cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7731308
title: Uptake and molecular impact of aluminum-containing nanomaterials on human intestinal caco-2 cells

description: Aluminum (Al) is one of the most common elements in the earth crust and increasingly used in food, consumer products and packaging. Its hazard potential for humans is still not completely understood. Besides the metallic form, Al also exists as mineral, including the insoluble oxide, and in soluble ionic forms. Representatives of these three species, namely a metallic and an oxidic species of Al-containing nanoparticles and soluble aluminum chloride, were applied to human intestinal cell lines as models for the intestinal barrier. We characterized physicochemical particle parameters, protein corona composition, ion release and cellular uptake. Different <i>in vitro</i> assays were performed to determine potential effects and molecular modes of action related to the individual chemical species. For a deeper insight into signaling processes, microarray transcriptome analyses followed by bioinformatic data analysis were employed. The particulate Al species showed different solubility in biological media. Metallic Al nanoparticles released more ions than Al<sub>2</sub>O<sub>3</sub> nanoparticles, while AlCl<sub>3</sub> showed a mixture of dissolved and agglomerated particulate entities in biological media. The protein corona composition differed between both nanoparticle species. Cellular uptake, investigated in transwell experiments, occurred predominantly in particulate form, whereas ionic Al was not taken up by intestinal cell lines. Transcellular transport was not observed. None of the Al species showed cytotoxic effects up to 200 µg Al/mL. The transcriptome analysis indicated mainly effects on oxidative stress pathways, xenobiotic metabolism and metal homeostasis. We have shown for the first time that intestinal cellular uptake of Al occurs preferably in the particle form, while toxicological effects appear to be ion-related.
DOI: 10.6084/m9.figshare.7731308.v1
title: Uptake and molecular impact of aluminum-containing nanomaterials on human intestinal caco-2 cells

description: Aluminum (Al) is one of the most common elements in the earth crust and increasingly used in food, consumer products and packaging. Its hazard potential for humans is still not completely understood. Besides the metallic form, Al also exists as mineral, including the insoluble oxide, and in soluble ionic forms. Representatives of these three species, namely a metallic and an oxidic species of Al-containing nanoparticles and soluble aluminum chloride, were applied to human intestinal cell lines as models for the intestinal barrier. We characterized physicochemical particle parameters, protein corona composition, ion release and cellular uptake. Different <i>in vitro</i> assays were performed to determine potential effects and molecular modes of action related to the individual chemical species. For a deeper insight into signaling processes, microarray transcriptome analyses followed by bioinformatic data analysis were employed. The particulate Al species showed different solubility in biological media. Metallic Al nanoparticles released more ions than Al<sub>2</sub>O<sub>3</sub> nanoparticles, while AlCl<sub>3</sub> showed a mixture of dissolved and agglomerated particulate entities in biological media. The protein corona composition differed between both nanoparticle species. Cellular uptake, investigated in transwell experiments, occurred predominantly in particulate form, whereas ionic Al was not taken up by intestinal cell lines. Transcellular transport was not observed. None of the Al species showed cytotoxic effects up to 200 µg Al/mL. The transcriptome analysis indicated mainly effects on oxidative stress pathways, xenobiotic metabolism and metal homeostasis. We have shown for the first time that intestinal cellular uptake of Al occurs preferably in the particle form, while toxicological effects appear to be ion-related.
DOI: 10.7284/127428
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AR23-02 using a Hawaii UHDAS instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731230
title: Data of Brine Shrimp Cytotoxicity assay.xlsx

description: <b> </b>The cytotoxicity of methanol extract of C. amboinicus CA was conducted using Brine Shrimp Lethality Assay (BSLA).the LC<sub>50</sub> value of methanol extract of CA was fallen to its criteria and indicated the presence of potent cytotoxic compounds and probably antitumor agents in the methanol extract of CA.<br> Brine Shrimp Lethality Assay has been suggested as a valid method of evaluation of cytotoxicity and it can be extrapolated for cell lines toxicity and tumor activity
DOI: 10.6084/m9.figshare.7731236.v2
title: Diagnostic value of the urine TB-LAM assay in ambulatory HIV-positive patients with CD4 below 200 cells/µL in two low-resource settings: a prospective observational study.

description: Dataset from a prospective study that aimed to evaluate the diagnostic yield of including LAM in the TB diagnostic algorithms in HIV-positive ambulatory patients with CD4&lt;200 cells/µL in two low-resource settings. The study also assessed the risk of mortality in LAM-positive patients who were not diagnosed using other diagnostic tools and not treated for TB. <br>
DOI: 10.6084/m9.figshare.7731236.v1
title: Value of the urine LAM assay to diagnose tuberculosis in ambulatory HIV-positive patients with CD4 below 200 cells/µL

description: Urine LAM to diagnose tuberculosis in ambulatory HIV-positive patients with CD4 below 200 cells/µL in two low-resource settings, a prospective observational study.
DOI: 10.7284/127419
title: Fluorometer data collected during research cruise AR23-02 using a WET Labs WETStar instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731218
title: Prion-dependent proteome remodeling in response to environmental stress is modulated by prion variant and genetic background

description: A number of fungal proteins are capable of adopting multiple alternative, self-perpetuating prion conformations. These prion variants are associated with functional alterations of the prion-forming protein and thus the generation of new, heritable traits that can be detrimental or beneficial. Here we sought to determine the extent to which the previously-reported ZnCl<sub>2</sub>-sensitivity trait of yeast harboring the [<i>PSI</i><sup>+</sup>] prion is modulated by genetic background and prion variant, and whether this trait is accompanied by prion-dependent proteomic changes that could illuminate its physiological basis. We also examined the degree to which prion variant and genetic background influence other prion-dependent phenotypes. We found that ZnCl<sub>2</sub> exposure not only reduces colony growth but also limits chronological lifespan of [<i>PSI</i><sup>+</sup>] relative to [<i>psi</i><sup>−</sup>] cells. This reduction in viability was observed for multiple prion variants in both the S288C and W303 genetic backgrounds. Quantitative proteomic analysis revealed that under exposure to ZnCl<sub>2</sub> the expression of stress response proteins was elevated and the expression of proteins involved in energy metabolism was reduced in [<i>PSI</i><sup>+</sup>] relative to [<i>psi</i><sup>−</sup>] cells. These results suggest that cellular stress and slowed growth underlie the phenotypes we observed. More broadly, we found that prion variant and genetic background modulate prion-dependent changes in protein abundance and can profoundly impact viability in diverse environments. Thus, access to a constellation of prion variants combined with the accumulation of genetic variation together have the potential to substantially increase phenotypic diversity within a yeast population, and therefore to enhance its adaptation potential in changing environmental conditions.
DOI: 10.6084/m9.figshare.7731218.v1
title: Prion-dependent proteome remodeling in response to environmental stress is modulated by prion variant and genetic background

description: A number of fungal proteins are capable of adopting multiple alternative, self-perpetuating prion conformations. These prion variants are associated with functional alterations of the prion-forming protein and thus the generation of new, heritable traits that can be detrimental or beneficial. Here we sought to determine the extent to which the previously-reported ZnCl<sub>2</sub>-sensitivity trait of yeast harboring the [<i>PSI</i><sup>+</sup>] prion is modulated by genetic background and prion variant, and whether this trait is accompanied by prion-dependent proteomic changes that could illuminate its physiological basis. We also examined the degree to which prion variant and genetic background influence other prion-dependent phenotypes. We found that ZnCl<sub>2</sub> exposure not only reduces colony growth but also limits chronological lifespan of [<i>PSI</i><sup>+</sup>] relative to [<i>psi</i><sup>−</sup>] cells. This reduction in viability was observed for multiple prion variants in both the S288C and W303 genetic backgrounds. Quantitative proteomic analysis revealed that under exposure to ZnCl<sub>2</sub> the expression of stress response proteins was elevated and the expression of proteins involved in energy metabolism was reduced in [<i>PSI</i><sup>+</sup>] relative to [<i>psi</i><sup>−</sup>] cells. These results suggest that cellular stress and slowed growth underlie the phenotypes we observed. More broadly, we found that prion variant and genetic background modulate prion-dependent changes in protein abundance and can profoundly impact viability in diverse environments. Thus, access to a constellation of prion variants combined with the accumulation of genetic variation together have the potential to substantially increase phenotypic diversity within a yeast population, and therefore to enhance its adaptation potential in changing environmental conditions.
DOI: 10.7284/127427
title: GNSS (Global Navigation Satellite System) data collected during research cruise AR23-02 using a C&C C-Nav 3050 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731233.v2
title: Bilateral international migration flow estimates for 200 countries (1990-1995 to 2010-2015)

description: Update of estimates of international migration flows Abel & Cohen (2019) based on newly published WPP (WPP2019) demographic inputs by the United Nations. See Version 1 (link above) for estimates presented in the paper, based on WPP2017.<br><br>A description of the changes in the estimates can be found here<br>Note: I had previously uploaded this file as a separate figshare data set. Moved the file here, as an update so it is easier to follow the version numbers. <br><br>Data Details<br><br>Row for each migration corridor - period combination (200 origins x 200 destinations x 5 periods = 200,000).<br>year0 - first year of five year periodorig - origin ISO three letter country codedest - destination ISO three letter country<br> Columns for estimates based on the following migration flow estimation methods:<b><br>Stock Differencing Approaches:</b><br><br>sd_drop_neg - see for example Beine, M., Docquier, F., & Özden, Ç. (2011). Diasporas. Journal of Development Economics, 95(1), 30–41. https://doi.org/10.1016/j.jdeveco.2009.11.004<br><br>sd_rev_neg - see for example Beine, M., & Parsons, C. R. (2015). Climatic Factors as Determinants of International Migration. The Scandinavian Journal of Economics, 117(2), 723–767. https://doi.org/10.1111/sjoe.12098<br><br><b>Migration Rate Approach:</b><br><br>mig_rate - see Dennett, A. (2016). Estimating an Annual Time Series of Global Migration Flows - An Alternative Methodology for Using Migrant Stock Data. In Global Dynamics (pp. 125–142). Chichester, UK: John Wiley & Sons, Ltd. https://doi.org/10.1002/9781118937464.ch7<br><br><b>Demographic Accounting Approaches:</b><br><br>da_min_open - see Abel, G. J. (2013). Estimating global migration flow tables using place of birth data. Demographic Research, 28(March), 505–546. https://doi.org/10.4054/DemRes.2013.28.18<br><br>da_min_closed - see Abel, G. J. (2018). Estimates of Global Bilateral Migration Flows by Gender between 1960 and 2015. International Migration Review, (Fall), imre.12327. https://doi.org/10.1111/imre.12327<br><br>da_pb_closed - see Azose, J. J., & Raftery, A. E. (2018). Estimation of emigration, return migration, and transit migration between all pairs of countries. Proceedings of the National Academy of Sciences, 201722334. https://doi.org/10.1073/PNAS.1722334116<br>
DOI: 10.26180/5c6a56dc47411
title: Augmented Reality Map Navigation with Freehand Gestures - Transfer Function.pdf

description: The transfer function parameters used in Augmented Reality Map Navigation with Freehand Gestures study.
DOI: 10.6084/m9.figshare.7731191
title: SIGIR 2009-2018 Titles

description: Full paper titles, presented at ACM SIGIR 2009-2018 (ten years span)- including List of Countries by the first author's institutions, and List of frequent words from paper titles.
DOI: 10.7284/127429
title: Gravimeter data collected during research cruise AR23-02 using a Bell BGM-3 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731188
title: Modeling CO<sub>2</sub> absorption in aqueous solutions of DEA, MDEA, and DEA + MDEA based on intelligent methods

description: Removing CO<sub>2</sub> as an acidic-potential component from different gaseous flows is a main topic in different industries producing green-house gases, especially in natural gas sweetening units. A group of well-known absorbents for CO<sub>2</sub> are the amine solutions. The common amine compounds consisting di-ethanolamine (DEA), methyl-di-ethanolamine (MDEA), and their mixture in aqueous solution have been investigated in this study. The effort was to develop new models for estimation of CO<sub>2</sub> loading capacity of the presented amine solutions using genetic programing (GP) and stochastic gradient boosting (SGB) trees as two advanced and novel machine learning approaches in this area. A total of 175 sets of experimental data of CO<sub>2</sub> absorption including independent variables (temperature, CO<sub>2</sub> partial pressure, concentrations of DEA and MDEA in water) and objective function (CO<sub>2</sub> loading capacity) were collected from literature and fed to the mentioned algorithms (GP and SGB) as input dataset. Then, each algorithm was run over the dataset, separately and two new models were created. Finally, strict statistical evaluations were implemented to assess the estimating capability of the new models. The statistical parameters including correlation coefficients (<i>R</i><sup>2</sup> <sub>SGB</sub> = 0.99848 and <i>R</i><sup>2</sup> <sub>GP</sub> = 0.99087), root-mean-square deviations (RMSD<sub>SGB</sub> = 0.00903 mol/mol and RMSD<sub>GP</sub> = 0.02244 mol/mol) and average absolute relative deviations (AARD<sub>SGB</sub> = 0.95628% and AARD<sub>GP</sub> = 8.71909%) show that the utilized powerful algorithms have enhanced the applicability of the new developed models providing good` estimations in operational processes. Final results show superiority and more accuracy of the new SGB model for confident predictions in amine process.
DOI: 10.6084/m9.figshare.7731188.v1
title: Modeling CO<sub>2</sub> absorption in aqueous solutions of DEA, MDEA, and DEA + MDEA based on intelligent methods

description: Removing CO<sub>2</sub> as an acidic-potential component from different gaseous flows is a main topic in different industries producing green-house gases, especially in natural gas sweetening units. A group of well-known absorbents for CO<sub>2</sub> are the amine solutions. The common amine compounds consisting di-ethanolamine (DEA), methyl-di-ethanolamine (MDEA), and their mixture in aqueous solution have been investigated in this study. The effort was to develop new models for estimation of CO<sub>2</sub> loading capacity of the presented amine solutions using genetic programing (GP) and stochastic gradient boosting (SGB) trees as two advanced and novel machine learning approaches in this area. A total of 175 sets of experimental data of CO<sub>2</sub> absorption including independent variables (temperature, CO<sub>2</sub> partial pressure, concentrations of DEA and MDEA in water) and objective function (CO<sub>2</sub> loading capacity) were collected from literature and fed to the mentioned algorithms (GP and SGB) as input dataset. Then, each algorithm was run over the dataset, separately and two new models were created. Finally, strict statistical evaluations were implemented to assess the estimating capability of the new models. The statistical parameters including correlation coefficients (<i>R</i><sup>2</sup> <sub>SGB</sub> = 0.99848 and <i>R</i><sup>2</sup> <sub>GP</sub> = 0.99087), root-mean-square deviations (RMSD<sub>SGB</sub> = 0.00903 mol/mol and RMSD<sub>GP</sub> = 0.02244 mol/mol) and average absolute relative deviations (AARD<sub>SGB</sub> = 0.95628% and AARD<sub>GP</sub> = 8.71909%) show that the utilized powerful algorithms have enhanced the applicability of the new developed models providing good` estimations in operational processes. Final results show superiority and more accuracy of the new SGB model for confident predictions in amine process.
DOI: 10.7284/127420
title: Gyrocompass data collected during research cruise AR23-02 using a Sperry NAVIGAT X MK 1 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127425
title: Multibeam Echosounder data collected during research cruise AR23-02 using a Kongsberg EM122 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127426
title: Multibeam Echosounder data collected during research cruise AR23-02 using a Kongsberg EM710 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731161
title: Supplemental data and data sets for: Extracellular Na+ and Orai1 contribute to endothelial wound healing (Xu et al)

description: Endothelial migration is necessary for wound healing and angiogenesis. Na<sup>+</sup> has been incriminated as an important cellular signal mediating migration, although the ion channels regulating Na<sup>+</sup> permeation that contribute to migration remain poorly understood. We have shown that Orai1 suppresses both constitutive Na<sup>+</sup> leak and Na<sup>+</sup> entry through store-operated calcium entry channels. Here, we examine the independent and combined contributions of extracellular Na<sup>+</sup> and Orai1 to pulmonary artery endothelial cell (PAEC) wound healing. We found that PAEC monolayers migrated into wound areas and achieved confluence within 24 hours post-scratch. There was a fast healing phase within 5 hours, followed by a slow-healing phase between 5 and 24 hours. Na<sup>+</sup> depletion reduced migration speed by at least 50%. Fewer cells at the migration front formed prominent lamellipodia. Some cells at the leading edge gradually detached from the monolayer. Reduction of Orai1 decreased wound closure speed by 25% within 6 hours. This Orai1-dependence was absent in Na<sup>+</sup>-depleted media and after 6 hours. In a non-scratch cell migration assay, the gap areas were partially sealed within 24 hours. Migration speed was reduced by 75% when extracellular Na<sup>+</sup> was replaced by choline. Orai1 did not contribute to non-scratch cell migration, but extracellular Na<sup>+</sup> did. Overall, extracellular Na<sup>+</sup> and Orai1 together acutely regulate endothelial wound healing. Extracellular Na<sup>+</sup> continuously contributes to wound healing between 6 and 24 hours. Extracellular Na<sup>+</sup> but not Orai1 contributes to cell migration in the absence of injury. Orai1 may function as an injury sensor to acutely stimulate fast wound healing.
DOI: 10.7284/127423
title: Radiometer data collected during research cruise AR23-02 using a Biospherical QSR-2150 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7731161.v1
title: Supplemental data and data sets for: Extracellular Na+ and Orai1 contribute to endothelial wound healing (Xu et al)

description: Endothelial migration is necessary for wound healing and angiogenesis. Na<sup>+</sup> has been incriminated as an important cellular signal mediating migration, although the ion channels regulating Na<sup>+</sup> permeation that contribute to migration remain poorly understood. We have shown that Orai1 suppresses both constitutive Na<sup>+</sup> leak and Na<sup>+</sup> entry through store-operated calcium entry channels. Here, we examine the independent and combined contributions of extracellular Na<sup>+</sup> and Orai1 to pulmonary artery endothelial cell (PAEC) wound healing. We found that PAEC monolayers migrated into wound areas and achieved confluence within 24 hours post-scratch. There was a fast healing phase within 5 hours, followed by a slow-healing phase between 5 and 24 hours. Na<sup>+</sup> depletion reduced migration speed by at least 50%. Fewer cells at the migration front formed prominent lamellipodia. Some cells at the leading edge gradually detached from the monolayer. Reduction of Orai1 decreased wound closure speed by 25% within 6 hours. This Orai1-dependence was absent in Na<sup>+</sup>-depleted media and after 6 hours. In a non-scratch cell migration assay, the gap areas were partially sealed within 24 hours. Migration speed was reduced by 75% when extracellular Na<sup>+</sup> was replaced by choline. Orai1 did not contribute to non-scratch cell migration, but extracellular Na<sup>+</sup> did. Overall, extracellular Na<sup>+</sup> and Orai1 together acutely regulate endothelial wound healing. Extracellular Na<sup>+</sup> continuously contributes to wound healing between 6 and 24 hours. Extracellular Na<sup>+</sup> but not Orai1 contributes to cell migration in the absence of injury. Orai1 may function as an injury sensor to acutely stimulate fast wound healing.
DOI: 10.7284/127424
title: Radiometer data collected during research cruise AR23-02 using a Eppley RAD instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7730810
title: CCDB_1024.jpg

description: Optical section series through a protoplasmic astrocyte in rat hippocampal area CA1 intracellulaly injected Lucifer Yellow and imaged with confocal microscopy
DOI: 10.6084/m9.figshare.7730810.v1
title: CCDB_1024.jpg

description: Optical section series through a protoplasmic astrocyte in rat hippocampal area CA1 intracellulaly injected Lucifer Yellow and imaged with confocal microscopy
DOI: 10.7284/127422
title: Singlebeam Echosounder data collected during research cruise AR23-02 using a Knudsen 3260 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127418
title: Speedlog data collected during research cruise AR23-02 using a JRC JLN-550 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/127421
title: SSV (Sound Speed Velocimeter) data collected during research cruise AR23-02 using a AML SmartX P1S2 instrument system onboard the platform RV Neil Armstrong

description: Original (unprocessed) data collected during a Field_expedition