Find research datasets worth reusing

opencc-by-4.0Dec 2020View details →

Data from: Macroevolutionary trends in theropod dinosaur feeding mechanics

Figure S1. Comparison of von Mises stress plots of non-avialan theropod mandibles under a posterior-bite scenario. Left: original mandible; Right: simulated deformed mandible, showing the deformation (displacement) of the original mandible under loading and the biomechanical performance of this simulated form (see methods). Silhouettes modified from PhyloPic. Figure S2. Ancestral state reconstruction of (A) average mandibular stress and (B) bite efficiency of the non-avialan theropods studied under an anterior-bite scenario using linear parsimony. Figure S3. Ancestral state reconstruction of (A) average mandibular stress and (B) bite efficiency of theropods under posterior-bite scenario using linear parsimony. Figure S4. Workflow of the analyses conducted in this study, using the oviraptorosaurian Gigantoraptor erlianensis as an example. Figure S5. Biomechanical performance of the original and simulated deformed mandibles of non-avialan theropods under an anterior-bite scenario. Average mandibular stress of (A) major clades; (B) dietary groups; (C) theropod taxa. Bite efficiency of (D) major clades; (E) dietary groups; (F) theropod taxa. See Figure S5B for legend. Silhouettes modified from PhyloPic. Figure S6. Biomechanical performance of the original and simulated deformed mandibles of non-avialan theropods under a posterior-bite scenario. Average mandibular stress of (A) major clades; (B) dietary groups; (C) theropod taxa. Bite efficiency of (D) major clades; (E) dietary groups; (F) theropod taxa. See Figure S6B for legend. Silhouettes modified from PhyloPic. Figure S7. Ancestral state reconstruction of average mandibular stress of theropods under anterior-bite scenario using maximum likelihood. Figure S8. Ancestral state reconstruction of average mandibular stress of theropods under posterior-bite scenario using maximum likelihood. Figure S9. Ancestral state reconstruction of bite efficiency of theropods under anterior-bite scenario using maximum likelihood. Figure S10. Ancestral state reconstruction of bite efficiency of theropods under posterior-bite scenario using maximum likelihood. Figure S11. Comparison of maximum principal strain plots of non-avialan theropod mandibles under an anterior-bite scenario. Left: original mandible; Right: simulated deformed mandible, showing the deformation (displacement) of the original mandible under loading and the biomechanical performance of this simulated form (see methods). Silhouettes modified from PhyloPic. Figure S12. Comparison of maximum principal strain plots of non-avialan theropod mandibles under a posterior-bite scenario. Left: original mandible; Right: simulated deformed mandible, showing the deformation (displacement) of the original mandible under loading and the biomechanical performance of this simulated form (see methods). Silhouettes modified from PhyloPic. Figure S13. Comparison of maximum principal strain plot of the tyrannosauroids Tyrannosaurus and Tarbosaurus through ontogeny. Figure S14. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of (A) relative average mandibular stress and (B) relative bite efficiency of the non-avialan theropods studied under an anterior-bite scenario using linear parsimony. Figure S15. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of (A) relative average mandibular stress and (B) relative bite efficiency of the non-avialan theropods studied under a posterior-bite scenario using linear parsimony. Figure S16. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of average mandibular stress of theropods under anterior-bite scenario using maximum likelihood. Figure S17. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of average mandibular stress of theropods under posterior-bite scenario using maximum likelihood. Figure S18. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of bite efficiency of theropods under anterior-bite scenario using maximum likelihood. Figure S19. Ancestral state reconstruction of the phylogenetic generalized least square regression residuals of bite efficiency of theropods under posterior-bite scenario using maximum likelihood. Figure S20. Time-scaled composite phylogeny used in this study. Outgroup taxa relationships follow Novas, et al. 1. Coelurosaurian phylogenetic relationships follow Pei, et al. 2. The placement of Raptorex in Tyrannosauroidea follows Brusatte and Carr 3. The placement of Deinocheirus in Ornithomimosauria follows Lee, et al. 4. The placement of Jianchangosaurus in Therizinosauria follows Yao, et al. 5. The detailed phylogeny of Oviraptorosauria follows Qiu, et al. 6 (for early-diverging taxa) and Funston 7 (for Caenagnathidae and Oviraptoridae). Figure S21. Phylogeny used in this study with node numbers labelled. See Data S1F-G for reconstructed ancestral states of biomechanical characters using maximum likelihood. Supplemental references

opencc-by-4.0Apr 2022View details →

Data for: Molecular mechanisms behind safranal's toxicity to liver cancer cells from dual omics

The spice saffron (Crocus sativus) has anticancer activity in several human tissues, but the molecular mechanisms underlying potential therapeutic effects are poorly understood. We investigated the impact of safranal, a small molecule secondary metabolite from saffron, on the HCC cell line HEP-G2 using untargeted metabolomics (HPLC-MS) and transcriptomics (RNAseq). Increases in glutathione disulfide and other biomarkers for oxidative damage contrasted with lower levels of the antioxidants biliverdin IX (139-fold decrease, p=5.3E-5), the ubiquinol precursor 3-4-dihydroxy-5-all-trans-decaprenylbenzoate (3-fold decrease, p=1.9E-5), and resolvin E1 (-3,282-fold decrease, p=4E-5), which indicates sensitization to reactive oxygen species. We observed a significant increase in intracellular hypoxanthine (538-fold increase, p=7.7E-6) that may be primarily responsible for oxidative damage in HCC after safranal treatment. The accumulation of free fatty acids and other biomarkers, such as S-methyl-5'-thioadenosine, are consistent with safranal-induced mitochondrial de-uncoupling and explain the sharp increase in hypoxanthine we observed. Overall, the dual omics datasets describe routes to widespread protein destabilization and DNA damage from safranal-induced oxidative stress in HCC cells.

Mechanism of Praziquantel action at a parasitic flatworm ion channel

Data supporting Park et al. [Mechanism of praziquantel action at a parasitic flatworm ion channel]

opencc-by-4.0Nov 2021View details →

Dataset for "Changes in mechanisms and characteristics of Western U.S. floods over the last sixty years"

This is the data prepared for submission of "Changes in mechanisms and characteristics of Western U.S. floods over the last sixty years." Four types of data are included: 1) daily streamflow on 119 basins from USGS and the selected AM and POT events (time and magnitude) during 1960-2018; 2) basin-averaged Livneh-VIC outputs during 1960-2018; 3) the corresponding FGM for each AMS and POT event on 119 basins, and 4) AR catalog developed by Guan and Waliser (2015)

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Partitioning beta diversity to untangle mechanisms underlying the assembly of bird communities in Mediterranean olive groves

Aim: We investigated taxonomic and functional beta diversity of bird communities inhabiting Mediterranean olive groves subject to either intensive or extensive management of the ground cover and located in landscapes with different degrees of complexity. Location: Andalusia, southern Spain. Methods: We partitioned taxonomic and functional beta diversity into its two additive components, turnover and nestedness. We also explored the contributions of single sites to overall beta diversity (LCBD) and separated the effects of species replacement (turnover) and richness difference (nestedness) in order to identify ecologically unique sites -keystone communities- within the metacommunity. In a further step, we employed abundance- and functional-based indicator species analyses to characterize bird assemblages. Results: Taxonomic beta diversity increased with landscape complexity. Although both taxonomic and functional differences among assemblages were driven mainly by species replacement (regardless of management or landscape type), the contribution of trait replacement to the total functional beta diversity was much lower, suggesting that species performing similar functions replace each other between sites. There were no differences in LCBD between management types or categories of landscape complexity, but the contributions of sites to beta diversity decreased as the percentage cover of olive groves increased. Species richness was also important in explaining variation in LCBD as species-poor sites tended to contribute the most to the local-to-regional beta diversity. However, some farms displayed high values of LCBD due to the existence of a high replacement component, indicating that some species recorded in these sites were scarce elsewhere. The indicator species analyses revealed that the woodchat shrike Lanius senator may constitute an excellent indicator of biodiversity in this agro-forestry-system. Main conclusions: Our results show that agricultural expansion promotes biotic homogenization and exemplify how the identification of both keystone species and communities can represent a powerful tool for the management of anthropized landscapes.

opencc-zeroNov 2021View details →

openother-openSep 2021View details →

Supporting data and code for: A high diversity of mechanisms endows ALS-inhibiting herbicide resistance in the invasive common ragweed (Ambrosia artemisiifolia L.)

This is the first release of the final data and code for the article accepted for publication in Scientific Reports journal. It contains all the necessary scripts to produce the maps of the manuscript. All the necessary data can be found in the 'data' folder.

opencc-by-4.0Nov 2021View details →

Dataset for "Mechanically robust supramolecular polymer co-assemblies"

Source data of the study reported in the publication entitled "Mechanically robust supramolecular polymer co-assemblies". The data should be considered together with the published manuscript and the supplementary information file.

opencc-by-4.0Nov 2021View details →

Nanoindentation and AFM Dataset for the Microscale Mechanical Property of Granites

This dataset contains the raw results of nanoindentation testing and Atomic Force Microscopy (AFM) testing, which were used to determine the elastic property of rock-forming minerals and interphases in granites. The dataset is presented and utilized in the paper 'Determining Young's Modulus of Arbitrarily-shaped Granite Samples using Accurate Grain-based Modelling with Micro-RME'. Full details of the experimental setup, procedure, and imaging analysis can be found in the paper and supporting information. The results of nanoindentation testing for different rock-forming minerals in granites are contained within three files: nanoindentation_quartz, nanoindentation_feldspar and nanoindentation_biotite. In these files, the raw data during nanoindentation testing is shown with achieved parameters, including elastic modulus, hardness, maximum load fore, maximum contact area, and contact depth. These results are then used to determine the elastic modulus of rock-forming minerals. The achieved Young's modulus for quartz, feldspar and biotite are 96.81 GPa, 69.50 GPa and 46.41 GPa, respectively, for present granitic samples. The results of AFM testing for interphases between different rock-forming minerals in granites are contained within three files: AFM_quartz_feldspar_interphase, AFM_feldspar_biotite_interphase and AFM_quartz_biotite_interphase. In these files, the raw data of 196,608 indents during AFM testing is shown with obtained parameters, including elastic modulus and surface roughness. These results are then used to determine the geometry and elastic modulus of interphases. The achieved Young’s modulus of interphase is 24.48 GPa for present granitic samples. Additionally, the geometry of striped interphases between different rock-forming minerals is shown, which is complex with varying widths.

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Colony-level mechanisms of thermal tolerance regulation in the ant Ectatomma ruidum

1. Insects spend energy to function in high temperature environments, and because social insects employ a division of labor, it is likely that thermal tolerance varies among individuals in the colony, based on the tasks that they perform. 2. Foraging workers of the ant Neotropical ant Ectatomma ruidum are known to show temporal differences in thermal tolerance, with greater tolerance in hot afternoons, relative to cool mornings. 3. We developed three hypotheses that can account for temporal differences in thermal tolerance among workers: Thermal Acclimation, Division of Labor, and Circadian Rhythm. 4. We tested these hypotheses with a pair of experiments that involved the measurement of thermal persistence of ants at a constant temperature in time-to-failure assays. The first experiment compared ants with different behavioral roles in colonies, and the second compared colonies subjected to thermal manipulations, then iteratively sampled at daily thermal maxima and minima. 5. We found robust support for the Circadian Rhythm and Thermal Acclimation Hypotheses, and little support for the Division of Labor Hypothesis. Colonies of this species integrate multiple mechanisms of adapting to thermal challenges including time of day, ambient temperature, and the behavioral context of individual workers.

opencc-zeroDec 2021View details →

Data from: Coherent mechanical noise cancellation and cooperativity competition in optomechanical arrays

Source data for figures.

Supplementary data: Na2.4Al0.4Mn2.6O7 anionic redox cathode material for sodium ion batteries- a combined experimental and theoretical approach to elucidate its charge storage mechanism

This data repository contains the output files of density-functional theory (DFT) calculations that were used for the paper "Na2.4Al0.4Mn2.6O7 anionic redox cathode material for sodium ion batteries- a combined experimental and theoretical approach to elucidate its charge storage mechanism".

opencc-zeroJan 2022View details →

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Data from: Juvenile experience with male cues triggers cryptic choice mechanisms in adult female redback spiders

Female choice may be linked to population density if expected encounter rates with potential mates affects choosiness (energy and risk engaged to express mate preferences). Choosiness should covary with male availability, which could be assessed using social cues available during development. We tested whether exposure of juvenile females to cues of male density affected mechanisms of choosiness of adult Latrodectus hasselti spiders in two experiments simulating natural contexts. Juvenile females were exposed to (1) volatile chemicals from two densities of adult males (airborne cues), and (2) tactile, vibrational, and chemical cues from adult males or other females (cohabitation cues). As adults, females mated readily, regardless of treatment, but there was strong evidence for post-copulatory mechanisms of choosiness in females exposed to cues of high male availability. These included abbreviated matings (both experiments), cannibalism of males before mating was complete (cohabitation), and, remarkably, a reduction in the successful placement of internal sperm plugs (cohabitation). These shifts decrease the likelihood that the first mate would monopolize paternity if the female chose to mate again. We conclude that female choosiness may impose strong selection on males despite high mating rates, and these effects can hinge on cues of male availability detected by juveniles.

Public Release of Dataset and Code for Accurate and intelligent determination of mechanical response of nodular piles in offshore ground

This is the public release of this repository which contains code and data to accompany the paper: Chen, X.X., Zhan, C.S., Lu, S.L. (2021). Accurate and intelligent determination of mechanical response of nodular piles in offshore ground. PLoS ONE. This file includes the original data of axial force and shaft resistance of piles  in 'dataset.xlsx' and 'data.txt'.  The code in 'LSTM_model.m' requires software of Octave or Matlab.

Laboratory evidence supporting a mechanical model describing the dynamic formation of fault damage asymmetry (data)

Data from the paper: Laboratory evidence supporting a mechanical model describing the dynamic formation of fault damage asymmetry This document includes the after-analysis data, where, the variable "Log2by3M" for the relative magnitude of AE events in the catalog, "M" for the coordinates of sensors, "Mechanical" for the raw mechanical loading information before synchronization, "Notch" for the coordinate of the notch on the beam, "QuaLoc" for the source location and time.

A mechanism for the strange metal phase in rare-earth intermetallic compounds

Codes and numerical data for each Figure created for the study in Jiangfan Wang, et al., A mechanism for the strange metal phase in rare-earth inter-metallic compounds and its supporting information.

Large-scale conformational changes of FhaC provide insights into the two-partner secretion mechanism

This dataset contains raw and processed data and analyses related to the manuscript "Large-scale conformational changes of FhaC provide insights into the two-partner secretion mechanism" by the authors. A preprint of this manuscript is available on bioRxiv (https://doi.org/10.1101/2021.11.09.467682).

Dynamics of an interfacial bubble controls adhesion mechanics in a van der Waals heterostructure

These are the COMSOL Multiphysics for our FEM calculations of frequency dispersion with gate voltage (\(V_g^{dc}\)) and stress at different values of \(V_g^{dc}\) for different conditions of graphene-hBN heterostructure interface. For the bubble growth rate equation, we considered linear gate-voltage dependence. Bubble growth will be restricted as the bubble diameter reaches the diameter of the drum. So the growth is conditional, it increases as the gate voltage increases with a constant slope till its radius reaches the drum radius (\(R_f \)); its governing equation is \(R_{\textrm{bub}}(V_g^{\textrm{dc}})=R_i+mV_g^{\textrm{dc}} for R_{bub}\leq R_f\) . Bubble growth stops at \(R_{bub} ≈ R_f \), where \(R_i \), \(R_f \)are the initial and final radii of the bubble and m is the increase in bubble radius per unit change in gate voltage (\(µm/V\)).

Experimental results for Dynamics of an interfacial bubble controls adhesion mechanics in a van der Waals heterostructure

These are the COMSOL Multiphysics file used for our FEM calculations of frequency dispersion with gate voltage (\(V_g^{dc}\)) and stress at different values of \(V_g^{dc}\) for different conditions of graphene-hBN heterostructure interface. For the bubble growth rate equation, we considered linear gate-voltage dependence. Bubble growth will be restricted as the bubble diameter reaches the diameter of the drum. So the growth is conditional, it increases as the gate voltage increases with a constant slope till its radius reaches the drum radius (\(R_f \)); its governing equation is \(R_{\textrm{bub}}(V_g^{\textrm{dc}})=R_i+mV_g^{\textrm{dc}} for R_{bub}\leq R_f\) . Bubble growth stops at \(R_{bub} ≈ R_f \), where \(R_i \), \(R_f \)are the initial and final radii of the bubble and m is the increase in bubble radius per unit change in gate voltage (\(µm/V\)).

opencc-by-4.0Feb 2022View details →

[DATASET 5] - MULTI-FILAMENT DEPOSITION MECHANISM

In the framework of GrowBot project, Task 5.2 is devoted to developing a growing mechanism based on the deposition of filament-form materials. The system is endowed with the capability to manage the deposition of more than one filament, permitting the realization of multi-material structures. DS5 aims at collecting the experimental data, and intermediate results gathered during this activity.