cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4579093
title: Probabilistic risk assessment for pedestrian–vehicle collision considering uncertainties of pedestrian mobility

description: <b>Objectives:</b> The uncertainties of pedestrian mobility are important factors affecting the accuracy and robustness of an active pedestrian protection system. This study is to provide the means for probabilistic risk evaluation of pedestrian–vehicle collision by counting the uncertainties in pedestrian motion. <b>Method:</b> The pedestrian is modeled by a first-order Markov model to characterize the stochastic properties in mobility according to field experiments of pedestrians crossing an uncontrolled road. Based on the assumption of Gaussian distribution, unscented transformation (UT) is employed to predict the collision risk probability with the symmetric σ-set constructed on the basis of discrete trajectory simulation. Simulation experiments were carried out with 10,000 Monte Carlo (MC) simulations as the reference. <b>Results:</b> The probability density distributions of time-to-collision, minimal distance, and collision probability estimated by UT coincide with the reference ones under various vehicle–pedestrian conflict scenarios, and the maximal deviation of collision probability from the reference is 5.33%. The UT method is about 600 times faster than the MC method (10,000 runs), which means that the proposed method has the potential for online application. <b>Conclusions:</b> This article presents an effective and efficient algorithm to estimate the collision probability by using a UT method to solve the nonlinear transformation of uncertainties in pedestrian motion. Simulation results show that the UT-based method achieves accurate collision probability estimation and higher computation efficiency than MC and provides more valuable information concerning collision avoidance than the deterministic methods in the design of a pedestrian collision avoidance system.
DOI: 10.6084/m9.figshare.4579021
title: Dataset and R code from “Aridity preferences alter the relative importance of abiotic and biotic drivers on plant species abundance in global drylands”

description: Zip file containing the dataset and R code used to perform the analyses described in “<b>Aridity preferences alter the relative importance of abiotic and biotic drivers on plant species abundance in global drylands</b><b></b>”<br>
DOI: 10.6084/m9.figshare.4579072.v1
title: Input data for 2017_ms_immunostim

description: Please note that this information accompanies the github code that explains the complete analysis, found at: https://github.com/bensutherland/2017_ms_immunostim<br><br>Input data files are to be put in the '02_raw_data' folder of the above git repo, and they include: 1) Physiology and lice count data: immunostim_data-jan21-15.csv<br>2) Lice qPCR input datanew-together_formatted-notdouble.txt<br><br>3) Salmon qPCR input datasalmon_qpcr-oct23-14-longform.csv<br><br>Interpretation files are to be put into the '00_archive' folder of the above git repo and they include:1) The interpretation file for the microarray analysis:Targets_2color_immunostim.csv<br><br>2) The control spots file for the microarray analysis:SpotTypes<br><br>3) The short form annotation file for the microarray analysis:koop_Lsal38K_2010-02-25b-short.txt<br><br>
DOI: 10.6084/m9.figshare.4578991
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: All data and code (ZIP)

description: All data and R code for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as a zipped directory.<br>
DOI: 10.6084/m9.figshare.4579093.v1
title: Probabilistic risk assessment for pedestrian-vehicle collision considering uncertainties of pedestrian mobility

description: <b>Objectives</b>: The uncertainties of pedestrian mobility are important factors affecting the accuracy and robustness of an active pedestrian protection system. This study is to provide the means for probabilistic risk evaluation of pedestrian-vehicle collision by counting the uncertainties in pedestrian motion. <b>Method</b>: The pedestrian is modeled by the first-order Markov model to characterize the stochastic properties in mobility according to the field experiments of pedestrians crossing uncontrolled road. Based on the assumption of Gaussian distribution, Unscented Transformation (UT) is employed to predict the collision risk probability with the symmetric σ-set constructed on the basis of discrete trajectory simulation. Simulation experiments were carried out with 10000 Monte Carlo (MC) simulations as the reference. <b>Results</b>: The probability density distributions of Time-To-collision, minimal distance and collision probability estimated by UT coincide with the reference ones under various vehicle-pedestrian conflict scenarios, and the maximal deviation of collision probability from the reference is 5.33%. The UT method is about 600 times faster than MC method (10000 runs), which means the proposed method is with the potential for online application. <b>Conclusions</b>: This paper presents an effective and efficient algorithm to estimate the collision probability by using UT method to solve the nonlinear transformation of uncertainties in pedestrian motion. Simulation results show that UT-based method achieves accurate collision probability estimation and higher computation efficiency than MC, and provides more valuable information concerning collision avoidance than the deterministic methods in the design of a pedestrian collision avoidance system.
DOI: 10.6084/m9.figshare.4578991.v1
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: All data and code (ZIP)

description: All data and R code for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as a zipped directory.<br>
DOI: 10.6084/m9.figshare.4578970
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Datasets

description: Data for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet).<br><br>ZIF_German_ls.csv: Lexical sophistication, German.<br>ZIF_French_ls.csv: Lexical sophistication, French.<br>ZIF_German_ld.csv: Lexical diversity, German.<br>ZIF_French_ld.csv: Lexical diversity, French.<br>
DOI: 10.6084/m9.figshare.4578985.v2
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Notebook

description: Compiled R code with comments for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet)<br>
DOI: 10.6084/m9.figshare.4578991.v2
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: All data and code (ZIP)

description: All data and R code for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as a zipped directory.<br>
DOI: 10.6084/m9.figshare.4578979.v2
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: R code

description: R code needed to reproduce all analyses in "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as well as some additional analyses. The compiled analysis report is available as "Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Notebook".<br>
DOI: 10.6084/m9.figshare.4578985.v3
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Notebook

description: Compiled R code with comments for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet)<br>
DOI: 10.6084/m9.figshare.4578904
title: Isotopes to assess sustainability of overexploited groundwater in the Souss–Massa system (Morocco)

description: Groundwater depletion and changes in isotopic and chemical contents constitute the main indicators of overexploitation, recharge, and flow paths in the Souss–Massa aquifer. These indicators highlight processes concerning sustainability of water resources in the aquifer (e.g. surface/groundwater interaction, recharge processes, and marine intrusion). The spatial variation of stable and radioactive isotopic contents indicates a mixing of modern and old water within the system. Recent recharge was observed mainly along the Souss River (the major surface-water drainage in the study area) and in the irrigated areas. Mapping of chemical and isotopic variation shows that the area is affected by abstraction, irrigation water return, and the evolution of modern recharge in time and space. The processes, distribution, and timing of groundwater flow are influenced by short- and long-term effects; long-term recharge is dependent on climatic conditions. This study can be used to make informed decisions about water-resource allocation and alternative management practices.
DOI: 10.6084/m9.figshare.4578970.v2
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Datasets

description: Data for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet).<br><br>ZIF_German_ls.csv: Lexical sophistication, German.<br>ZIF_French_ls.csv: Lexical sophistication, French.<br>ZIF_German_ld.csv: Lexical diversity, German.<br>ZIF_French_ld.csv: Lexical diversity, French.<br>
DOI: 10.6084/m9.figshare.4578991.v4
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: All data and code (ZIP)

description: All data and R code for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as a zipped directory.<br>
DOI: 10.6084/m9.figshare.4578970.v1
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: Datasets

description: Data for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet).<br><br>ZfG_German_ls.csv: Lexical sophistication, German.<br>ZfG_French_ls.csv: Lexical sophistication, French.<br>ZfG_German_ld.csv: Lexical diversity, German.<br>ZfG_French_ld.csv: Lexical diversity, French.<br>
DOI: 10.6084/m9.figshare.4578991.v3
title: Lexical diversity and sophistication in pupils with a Portuguese background in Switzerland: All data and code (ZIP)

description: All data and R code for "Die Entwicklung der lexikalischen Diversität und Elaboriertheit bei SchülerInnen mit portugiesischem Migrationshintergrund in der Schweiz" (Bonvin, Vanhove, Berthele & Lambelet) as a zipped directory.<br>
DOI: 10.6084/m9.figshare.4578877
title: Population structure reduces benefits from partner choice in mutualistic symbiosis - Mathematica code for numerical and simulation results

description: Mutualistic symbioses are key drivers of evolutionary and ecological processes. Understanding how different species can evolve to interact in mutually beneficial ways is an important goal of evolutionary theory, especially when the benefits require costly investments by the partners. For such costly investments to evolve, some sort of fitness feedback mechanism must exist that more than recoups the direct costs. Several such feedback mechanisms have been explored both theoretically and empirically, yet we know relatively little how they might act together, as they probably do in nature. In this paper, I model the joint action of three of the main mechanisms that can maintain interspecific cooperation in symbioses: partner choice by hosts, population structure amongst symbionts and undirected rewards from hosts to symbionts. The model shows that population structure reduces the benefit from partner choice to hosts. It may help or hinder beneficial symbionts and create positive or negative frequency dependence depending on the nature of host rewards to the symbiont. Strong population structure also makes it less likely that host choosiness and symbiont cooperation will be jointly maintained in a population. The intuition behind these results is that all else being equal, population structure reduces local variation available to the host to choose from. Thus, population structure is not always beneficial for the evolution of cooperation between species. These results also underscore the need to do full analyses of multiple mechanisms of social evolution to uncover the interactions between them.
DOI: 10.6084/m9.figshare.4578904.v2
title: Isotopes to assess sustainability of overexploited groundwater in the Souss–Massa system (Morocco)

description: Groundwater depletion and changes in isotopic and chemical contents constitute the main indicators of overexploitation, recharge, and flow paths in the Souss–Massa aquifer. These indicators highlight processes concerning sustainability of water resources in the aquifer (e.g. surface/groundwater interaction, recharge processes, and marine intrusion). The spatial variation of stable and radioactive isotopic contents indicates a mixing of modern and old water within the system. Recent recharge was observed mainly along the Souss River (the major surface-water drainage in the study area) and in the irrigated areas. Mapping of chemical and isotopic variation shows that the area is affected by abstraction, irrigation water return, and the evolution of modern recharge in time and space. The processes, distribution, and timing of groundwater flow are influenced by short- and long-term effects; long-term recharge is dependent on climatic conditions. This study can be used to make informed decisions about water-resource allocation and alternative management practices.
DOI: 10.6084/m9.figshare.4578877.v1
title: Population structure reduces benefits from partner choice in mutualistic symbiosis - Mathematica code for numerical and simulation results

description: Mutualistic symbioses are key drivers of evolutionary and ecological processes. Understanding how different species can evolve to interact in mutually beneficial ways is an important goal of evolutionary theory, especially when the benefits require costly investments by the partners. For such costly investments to evolve, some sort of fitness feedback mechanism must exist that more than recoups the direct costs. Several such feedback mechanisms have been explored both theoretically and empirically, yet we know relatively little how they might act together, as they probably do in nature. In this paper, I model the joint action of three of the main mechanisms that can maintain interspecific cooperation in symbioses: partner choice by hosts, population structure amongst symbionts and undirected rewards from hosts to symbionts. The model shows that population structure reduces the benefit from partner choice to hosts. It may help or hinder beneficial symbionts and create positive or negative frequency dependence depending on the nature of host rewards to the symbiont. Strong population structure also makes it less likely that host choosiness and symbiont cooperation will be jointly maintained in a population. The intuition behind these results is that all else being equal, population structure reduces local variation available to the host to choose from. Thus, population structure is not always beneficial for the evolution of cooperation between species. These results also underscore the need to do full analyses of multiple mechanisms of social evolution to uncover the interactions between them.
DOI: 10.6084/m9.figshare.4578853
title: Raw data for rat from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578850
title: Median data from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Median data for 4 species at 3 levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578853.v1
title: Raw data for rat from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578844
title: Raw data for mole rat from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO2
DOI: 10.6084/m9.figshare.4578847
title: Raw data for chicken from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578850.v1
title: Median data from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Median data for 4 species at 3 levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578841
title: Multiple comparisons from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Multiple comparisons of medians from 4 species at 3 levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578844.v1
title: Raw data for mole rat from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO2
DOI: 10.6084/m9.figshare.4578847.v1
title: Raw data for chicken from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578838
title: Raw data for human from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sup>2</sup>
DOI: 10.6084/m9.figshare.4578841.v1
title: Multiple comparisons from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Multiple comparisons of medians from 4 species at 3 levels of PCO<sub>2</sub>
DOI: 10.6084/m9.figshare.4578838.v1
title: Raw data for human from Evolutionary adaptation of the sensitivity of Connexin26 hemichannels to CO<sub>2</sub>

description: Pixel intensity values at 3 different levels of PCO<sup>2</sup>
DOI: 10.6084/m9.figshare.4578808
title: SiGNet: a signaling network data simulator to enable signaling network inference

description: SiGNet is a tool for simulating biological data for a signalling network of known structure. This data can then be used for benchmarking of inference strategies by performing inference on the simulated data and scoring the predictions against the gold standard, known network structure.
DOI: 10.6084/m9.figshare.4578871.v5
title: folder

description: about folder
DOI: 10.6084/m9.figshare.4578871.v6
title: folders

description: about folder
DOI: 10.6084/m9.figshare.4578754
title: New draft item

description: sample<br><br>
DOI: 10.6084/m9.figshare.4578760
title: test2

description: sample
DOI: 10.6084/m9.figshare.4578745.v1
title: Role of structural water for prediction of cation binding sites in apoproteins

description: Structures of many metal-binding proteins are often obtained without structural cations in their apoprotein forms. Missing cation coordinates are usually updated from structural templates constructed from many holoprotein structures. Such templates usually do not include structural water, the important contributor to the ion binding energy. Structural templates are also inconvenient for taking into account structural modifications around the binding site at apo-/holo- transitions. An approach based upon statistical potentials readily takes into account structural modifications associated with binding as well as contribution of structural water molecules. Here, we construct a set of statistical potentials for Mg<sup>2+</sup>, Ca<sup>2+</sup>, and Zn<sup>2+</sup> contacting with protein atoms of a different type or structural water oxygens. Each type of the cations tends to form tight contacts with protein atoms of specific types. Structural water contributes relatively more into the binding pseudo-energy of Mg<sup>2+</sup> and Ca<sup>2+</sup> than of Zn<sup>2+</sup>. We have developed PIONCA (Protein-Ion Calculator), a fast CUDA GPGPU-based algorithm that predicts ion-binding sites in apoproteins. Comparative tests demonstrate that PIONCA outperforms most of the tools based on structural templates or docking. Our software can be also used for locating bound cations in holoprotein structures with missing cation heteroatoms. PIONCA is equipped with an interactive web interface based upon JSmol.
DOI: 10.6084/m9.figshare.4578754.v1
title: New draft item

description: sample<br><br>
DOI: 10.6084/m9.figshare.4578760.v1
title: test2

description: sample
DOI: 10.6084/m9.figshare.4578724
title: LabHacks: 研究生活の自動化

description: 第8回定量生物の会チュートリアルの資料
DOI: 10.6084/m9.figshare.4578724.v1
title: LabHacks: 研究生活の自動化

description: 第8回定量生物の会チュートリアルの資料
DOI: 10.6084/m9.figshare.4578556
title: STELLA trial database

description: This is the complete database (.xls)Variables and explanation are in spanish.
DOI: 10.6084/m9.figshare.4578556.v1
title: STELLA trial database

description: This is the complete database (.xls)Variables and explanation are in spanish.
DOI: 10.6084/m9.figshare.4578544
title: Georeferenced Lake Nutrient Chemistry (GLNC) Database (updated March 2019)

description: This fileset includes files associated with the Georeferenced Lake Nutrient Chemistry (GLNC) Database, which is described in an open access publication in Scientific Data:<br>Williams, J.J., Labou, S.G. 2017. A database of georeferenced nutrient chemistry data for mountain lakes of the Western United States. Scientific Data. 4: 170069. <br>http://dx.doi.org/10.1038/sdata.2017.69<br>The Georeferenced Lake Nutrient Chemistry (GLNC) Database was constructed to create a spatially-extensive lake chemistry database needed to assess atmospheric nutrient deposition effects on Western U.S. mountain lakes. The database includes nitrogen and phosphorus water chemistry data spanning 1964-2015, with 148,336 chemistry results from 51,048 samples collected across 3,602 lakes in the Western U.S. Data were obtained from public databases, government agencies, scientific literature, and researchers, and were formatted into a consistent table structure. All data are georeferenced to a modified version of the National Hydrography Dataset Plus version 2. The database is transparent and reproducible; R code and input files used to format data are provided in an appendix. The database will likely be useful to those assessing spatial patterns of lake nutrient chemistry associated with atmospheric deposition or other environmental stressors. The most recent version of the database was uploaded March 23, 2019.<br>Updates Log: <br>Updated March 2019 (GLNC_March_2019.zip) to correct total phosphorus (TP) units in s18 (western lake survey). In March 2017 version, orig_units were incorrect (should have been ug/L). Values in 'value' field should be have been divided by 1000 to get units of mg P/L consistent with parameter "TP_mg/L" and units "mg P/L". This has now been corrected.<br>
DOI: 10.6084/m9.figshare.4578532
title: Growth experiment

description: Coparison of growth of PHB producing and secreting cells in TB, LB and 2xYT growth media.
DOI: 10.6084/m9.figshare.4578535
title: Extraction yield

description: Comparrison of mass of extracted material with various extraction methods.