, C. The distribution of 11 sampling locations and a site photograph at the upstream area, and D. The distribution of nine sampling locations and a site photograph at the downstream area.
FIGURE 3 in Estimated richness and environmental correlates of miniature fish assemblages in the rio Jacundá, Brazil
FIGURE 3 | Non-metric multidimensional scaling (NMDS) plot illustrating 20 sampling locations (points) at upstream (blue boxes) and downstream (red circles) sampling sites. Miniature fish scores are shown as green text, including Aama (Ammoglanis amapaensis), Amin (Ammocryptocharax minutus), Epul (Elachocharax pulcher), Fpal (Fluviphylax palikur), Haft (Hemigrammus aff. tridens), Mwei (Microcharacidium weitzmani), Pana (Physopyxis ananas), Phas (Potamoglanis hasemani), and Tsp (Tyttobrycon sp.). Environmental and spatial correlates with miniature fish assemblage structure are shown as gray vectors and text, including water overhead canopy cover (%), water temperature (C), pH, total suspended solids (TSS, ppm), conductivity (µs/cm), and the spatial relationship among sites from the first axis of an asymmetric eigenvector map (AEM1).
FIGURE 2 in Estimated richness and environmental correlates of miniature fish assemblages in the rio Jacundá, Brazil
FIGURE 2 | Accumulation (solid lines), extrapolation (dashed lines), and 95% confidence intervals (shaded areas) for diversity of miniature (red) and non-miniature (blue) freshwater fishes collected from the rio Jacundá, rio Amazonas basin, Brazil.
Gliding motility of the diatom Craspedostauros australis correlates with the intracellular movement of raphid-specific myosins
<p>Abstract:</p> <p>Raphid diatoms are one of the few eukaryotes capable of gliding motility, which is remarkably fast and allows for quasi-instantaneous directional reversals. Besides other mechanistic models, it has been suggested that an actomyosin system provides the force for diatom gliding. However, <em>in vivo</em> data on the dynamics of actin and myosin in diatoms are lacking. In this study we demonstrate that the raphe-associated actin bundles required for diatom movement do not exhibit a directional turnover of subunits and thus their dynamics do not contribute directly to force generation. By phylogenomic analysis we identified four raphid diatom-specific myosins in <em>Craspedostauros australis</em> (CaMyoA-D) and investigated their <em>in vivo</em> localization and dynamics through GFP-tagging. Only CaMyoB-D but not CaMyoA exhibited coordinated movement during gliding, consistent with a role in force generation. The characterization of raphid diatom-specific myosins lays the foundation for unraveling the molecular mechanisms that underlie the gliding motility of diatoms.</p> <p><br>This dataset contains all microscopy data used for confocal and TIRFM imaging, with all additional elements required to reproduce figures in the manuscript "Gliding motility of the diatom Craspedostauros australis correlates with the intracellular movement of raphid-specific myosins". The dataset also contains code used to generate plots and analyze microscopy data, as well as protein sequences and code used to generate the phylogenomic tree in the paper. </p>
Figure data for Dynamical Correlations and Order in Magic-Angle Twisted Bilayer Graphene
<p>This repository contains the data corresponding to all figures in the main text of the 2024 (to appear) Phys. Rev. X article <em>Dynamical Correlations and Order in Magic-Angle Twisted Bilayer Graphene</em>. See README for notes on how to access. </p> <p>The simulation code used to generate this data is available on github.<br>w2dynamics simulations: <a href="https://github.com/lcrippa/w2dynamics-matbg-symmetric">https://github.com/lcrippa/w2dynamics-matbg-symmetric</a><br>TRIQS simulations: <a href="https://github.com/gautamra/TBLG_ordered">https://github.com/gautamra/TBLG_ordered</a></p>
Dataset for the publication "Identification of plasticity-induced crack closure by using high-resolution digital image correlation"
<p>This repository publishes the data generated in the article "Identification of plasticity-induced crack closure by using high-resolution digital image correlation" (see arxiv preprint <a href="https://arxiv.org/html/2409.02560v1">Plasticity-induced crack closure identification during fatigue crack growth in AA2024-T3 by using high-resolution digital image correlation (arxiv.org)</a>)</p> <p>This repository is structured with the following subfolders:</p> <ul> <li><strong>0_fe_data: </strong>contains the displacement field of the free surface of the 3D finite element model that were used to determine the crack opening curves and, in the following, the crack opening value Kop</li> <li><strong>1_hrdic_data: </strong>contains the high-resolution DIC displacement field data at a crack length of 27.8 mm at different load levels, starting from minimum load 1.5 kN to maximum load 15 kN</li> </ul>
IODP Expedition 398 Stratigraphic Correlation
Affine and splice files created for stratigraphic correlation.
Physiological mechanisms and life history trade-offs shape in-tissue correlations of an essential micronutrient
<p>The Matlab code and dataset for the manuscript "Physiological mechanisms and life history trade-offs shape in-tissue correlations of an essential micronutrient". The dataset is packed in the ZIP archive 'Dataset_EjsmondTodisco_etal.zip' with variable description in the Matlab code file EjsmondTodisco_etal.m. To run the program, place the files EjsmondTodisco_etal.m and Fun_PlotResults.m in a catalog. The results are stored in two catalogs: 'ThReabsorptionAndSecretion' - modeling the rate of thiamine loss with processes of active reabsorption and secretion; and 'ThReabsorptionOnly' - modeling the rate of thiamine loss with the process of active reabsorption only. The ThReabsorptionAndSecretion catalog contains data for three life history types: iteroparity (baseline model), semelparity, and determinate growth (constant mass of somatic tissues in adults). For details see the manuscript by Ejsmond, Todisco et al.</p>
Supplementary material for Shivaei & Boogaard (2024): The tight correlation of PAH and CO emission from z~0-4
<p>Supplementary figure for the paper Shivaei & Boogaard (2024). The figure includes the UV-to-IR full SED fits to HST, JWST/NIRCam and MIRI, Herschel/PACS, and ALMA Bands 6 and 3 photometry of the ASPECS CO sample presented in Table 2 of the paper. An example SED is shown in Figure 1 of Shivaei & Boogaard (2024) with a full caption.</p> <div> <p> </p> </div>
Interferon-induced activation of dendritic cells and monocytes by yellow fever vaccination correlates with early antibody responses
<p>Bulk RNA-seq analysis of sorted subpopulations isolated from PBMC of yellow fever vaccinees from before and 3, 7, 14 and 28 days after vaccination and single cell RNA-seq analysis of sorted DC and monocytes fractions isolated from PBMC of of yellow fever vaccinees from before and 3 and 7 days after vaccination.</p>
IODP Expedition 355 Stratigraphic Correlation
Affine and splice files created for stratigraphic correlation.
Online example database generated representing nuclear astrophysics models predictions of correlations between stable/stable abundances of specific isotopes.
<p>Library of figures created using the SIMPLE code (Stellar Interpretation for Meteoritic data and PLotting). The SIMPLE stellar database includes 18 core-collapse supernova models with 3 different initial masses of 15, 20, 25 solar masses, all of solar metallicity and non-rotating stars. The 6 sets are the following:</p> <ul> <li>Rauscher et al. 2002 [Ra02]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2002ApJ...576..323R/abstract">https://ui.adsabs.harvard.edu/abs/2002ApJ...576..323R/abstract</a>),</li> <li>Pignatari et al. 2016 [Pi16]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2016ApJS..225...24P/abstract">https://ui.adsabs.harvard.edu/abs/2016ApJS..225...24P/abstract</a>),</li> <li>Sieverdin et al. 2018 [Si18]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2018ApJ...865..143S/abstract">https://ui.adsabs.harvard.edu/abs/2018ApJ...865..143S/abstract</a>),</li> <li>Limongi & Chieffi 2018 [LC18]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2018ApJS..237...13L/abstract">https://ui.adsabs.harvard.edu/abs/2018ApJS..237...13L/abstract</a>),</li> <li>Ritter et al. 2018 [Ri18]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2018MNRAS.480..538R/abstract">https://ui.adsabs.harvard.edu/abs/2018MNRAS.480..538R/abstract</a>),</li> <li>Lawson et al. 2022 [La22]<br>(<a href="https://ui.adsabs.harvard.edu/abs/2022MNRAS.511..886L/abstract">https://ui.adsabs.harvard.edu/abs/2022MNRAS.511..886L/abstract</a>)</li> </ul> <p>The figures can be divided into two types. The first shows the structure of the ejecta and the abundance of the selected isotopes. The layers are automatically detected using SIMPLE based on the abundances of the main fuels (H-1, He-4, C-12, O-16, Ne-20, Si-28) from the supernova model ejecta. The code names the different layers based on the schematic diagram in Schofield et al. 2022 (<a href="https://ui.adsabs.harvard.edu/abs/2022MNRAS.517.1803S/abstract">https://ui.adsabs.harvard.edu/abs/2022MNRAS.517.1803S/abstract</a>). <br>Ni and Fe isotopes are plotted in the figures. The abundances shown include the radiogenic contribution from unstable isotopes.</p> <p>The SIMPLE code is designed to compare stellar data with measurements from meteorites. To achieve this, abundances in mass fractions need to be converted into isotopic ratios using specific units. See Lugaro et al. 2023 (<a href="https://ui.adsabs.harvard.edu/abs/2023EPJA...59...53L/abstract">https://ui.adsabs.harvard.edu/abs/2023EPJA...59...53L/abstract</a>) for details. For the specific case of Ni64 ratios, in comparison with model data we report the measured meteoritic anomaly by Steele et al 2012 (<a href="https://ui.adsabs.harvard.edu/abs/2012ApJ...758...59S/abstract">https://ui.adsabs.harvard.edu/abs/2012ApJ...758...59S/abstract</a>) as a continuous horizontal line. The same is done for the Fe54 ratios, with reference measurements by Hopp et al 2022 (<a href="https://ui.adsabs.harvard.edu/abs/2022E%26PSL.57717245H/abstract">https://ui.adsabs.harvard.edu/abs/2022E%26PSL.57717245H/abstract</a>). </p> <p>In the database the abundance plots are identified as <strong>structure_<model refe<em>rence>_<initial mass>_<element>_<decayed or undecayed>.png</em></strong><em>. In particular, the available reference model options are Ra02, Pi16, Si18, LC18, Ri18, La22; the initial mass of the progenitors are 15, 20 or 25 (solar masses). The third part of the filenames are the plotted elements (in this case Ni or Fe) and then if they are decayed or undecayed. In this database we only consider the decayed species, which means that the radioactive isotopes whose decay can add to the abundance of the selected isotopes were considered. In this plots the x-axis represents the total mass from the core and the y-axis is the mass fraction on a logarithmic scale. For the slopes the same name scheme applies, but they are identified as <strong>slopes_<model reference>_<initial mass>_<element>_<decayed or undecayed></strong></em><strong>.png,</strong> and on the y-axis there are the slope values insteas of abundances.</p>
IODP Expedition 356 Stratigraphic Correlation
Affine and splice files created for stratigraphic correlation.
Dataset for article "Interplay between disorder and electronic correlations in compositionally complex alloys"
<p>Dataset for article "Interplay between disorder and electronic correlations in compositionally complex alloys", https://doi.org/10.1038/s41467-024-52349-8. Source data for figures is described by name and axes and unites are described inside each data file.</p>
IODP Expedition 359 Stratigraphic Correlation
Affine and splice files created for stratigraphic correlation.
Dataset of the cross-correlation functions and 3-D Vs model in the central and western NCC
<p>The file "CCFs_NCC.dat" contains all ZZ components cross-correlation fuctions for all available station pairs.</p> <p>The file "Vs_NCC.dat" contains the 3D crustal and uppermost mantle model of central and western NCC via multimodal dispersion inversion. </p>
Supplementary table for "Deciphering the Relationship Between Circulating Metabolites and Osteoarthritis: A Comprehensive Genetic Correlation and Mendelian Randomization Studies"
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
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