Find research datasets worth reusing

opencc-zeroMay 2022View details →

Comparative physiology of canopy tree leaves in evergreen and deciduous forests in lowland Thailand

The major forest types in lowland Thailand and its adjacent parts in Southeast Asia with the distinct dry season are the mixed deciduous forest (MDF), dry dipterocarp forest (DDF) and dry evergreen forest (DEF). We report the first comprehensive data set in leaf physiology of canopy trees in these three forest types and clarify adaptive functional differences of woody plants among three forests. Unlike temperate forests, the forest variations in leaf mass per area (LMA) were related to nutrient use strategies (less vs. more conservative) associated with soil nutrients rather than with leaf phenology (evergreen vs. deciduous). In the interspecific variations within each forest, Amax in MDF and DEF was limited by foliar phosphate, whereas that in DDF was limited by foliar nitrogen. The close association between leaf physiology and soil properties suggests that climate change and increasing human impacts will disrupt this association, leading to forest degradation and dysfunction.

opencc-by-4.0Jun 2022View details →

Generic solving of a multi-compartment physiologically-based kinetic model

This repository makes available supplementary material related to a scientific paper in progress.

opencc-by-4.0May 2021View details →

Paroxysmal Atrial Fibrillation Events Detection from Dynamic ECG Recordings - The 4th China Physiological Signal Challenge 2021

This dataset is part of the available dataset for Paroxysmal Atrial Fibrillation Events Detection from Dynamic ECG Recordings: The 4th China Physiological Signal Challenge 2021, available at https://physionet.org/static/published-projects/cpsc2021/paroxysmal-atrial-fibrillation-events-detection-from-dynamic-ecg-recordings-the-4th-china-physiological-signal-challenge-2021-1.0.0.zip (last accessed today 2022-07-22). The dataset is licensed under Creative Commons Attribution 4.0 International Public License: Permissions: <ul> <li>Share — copy and redistribute the material in any medium or format</li> <li>Adapt — remix, transform, and build upon the material for any purpose, even commercially.</li> </ul> Conditions: <ul> <li> Attribution — You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. </li> </ul> Limitations: <ul> <li>No additional restrictions — You may not apply legal terms or technological measures that legally restrict others from doing anything the license permits.</li> </ul> For more information about the license, check: https://creativecommons.org/licenses/by/4.0/ The following modifications were made: <ul> <li>Only the training and test set folders are used</li> <li>Only the files *.hea, *.dat and *.atr are used, being the *.dat and *.atr converted to CSV and compressed in .bz2 format</li> <li>Added the LICENSE.txt file as required.</li> </ul>

opencc-zeroJul 2022View details →

Data from: Non-native grazers affect physiological and demographic responses of Greater Sage-grouse

1. Non-native ungulate grazing has negatively impacted native species across the globe, leading to massive loss of biodiversity and ecosystem services. Despite their pervasiveness, interactions between non-native grazers and native species are not fully understood. We often observe declines in demography or survival of these native species, but lack understanding about the mechanisms underlying these declines. Physiological stress represents one mechanism of (mal)adaptation but data are sparse. 2. We investigated glucocorticoid levels in a native avian herbivore exposed to different intensities of non-native grazing in the cold desert Great Basin ecosystem, USA. We measured corticosterone, a glucocorticoid in feathers for a large sample (n = 280) of female Greater Sage-grouse (Centrocercus urophasianus) from three study areas in Northern Nevada and Southern Oregon with different grazing regimes of livestock and feral horses. 3. We found greater feral horse density was associated with higher corticosterone levels, and this effect was exacerbated by drought conditions. Livestock grazing produced similar results; however there was more model uncertainty about the livestock effect. Subsequent nesting success was lower with increased feather corticosterone, but corticosterone levels were not predictive of other vital rates. 4. Our results indicate a physiological response by sage-grouse to grazing pressure from non-native grazers. We found substantial among-individual variation in the strength of the response. These adverse effects were intensified during unfavorable weather events, highlighting the need to reevaluate management strategies in the face of climate change.

opencc-zeroSep 2022View details →

Data associated with: Emergence of the physiological effects of elevated CO2 on land-atmosphere exchange of carbon and water

Elevated atmospheric CO2 (eCO2) influences the carbon assimilation rate and stomatal conductance of plants and thereby can affect the global cycles of carbon and water. Yet, the detection of these physiological effects of eCO2 in observational data remains challenging, because natural variations and confounding factors (e.g., warming) can overshadow the eCO2 effects in observational data of real-world ecosystems. In this study, we aim at developing a method to detect the emergence of the physiological CO2 effects on various variables related to carbon and water fluxes. We mimic the observational setting in ecosystems using a comprehensive process-based land surface model QUINCY to simulate the leaf-level effects of increasing atmospheric CO2 concentrations and their century-long propagation through the terrestrial carbon and water cycles across different climate regimes and biomes. We then develop a statistical method based on the signal-to-noise ratio to detect the emergence of the eCO2 effects. The signal in gross primary production (GPP) emerges at relatively low CO2 increase (Δ[CO2] ~ 20 ppm) where the leaf area index is relatively high. Compared to GPP, the eCO2 effect causing reduced transpiration water flux (normalized to leaf area) emerges only at relatively high CO2 increase (Δ[CO2] >> 40 ppm), due to the high sensitivity to climate variability and thus lower signal-to-noise ratio. In general, the response to eCO2 is detectable earlier for variables of the carbon cycle than the water cycle, when plant productivity is not limited by climatic constraints, and stronger in forest-dominated rather than in grass-dominated ecosystems. Our results provide a step toward when and where we expect to detect physiological CO2 effects in in-situ flux measurements, how to detect them and encourage future efforts to improve the understanding and quantification of these effects in observations of terrestrial carbon and water dynamics.

opencc-zeroMay 2024View details →

Correlated evolution of oxidative physiology and MHC-based immunosurveillance in birds

Maintenance and activation of the immune system incurs costs, not only in terms of substrates and energy, but also via collateral oxidative damage to host cells or tissues during immune response. So far, associations between immune function and oxidative damage have been primarily investigated at intra-specific scales. Here, we hypothesized that pathogen-driven selection should favour evolution of effective immunosurveillance mechanisms (e.g. Major Histocompatibility Complex, MHC) and antioxidant defences to mitigate oxidative damage resulting from immune function. Using phylogenetically-informed comparative approaches, we provided evidence for correlated evolution of host oxidative physiology and MHC-based immunosurveillance in birds. Species selected for more robust MHC-based immunosurveillance (higher gene copy numbers and allele diversity) showed stronger antioxidant defences, although selection for MHC diversity still showed a positive evolutionary association with oxidative damage to lipids. Our results indicate that historical pathogen-driven selection for highly duplicated and diverse MHC could have promoted the evolution of efficient antioxidant mechanisms, but these evolutionary solutions may be insufficient to keep oxidative stress at bounds. Although the precise nature of mechanistic links between the MHC and oxidative stress remains unclear, our study suggests that a general evolutionary investment in immune function may require co-adaptations at the level of host oxidative metabolism.

opencc-by-4.0May 2024View details →

EmoPairCompete - Physiological Signals Dataset for Emotion and Frustration Assessment under Team and Competitive Behaviours

Please refer to the documentation at: https://github.com/DTUComputeStatisticsAndDataAnalysis/EmoPairCompete

opencc-by-sa-4.0May 2024View details →

A novel flow chamber for biodegradable alloy assessment in physiologically realistic environments: Supporting Data

Experimental data including Excel analysis and microscopy supporting the publication 'A novel flow chamber for biodegradable alloy assessment in physiologically realistic environments' <a href="https://doi.org/10.1063/1.4821498" target="_blank" rel="noopener">https://doi.org/10.1063/1.4821498</a>

opencc-by-4.0May 2024View details →

Identifying Episodes of Hypovigilance in Intensive Care Units Using Routine Physiological Parameters and Artificial Intelligence: a Derivation Study. Open Code and Dataset

The purpose of this project is to detect hypogilance using the EVEILS database. Database is ICU data from Hôtel-Dieu De Lévis , Québec, Canada. Please cite us if you use either the data or code.  This code was written during Raphaëlle Giguère Msc in Computer Science. The goal of her project is to detect hypovigilance using machine learning in the ICU. In this repository, you have the data set before preprocessing: <ul> <li>df_hypovigilance : Contains the hours, date and value of the vigilance level, using either the RASS or Ramsay and already converted using the thresholds shown in the paper.</li> <li>raw_df : Contains the raw values from the gateway for each participant. All of the identifying values have been removed.</li> </ul> At the end of the preprocessing_anonymous script, you should generate a new dataset called "df_final". This dataset is used for the training_model script. The cross validation employs groups of random size meaning the results might differ from time to time but should stay consistent.

Fig. 6 in Molecular and physiological characterization of the chitin synthase B gene isolated from CUlex pipieNS palleNS (Diptera: Culicidae)

Fig. 6 Effect of CpCHSB silencing in third instar larvae on chitin content. a Relative chitin content in fourth-instar larvae at 72 h after siCHSB injection (n = 10). b Rhodamine B staining of the midgut of fourth-instar larvae isolated after 72 h after siCHSB injection. c Chitin staining in the midgut at 48 and 72 h after siCHSB injection (n = 10). Results are shown as the mean ± SE (Student's t-tests; *P <0.05, **P <0.01). Scale-bar: 50 μm

Fig. 5 in Molecular and physiological characterization of the chitin synthase B gene isolated from CUlex pipieNS palleNS (Diptera: Culicidae)

Fig. 5 CpCHSB gene suppression by RNAi at 1 day after injection (n = 200) in adult mosquitoes. a Expression levels of CpCHSB at 72 h after injecting siCHSB assessed by RT-qPCR. The group injected with siCHSB show a reduction in CpCHSB expression of 53% compared with the control group. b Relative chitin content at 72 h after siCHSB injection. c Midgut length at 72 h after siCHSB injection. d Number of follicles per ovary and number of eggs per female mosquito (e) after injecting siCHSB. Results are shown as the mean ± SE (Student's t-tests; **P <0.01, ***P <0.001, ns, not significant)

Fig. 2 in Molecular and physiological characterization of the chitin synthase B gene isolated from CUlex pipieNS palleNS (Diptera: Culicidae)

Fig. 2 Expression profiles of CpCHSB in different tissues of fourth-instar C. pipiens pallens larvae. Tissues include head (HE), foregut (FG), midgut (MG), hindgut (HG), Malpighian tubules (MT) and carcass (CA). Relative expression levels were calculated based on the lowest expression value, which was ascribed an arbitrary value of 1. Results are shown as the mean ± SE

Fig. 1 in Molecular and physiological characterization of the chitin synthase B gene isolated from CUlex pipieNS palleNS (Diptera: Culicidae)

Fig. 1 Alignment of the conserved catalytic domain of chitin synthases from three mosquito species Seven characteristic motifs (M1–M7) in insect chitin synthases are highlighted. Dashes are used to denote gaps introduced to maximise alignment. Abbreviations: Ae, Aedes aegypti; Ag, Anopheles gambiae; Cp, Culex pipiens pallens

opencc-zeroJun 2024View details →

Data from: In vitro to in vivo extrapolation from three-dimensional hiPSC-derived cardiac microtissues and physiologically based pharmacokinetic modeling to inform next-generation arrythmia risk assessment

Proarrhythmic cardiotoxicity remains a substantial barrier to drug development as well as a major global health challenge. In vitro human pluripotent stem cell-based new approach methodologies have been increasingly proposed and employed as alternatives to existing in vitro and in vivo models that do not accurately recapitulate human cardiac electrophysiology or cardiotoxicity risk. In this study, we expanded the capacity of our previously established three-dimensional human cardiac microtissue model to perform quantitative risk assessment by combining it with a physiologically based pharmacokinetic model, allowing a direct comparison of potentially harmful concentrations predicted in vitro to in vivo therapeutic levels. This approach enabled the measurement of concentration responses and margins of exposure for two physiologically relevant metrics of proarrhythmic risk (i.e., action potential duration and triangulation assessed by optical mapping) across concentrations spanning three orders of magnitude. The combination of both metrics enabled accurate proarrhythmic risk assessment of four compounds with a range of known proarrhythmic risk profiles (i.e., quinidine, cisapride, ranolazine, and verapamil) and demonstrated close agreement with their known clinical effects. Action potential triangulation was found to be a more sensitive metric for predicting proarrhythmic risk associated with the primary mechanism of concern for pharmaceutical-induced fatal ventricular arrhythmias, delayed cardiac repolarization due to inhibition of the rapid delayed rectifier potassium channel, or hERG channel. This study advances human induced pluripotent stem cell-based three-dimensional cardiac tissue models as new approach methodologies that enable in vitro proarrhythmic risk assessment with high precision of quantitative metrics for understanding clinically relevant cardiotoxicity.

opencc-by-4.0Dec 2014View details →

Fig. 2 in Fishing bait worm supplies in Japan in relation to their physiological traits

Fig. 2. Schematic representation of inhabitable salinity range of imported worms. The inhabitable range of salinity was evaluated from the 100 % survival of individuals after 5 days.

opencc-by-4.0Nov 2022View details →

Figure 1 in Crop physiological considerations for combining variable-density planting to optimize seed costs and weed suppression

Figure 1. Schematic representation of (A) an aerial image using an unmanned aerial vehicle (UAV) to scout fields in year 1, (B) detection of areas of high (orange) and low (yellow) weed density in year 1, and (C) implementation of year 1 weed maps to calibrate precision planter to plant in high (red) and low (green) crop densities in year 2.

opencc-by-4.0Nov 2022View details →

Figure 2 in Crop physiological considerations for combining variable-density planting to optimize seed costs and weed suppression

Figure 2. Schematic diagram representing the workflow process of the area planting optimization model. The graph on the bottom left corresponds to low-density planting yields of maize (red circles, solid line, y = 288.5 − 2.07x), cotton (gray triangles, dashed line, y = 176 − 1.58x), and soybean (blue squares, dotted line, y = 86.5 − 0.70x) in g seed−1.

opencc-by-4.0Sep 2013View details →

Fig. 3 in Physiological effects of gasoline on the freshwater fish Prochilodus lineatus (Characiformes: Prochilodontidae)

Fig. 3. Plasma osmolarity (a) and concentrations of Na+ (b), K+ (c) and Cl- (d) of Prochilodus lineatus exposed to WSFG (EXP) or only to water (CTR) for 6, 24 and 96h. Data are means ± SEM (n = 10-13), asterisks indicate different from respective control (P <0.05).

opencc-by-4.0Sep 2013View details →

Fig. 4 in Physiological effects of gasoline on the freshwater fish Prochilodus lineatus (Characiformes: Prochilodontidae)

Fig. 4. Immunohistochemistry location of the Na+/K+- ATPase enzyme in the chloride cells (CC) of P. lineatus exposed to only to water (a) or WSFG (b) for 24h. Original magnification: 400 X.