cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23810577
title: Turtle species and ecology drive carapace microbiome diversity in three seasonally interconnected wetland habitats

description: Supporting data for 'Turtle species and ecology drive carapace microbiome diversity in three seasonally interconnected wetland habitats'.R Markdowns for Statistical Analyses for 16S and 18S Carapace Communities. These pdf R markdown files contain full details of statistical analyses for both 16S and 18S metabarcoding datasets.
DOI: 10.6084/m9.figshare.23810577.v1
title: Turtle species and ecology drive carapace microbiome diversity in three seasonally interconnected wetland habitats

description: Supporting data for 'Turtle species and ecology drive carapace microbiome diversity in three seasonally interconnected wetland habitats'.R Markdowns for Statistical Analyses for 16S and 18S Carapace Communities. These pdf R markdown files contain full details of statistical analyses for both 16S and 18S metabarcoding datasets.
DOI: 10.5281/zenodo.8225295
title: Pinus pinea cone, seed and pine nut morphometry and health

description: Seven plantations were monitored in winters of the 2010-2020 period, except for 2016. Ten healthy 3-year-old cones were randomly harvested per plantation each year, following former study [28]; in few years the number of collected cones was lower than 10 due to harvesting complexities. Cones were collected from different trees and immediately weighed (fresh weight), as indicated by several authors. Harvested cones were processed at INFOR’s laboratory to extract seeds (in-shell pine nuts) and pine nuts (kernels) each year, totaling 560 cones in the study period. Seed number per cone was counted and seed and pine nuts were weighed and measured in the laboratory. Empty and damaged seeds were also quantified to monitor cone health.
DOI: 10.5281/zenodo.8225294
title: Pinus pinea cone, seed and pine nut morphometry and health

description: Seven plantations were monitored in winters of the 2010-2020 period, except for 2016. Ten healthy 3-year-old cones were randomly harvested per plantation each year, following former study [28]; in few years the number of collected cones was lower than 10 due to harvesting complexities. Cones were collected from different trees and immediately weighed (fresh weight), as indicated by several authors. Harvested cones were processed at INFOR’s laboratory to extract seeds (in-shell pine nuts) and pine nuts (kernels) each year, totaling 560 cones in the study period. Seed number per cone was counted and seed and pine nuts were weighed and measured in the laboratory. Empty and damaged seeds were also quantified to monitor cone health.
DOI: 10.25934/pr00004874.3
title: Available IPD datapackage for study 'A Multicenter, Randomized, Double-blind, Placebo-controlled Trial of Golimumab, an Anti-TNFα Monoclonal Antibody, Administered Intravenously, in Subjects With Active Ankylosing Spondylitis'

description: The purpose of this study is to evaluate the efficacy of intravenously (administration of a fluid into the vein) administered golimumab 2 milligram per kilogram (mg/kg) in participants with active ankylosing spondylitis (chronic inflammatory disease of unknown etiology that involves the sacroiliac joints, and often the axial skeleton, entheses, and peripheral joints).
DOI: 10.5281/zenodo.8225291
title: Results, figures and code for phuEGO manuscript

description: This upload contains everything needed to reproduce the results of the manuscript: https://www.biorxiv.org/content/10.1101/2023.08.07.552249v1
DOI: 10.5281/zenodo.8225290
title: Results, figures and code for phuEGO manuscript

description: This upload contains everything needed to reproduce the results of the manuscript: https://www.biorxiv.org/content/10.1101/2023.08.07.552249v1
DOI: 10.6084/m9.figshare.23905845
title: CONHYD-D-23-00130_data.zip

description: INPUT and HEAD files used in UTCHEM to model the PCE oxidation with Tween 80 enhanced permanganate in silica sandExperimental data of PCE oxidation experiments performed in silica sand and natural calcareous soil
DOI: 10.6084/m9.figshare.23905866.v1
title: Untitled Item

description: supplementary data and source data for "<b>Transitioning to healthy and sustainable diets has high environmental and affordability trade-offs for developing countries</b>"
DOI: 10.25345/c5m03z74w
title: MassIVE MSV000092618 - untargeted metabolomics analysis of WT vs ACOT-15 exo-metabolome (C. elegans)
title: This study focuses on the untargeted analysis of the exo-metabolome of both WT and acot-15 mutant C. elegans worms.
DOI: 10.5281/zenodo.8222696
title: Dataset for Deep learning solutions for mapping contour levee rice production systems from very high resolution imagery

description: This dataset contains the two datasets detailed in "Deep learning solutions for mapping contour levee rice production systems from very high resolution imagery" by D.S. Dale Et al. (2023). The file "LonokeComplete.zip" file contains 16 .lif files that were used in the training and testing phase of the study. The "55tilesComplete.zip" file contains 110 .tif files (55 image and 55 label). These images were used to assess the models spatial transferability. Both file configurations are processed by the code linked in the paper.
description: Supported in Part by NASA Water Resources Award 80NSSC22K0923 and U.S. Geological Survey under Cooperative Agreement G20AC00448 and G21AC10729.
description: {"references": ["DS Dale Et al., 2023"]}
DOI: 10.5281/zenodo.8222695
title: Dataset for Deep learning solutions for mapping contour levee rice production systems from very high resolution imagery

description: This dataset contains the two datasets detailed in "Deep learning solutions for mapping contour levee rice production systems from very high resolution imagery" by D.S. Dale Et al. (2023). The file "LonokeComplete.zip" file contains 16 .lif files that were used in the training and testing phase of the study. The "55tilesComplete.zip" file contains 110 .tif files (55 image and 55 label). These images were used to assess the models spatial transferability. Both file configurations are processed by the code linked in the paper.
description: Supported in Part by NASA Water Resources Award 80NSSC22K0923 and U.S. Geological Survey under Cooperative Agreement G20AC00448 and G21AC10729.
description: {"references": ["DS Dale Et al., 2023"]}
DOI: 10.5281/zenodo.8039526
title: The functions of cholera toxin subunit B as a modulator of silica nanoparticle endocytosis

description: The gastrointestinal tract is the main target of orally ingested nanoparticles (NPs) and at 9 the same time exposed to noxious substances, such as bacterial components. We investigated the 10 interaction of 59 nm silica (SiO2) NPs with differentiated Caco-2 intestinal epithelial cells in the pres-11 ence of cholera toxin subunit B (CTxB) and compared the effects to J774A.1 macrophages. CTxB can 12 affect cellular functions and modulate endocytosis via binding to the monosialoganglioside (GM1) 13 receptor, expressed on both cell lines. After stimulating macrophages with CTxB, we observed no-14 table changes in the membrane structure but not in Caco-2 cells and no secretion of the pro-inflam-15 matory cytokine TNF-α was detected. Cells were then exposed to 59 nm SiO2 NPs and CtxB sequen-16 tially and simultaneously, resulting in a high NPs uptake in J774A.1 cells but no uptake in Caco-2 17 cells was detected. Flow cytometry analysis revealed that exposure of J774A.1 cells to CTxB resulted 18 in a significant reduction in the uptake of SiO2 NPs. In contrast, the uptake of NPs by highly selective 19 Caco-2 cells remained unaffected following CTxB exposure. Based on colocalization studies, CTxB 20 and NPs might enter cells via shared endocytic pathways, followed by their sorting into different 21 intracellular compartments. Our findings provide new insights into the CTxB function to modulate 22 SiO2 NPs uptake in phagocytic but not in differentiated intestine cells.
DOI: 10.5281/zenodo.8039525
title: The functions of cholera toxin subunit B as a modulator of silica nanoparticle endocytosis

description: The gastrointestinal tract is the main target of orally ingested nanoparticles (NPs) and at 9 the same time exposed to noxious substances, such as bacterial components. We investigated the 10 interaction of 59 nm silica (SiO2) NPs with differentiated Caco-2 intestinal epithelial cells in the pres-11 ence of cholera toxin subunit B (CTxB) and compared the effects to J774A.1 macrophages. CTxB can 12 affect cellular functions and modulate endocytosis via binding to the monosialoganglioside (GM1) 13 receptor, expressed on both cell lines. After stimulating macrophages with CTxB, we observed no-14 table changes in the membrane structure but not in Caco-2 cells and no secretion of the pro-inflam-15 matory cytokine TNF-α was detected. Cells were then exposed to 59 nm SiO2 NPs and CtxB sequen-16 tially and simultaneously, resulting in a high NPs uptake in J774A.1 cells but no uptake in Caco-2 17 cells was detected. Flow cytometry analysis revealed that exposure of J774A.1 cells to CTxB resulted 18 in a significant reduction in the uptake of SiO2 NPs. In contrast, the uptake of NPs by highly selective 19 Caco-2 cells remained unaffected following CTxB exposure. Based on colocalization studies, CTxB 20 and NPs might enter cells via shared endocytic pathways, followed by their sorting into different 21 intracellular compartments. Our findings provide new insights into the CTxB function to modulate 22 SiO2 NPs uptake in phagocytic but not in differentiated intestine cells.
DOI: 10.5281/zenodo.3957809
title: Increased uptake of silica nanoparticles in inflamed macrophages but not upon co-exposure to micron-sized particles

description: Silica nanoparticles (NPs) are widely used in various industrial and biomedical applications. Little is known about the cellular uptake of co-exposed silica particles, as can be expected in our daily life. In addition, an inflamed microenvironment might affect a NP’s uptake and a cell’s physiological response. Herein, prestimulated mouse J774A.1 macrophages with bacterial lipopolysaccharide were post-exposed to micron- and nanosized silica particles, either alone or together, i.e., simultaneously or sequentially, for different time points. The results indicated a morphological change and increased expression of tumor necrosis factor alpha in lipopolysaccharide prestimulated cells, suggesting a M1-polarization phenotype. Confocal laser scanning microscopy revealed the intracellular accumulation and uptake of both particle types for all exposure conditions. A flow cytometry analysis showed an increased particle uptake in lipopolysaccharide prestimulated macrophages. However, no differences were observed in particle uptakes between single- and co-exposure conditions. We did not observe any colocalization between the two silica (SiO<sub>2</sub>) particles. However, there was a positive colocalization between lysosomes and nanosized silica but only a few colocalized events with micro-sized silica particles. This suggests differential intracellular localizations of silica particles in macrophages and a possible activation of distinct endocytic pathways. The results demonstrate that the cellular uptake of NPs is modulated in inflamed macrophages but not in the presence of micron-sized particles.
DOI: 10.5281/zenodo.3957810
title: Increased uptake of silica nanoparticles in inflamed macrophages but not upon co-exposure to micron-sized particles

description: Silica nanoparticles (NPs) are widely used in various industrial and biomedical applications. Little is known about the cellular uptake of co-exposed silica particles, as can be expected in our daily life. In addition, an inflamed microenvironment might affect a NP’s uptake and a cell’s physiological response. Herein, prestimulated mouse J774A.1 macrophages with bacterial lipopolysaccharide were post-exposed to micron- and nanosized silica particles, either alone or together, i.e., simultaneously or sequentially, for different time points. The results indicated a morphological change and increased expression of tumor necrosis factor alpha in lipopolysaccharide prestimulated cells, suggesting a M1-polarization phenotype. Confocal laser scanning microscopy revealed the intracellular accumulation and uptake of both particle types for all exposure conditions. A flow cytometry analysis showed an increased particle uptake in lipopolysaccharide prestimulated macrophages. However, no differences were observed in particle uptakes between single- and co-exposure conditions. We did not observe any colocalization between the two silica (SiO<sub>2</sub>) particles. However, there was a positive colocalization between lysosomes and nanosized silica but only a few colocalized events with micro-sized silica particles. This suggests differential intracellular localizations of silica particles in macrophages and a possible activation of distinct endocytic pathways. The results demonstrate that the cellular uptake of NPs is modulated in inflamed macrophages but not in the presence of micron-sized particles.
DOI: 10.5281/zenodo.8222166
title: Increased uptake of silica nanoparticles in inflamed macrophages but not upon co-exposure to micron-sized particles

description: Silica nanoparticles (NPs) are widely used in various industrial and biomedical applications. Little is known about the cellular uptake of co-exposed silica particles, as can be expected in our daily life. In addition, an inflamed microenvironment might affect a NP’s uptake and a cell’s physiological response. Herein, prestimulated mouse J774A.1 macrophages with bacterial lipopolysaccharide were post-exposed to micron- and nanosized silica particles, either alone or together, i.e., simultaneously or sequentially, for different time points. The results indicated a morphological change and increased expression of tumor necrosis factor alpha in lipopolysaccharide prestimulated cells, suggesting a M1-polarization phenotype. Confocal laser scanning microscopy revealed the intracellular accumulation and uptake of both particle types for all exposure conditions. A flow cytometry analysis showed an increased particle uptake in lipopolysaccharide prestimulated macrophages. However, no differences were observed in particle uptakes between single- and co-exposure conditions. We did not observe any colocalization between the two silica (SiO<sub>2</sub>) particles. However, there was a positive colocalization between lysosomes and nanosized silica but only a few colocalized events with micro-sized silica particles. This suggests differential intracellular localizations of silica particles in macrophages and a possible activation of distinct endocytic pathways. The results demonstrate that the cellular uptake of NPs is modulated in inflamed macrophages but not in the presence of micron-sized particles.
DOI: 10.34740/kaggle/dsv/6203618
title: Antidepressants: Bottled Sunshine ?
DOI: 10.6084/m9.figshare.22257433.v1
title: Origins of Ebola disease Outbreaks

description: These files contain the data for the original article: The Changing Origins of Ebola disease Outbreaks By Seth D. Judson MD, Vincent J. Munster PhD <br>
DOI: 10.5281/zenodo.8136902
title: animal soup sample data for tests

description: sample data for animal soup tests
DOI: 10.5281/zenodo.8144809
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8172852
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8178625
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8178778
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8197672
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8205718
title: animal soup sample data and ground truth data for tests

description: sample data and ground truth files for animal soup tests
DOI: 10.5281/zenodo.8136901
title: animal soup sample data, ground truth dataset, and pre-trained models

description: - sample data and ground truth files for animal soup tests - pre-trained models
DOI: 10.5281/zenodo.8216151
title: animal soup sample data, ground truth dataset, and pre-trained models

description: - sample data and ground truth files for animal soup tests - pre-trained models
DOI: 10.5281/zenodo.8225385
title: animal soup sample data, ground truth dataset, and pre-trained models

description: - sample data and ground truth files for animal soup tests - pre-trained models
DOI: 10.5281/zenodo.8219342
title: Klang Valley MATLAB codes and data sets

description: These are the extended SEIR model codes to simulate the ten-compartmental behavior, and optimization of the model for the time frame of 1st October to 31st January in Klang Valley, Malaysia.
DOI: 10.5281/zenodo.8219341
title: Klang Valley MATLAB codes and data sets

description: These are the extended SEIR model codes to simulate the ten-compartmental behavior, and optimization of the model for the time frame of 1st October to 31st January in Klang Valley, Malaysia.
DOI: 10.5281/zenodo.8184010
title: A trait-based approach to both forestry and timber building can synchronize forest harvest and resilience: Supporting data

description: <strong>Input files</strong> and <strong>trait data </strong>used in the associated paper. They can be used to reproduce the results of the study. The model documentation is freely available at https://www.landis-ii.org/ The LANDIS-II code is distributed under an open source license at https://github.com/LANDIS-II-Foundation. If interested in using this dataset for a research study or project, please contact Peter Osborne --------------------- ABSTRACT: Along with forest managers, builders are key change agents of forest ecosystems' structure and composition through the specification and use of wood products. New forest management approaches are being advocated to increase the resilience and adaptability of forests to climate change and other natural disturbances. Such approaches call for a diversification of our forests based on species' functional traits that will dramatically change the harvested species composition, volume and output of our forested landscapes. This calls for the wood-building industry to adapt its ways of operating. Accordingly, we expand the evaluation of the ecological resilience of forest ecosystems based on functional diversification to include a trait-based approach to building with wood. This trait-based plant-building framework can illustrate how forecasted forest changes in the coming decades may impact and guide decisions about wood-building practices, policies and specifications. We apply this approach using a fragmented rural landscape in temperate southeastern Canada. We link seven functional groups based on the ecological traits of tree species in the region to a similar functional grouping of building traits to characterize the push and pull of managing forests and wood buildings together. We relied on a process-based forest landscape model to simulate long-term forest dynamics and timber harvesting to evaluate how various novel management approaches will interact with the changing global environment to affect the forest-building relationships. Our results suggest that adopting a whole system, plant-building approach to forests and wood buildings is key to enhancing forest ecological and timber construction industry resilience.
DOI: 10.5281/zenodo.8184009
title: A trait-based approach to both forestry and timber building can synchronize forest harvest and resilience: Supporting data

description: <strong>Input files</strong> and <strong>trait data </strong>used in the associated paper. They can be used to reproduce the results of the study. The model documentation is freely available at https://www.landis-ii.org/ The LANDIS-II code is distributed under an open source license at https://github.com/LANDIS-II-Foundation. If interested in using this dataset for a research study or project, please contact Peter Osborne --------------------- ABSTRACT: Along with forest managers, builders are key change agents of forest ecosystems' structure and composition through the specification and use of wood products. New forest management approaches are being advocated to increase the resilience and adaptability of forests to climate change and other natural disturbances. Such approaches call for a diversification of our forests based on species' functional traits that will dramatically change the harvested species composition, volume and output of our forested landscapes. This calls for the wood-building industry to adapt its ways of operating. Accordingly, we expand the evaluation of the ecological resilience of forest ecosystems based on functional diversification to include a trait-based approach to building with wood. This trait-based plant-building framework can illustrate how forecasted forest changes in the coming decades may impact and guide decisions about wood-building practices, policies and specifications. We apply this approach using a fragmented rural landscape in temperate southeastern Canada. We link seven functional groups based on the ecological traits of tree species in the region to a similar functional grouping of building traits to characterize the push and pull of managing forests and wood buildings together. We relied on a process-based forest landscape model to simulate long-term forest dynamics and timber harvesting to evaluate how various novel management approaches will interact with the changing global environment to affect the forest-building relationships. Our results suggest that adopting a whole system, plant-building approach to forests and wood buildings is key to enhancing forest ecological and timber construction industry resilience.
DOI: 10.5519/qd.yi9bjrb2
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (19 records)
DOI: 10.5066/p9y7zh24
title: Mountain Plover population and habitat assessments in Texas, 2019&amp;ndash;2020

description: We conducted population and habitat assessments for Mountain Plovers in Texas during winters of 2019 and 2020. We used roadside surveys and distance-sampling to estimate bird density and calculate population totals for the study area, which included parts of five ecoregions (Chihuahuan Deserts, High Plains, Central Great Plains, Southern Texas Plains, Texas Blackland Prairies, and Western Gulf Coastal Plain). In 2019, we surveyed 103 transects along 3,032 km (1,884 mi) and, in 2020, we surveyed 152 transects along 4,985 km (3,098 mi). When driving along transects, we stopped every 3.2 km (2 mi) to assess habitat conditions (vegetation height, vegetation density, etc.) and land cover (National Land Cover Database categories).
DOI: 10.34740/kaggle/dsv/6270447
title: Mahanagar Yatayat Transport Dataset
DOI: 10.5281/zenodo.8225392
title: Data sets for "On new two-dimensional UHF radar observations of equatorial spread F at the Jicamarca Radio Observatory" by Rodrigues et al.

description: AMISR-14 data set used in the study entitled "On new two-dimensional UHF radar observations of equatorial spread F at the Jicamarca Radio Observatory" by Rodrigues et al. and published by Earth, Planets and Space, doi: 10.1186/s40623-023-01876-7.
DOI: 10.5281/zenodo.8225391
title: Data sets for "On new two-dimensional UHF radar observations of equatorial spread F at the Jicamarca Radio Observatory" by Rodrigues et al.

description: AMISR-14 data set used in the study entitled "On new two-dimensional UHF radar observations of equatorial spread F at the Jicamarca Radio Observatory" by Rodrigues et al. and published by Earth, Planets and Space, doi: 10.1186/s40623-023-01876-7.
DOI: 10.5519/qd.va10bpw5
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (2827 records)