cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.4231/dcn9-hc05
title: Summer Science Program in Biochemistry - Characterization of the Cdc14 phosphatase homolog from Rhizoctonia solani

description: &lt;p&gt;&lt;b&gt;The Research Project in SSP Biochemistry&lt;/b&gt;&lt;/p&gt;

&lt;p&gt;Cdc14 enzymes have been reported to be required for normal plant infection by several plant pathogen species. In the SSP Biochemistry program, research groups of 3 participants each purify and characterize the Cdc14 homolog encoded by a different plant fungal pathogen species. Each group is initially given the gene sequence for the putative Cdc14 homolog from a phytopathogenic fungus. Their overall goal is to determine if this protein would be a suitable target for development of a novel fungicide to protect crops from pathogens. They first use bioinformatic tools to generate a hypothesis about the function of the protein encoded by their gene sequence. Then, they use a recombinant plasmid to overexpress their protein in &lt;i&gt;E. coli&lt;/i&gt; and purify it using nickel affinity chromatography. They characterize steady-state kinetic properties and substrate specificity of their enzymes and compare the results to previously characterized Cdc14 from the model fungal species &lt;i&gt;Saccharomyces cerevisiae&lt;/i&gt; (ScCdc14), for which structural information is available. They then design an assay to test inhibition of their enzyme by a series of compounds originally identified as &lt;i&gt;in vitro&lt;/i&gt; inhibitors of ScCdc14. They choose the best one, perform computational docking to predict how it might bind to the homology-based structural model of their enzyme&rsquo;s active site that they previously generated, and finally hypothesize about ways to optimize their inhibitor structure to improve binding and specificity by taking advantage of known features of Cdc14 substrates. In the end they conclude whether or not the active site substrate specificity is conserved enough to justify using the ScCdc14 structure as a model for designing inhibitors to their enzyme. In this publication, the biochemical results and the homology based structural modeling of the Cdc14 homolog from &lt;em&gt;Rhizoctonia solani&lt;/em&gt; are presented.&lt;/p&gt;
description: In SSP Biochemistry, high school participants conduct group research projects to characterize the Cdc14 phosphatase homolog from a phytopathogenic fungus and explore its potential as a novel antifungal target to protect crops from disease
DOI: 10.4231/q9gk-ph62
title: Summer Science Program in Biochemistry - Characterization of the Cdc14 phosphatase homolog from Thielaviopsis punctulata

description: &lt;p&gt;&lt;b&gt;The Research Project in SSP Biochemistry&lt;/b&gt;&lt;/p&gt;

&lt;p&gt;Cdc14 enzymes have been reported to be required for normal plant infection by several plant pathogen species. In the SSP Biochemistry program, research groups of 3 participants each purify and characterize the Cdc14 homolog encoded by a different plant fungal pathogen species. Each group is initially given the gene sequence for the putative Cdc14 homolog from a phytopathogenic fungus. Their overall goal is to determine if this protein would be a suitable target for development of a novel fungicide to protect crops from pathogens. They first use bioinformatic tools to generate a hypothesis about the function of the protein encoded by their gene sequence. Then, they use a recombinant plasmid to overexpress their protein in &lt;i&gt;E. coli&lt;/i&gt; and purify it using nickel affinity chromatography. They characterize steady-state kinetic properties and substrate specificity of their enzymes and compare the results to previously characterized Cdc14 from the model fungal species &lt;i&gt;Saccharomyces cerevisiae&lt;/i&gt; (ScCdc14), for which structural information is available. They then design an assay to test inhibition of their enzyme by a series of compounds originally identified as &lt;i&gt;in vitro&lt;/i&gt; inhibitors of ScCdc14. They choose the best one, perform computational docking to predict how it might bind to the homology-based structural model of their enzyme&rsquo;s active site that they previously generated, and finally hypothesize about ways to optimize their inhibitor structure to improve binding and specificity by taking advantage of known features of Cdc14 substrates. In the end they conclude whether or not the active site substrate specificity is conserved enough to justify using the ScCdc14 structure as a model for designing inhibitors to their enzyme. In this publication, the biochemical results and the homology based structural modeling of the Cdc14 homolog from &lt;em&gt;Thielaviopsis punctulata&lt;/em&gt; are presented.&lt;/p&gt;
description: In SSP Biochemistry, high school participants conduct group research projects to characterize the Cdc14 phosphatase homolog from a phytopathogenic fungus and explore its potential as a novel antifungal target to protect crops from disease
DOI: 10.4231/rztw-v362
title: Summer Science Program in Biochemistry - Characterization of the Cdc14 phosphatase homolog from Ustilago maydis

description: &lt;p&gt;&lt;b&gt;The Research Project in SSP Biochemistry&lt;/b&gt;&lt;/p&gt;

&lt;p&gt;Cdc14 enzymes have been reported to be required for normal plant infection by several plant pathogen species. In the SSP Biochemistry program, research groups of 3 participants each purify and characterize the Cdc14 homolog encoded by a different plant fungal pathogen species. Each group is initially given the gene sequence for the putative Cdc14 homolog from a phytopathogenic fungus. Their overall goal is to determine if this protein would be a suitable target for development of a novel fungicide to protect crops from pathogens. They first use bioinformatic tools to generate a hypothesis about the function of the protein encoded by their gene sequence. Then, they use a recombinant plasmid to overexpress their protein in &lt;i&gt;E. coli&lt;/i&gt; and purify it using nickel affinity chromatography. They characterize steady-state kinetic properties and substrate specificity of their enzymes and compare the results to previously characterized Cdc14 from the model fungal species &lt;i&gt;Saccharomyces cerevisiae&lt;/i&gt; (ScCdc14), for which structural information is available. They then design an assay to test inhibition of their enzyme by a series of compounds originally identified as &lt;i&gt;in vitro&lt;/i&gt; inhibitors of ScCdc14. They choose the best one, perform computational docking to predict how it might bind to the homology-based structural model of their enzyme&rsquo;s active site that they previously generated, and finally hypothesize about ways to optimize their inhibitor structure to improve binding and specificity by taking advantage of known features of Cdc14 substrates. In the end they conclude whether or not the active site substrate specificity is conserved enough to justify using the ScCdc14 structure as a model for designing inhibitors to their enzyme. In this publication, the biochemical results and the homology based structural modeling of the Cdc14 homolog from &lt;em&gt;Ustilago maydis&lt;/em&gt; are presented.&lt;/p&gt;
description: In SSP Biochemistry, high school participants conduct group research projects to characterize the Cdc14 phosphatase homolog from a phytopathogenic fungus and explore its potential as a novel antifungal target to protect crops from disease
DOI: 10.4231/q5qs-es90
title: Summer Science Program in Biochemistry - Characterization of the Cdc14 phosphatase homolog from Verticillium longisporum

description: &lt;p&gt;&lt;b&gt;The Research Project in SSP Biochemistry&lt;/b&gt;&lt;/p&gt;

&lt;p&gt;Cdc14 enzymes have been reported to be required for normal plant infection by several plant pathogen species. In the SSP Biochemistry program, research groups of 3 participants each purify and characterize the Cdc14 homolog encoded by a different plant fungal pathogen species. Each group is initially given the gene sequence for the putative Cdc14 homolog from a phytopathogenic fungus. Their overall goal is to determine if this protein would be a suitable target for development of a novel fungicide to protect crops from pathogens. They first use bioinformatic tools to generate a hypothesis about the function of the protein encoded by their gene sequence. Then, they use a recombinant plasmid to overexpress their protein in &lt;i&gt;E. coli&lt;/i&gt; and purify it using nickel affinity chromatography. They characterize steady-state kinetic properties and substrate specificity of their enzymes and compare the results to previously characterized Cdc14 from the model fungal species &lt;i&gt;Saccharomyces cerevisiae&lt;/i&gt; (ScCdc14), for which structural information is available. They then design an assay to test inhibition of their enzyme by a series of compounds originally identified as &lt;i&gt;in vitro&lt;/i&gt; inhibitors of ScCdc14. They choose the best one, perform computational docking to predict how it might bind to the homology-based structural model of their enzyme&rsquo;s active site that they previously generated, and finally hypothesize about ways to optimize their inhibitor structure to improve binding and specificity by taking advantage of known features of Cdc14 substrates. In the end they conclude whether or not the active site substrate specificity is conserved enough to justify using the ScCdc14 structure as a model for designing inhibitors to their enzyme. In this publication, the biochemical results and the homology based structural modeling of the Cdc14 homolog from &lt;em&gt;Verticillium longisporum&lt;/em&gt; are presented.&lt;/p&gt;
description: In SSP Biochemistry, high school participants conduct group research projects to characterize the Cdc14 phosphatase homolog from a phytopathogenic fungus and explore its potential as a novel antifungal target to protect crops from disease
DOI: 10.4231/xbcv-cd07
title: Gauss quadrature and Christoffel function for the reciprocal gamma weight function

description: &lt;p&gt;Matlab software is provided for generating to any given accuracy &lt;em&gt;n&lt;/em&gt;-point Gauss quadrature rules, &lt;em&gt;n&lt;/em&gt; &ge; 1, relative to the reciprocal gamma weight function as well as approximations and respective errors for the  quadrature weights and for the Christoffel function.&lt;/p&gt;
description: A set of MATLAB scripts related to Gauss quadrature and Christoffel function for the reciprocal gamma weight function
DOI: 10.4231/sfx6-rz18
title: The enigma of Oligocene climate and global surface temperature evolution

description: &lt;p&gt;This dataset provides climate model outputs and geochemical climate proxy data for the reconstruction of Oligocene, and also Eocene and Miocene, surface temperatures. This code and data are associated with the publication &quot;The enigma of Oligocene climate and global surface temperature evolution&quot; by C.L. O&#39;Brien, M. Huber, E. Thomas, M. Pagani, J.R. Super, L.E. Elder, and P. M. Hull, in &lt;em&gt;Proceedings of the National Academy of Science&lt;/em&gt;, 2020. https://www.pnas.org/lookup/doi/10.1073/pnas.2003914117.&lt;/p&gt;

&lt;p&gt;Climate model outputs, &lsquo;Obrien_mdc.zip&rsquo;, include netcdf files and source code.&lt;/p&gt;

&lt;p&gt;Geochemical proxy data, &lsquo;OBrien_PNAS_2020_Supplementary_Datasets.xlsx&rsquo;, include glycerol dialkyl glycerol tetraether data from Ocean Drilling Program Hole 929A and Deep Sea Drilling Project Hole 516F; this file also lists all other Eocene-Oligocene surface temperature proxy data compiled in O&#39;Brien et al., &lt;em&gt;PNAS&lt;/em&gt;, 2020.&lt;/p&gt;

&lt;p&gt; &lt;/p&gt;
description: This is supporting material for "The enigma of Oligocene climate and global surface temperature evolution" published in PNAS in 2020 by O'Brien et al.
DOI: 10.4231/r5v5-tw63
title: Gauss quadrature and Christoffel function for a Gegenbauer weight function multiplied by an exponential function

description: &lt;p&gt;Matlab software is provided for generating to any given accuracy &lt;em&gt;n&lt;/em&gt;-point Gauss quadrature rules, &lt;em&gt;n&lt;/em&gt; &ge; 1, relative to a Gegenbauer weight function multiplied by an exponential function as well as approximations and respective errors for the quadrature weights and for the Christoffel function.&lt;/p&gt;
description: A set of MATLAB scripts related to Gauss quadrature and Christoffel function for a Gegenbauer weight function multiplied by an exponential function
DOI: 10.4231/ef1b-1513
title: Gauss quadrature and Christoffel function for generalized Jacobi weight functions

description: &lt;p&gt;Matlab software is provided for generating to any given accuracy n-point Gauss quadrature rules, n &ge; 1, relative to generalized Jacobi weight functions as well as approximations and respective errors for the  quadrature weights and for the Christoffel function.&lt;/p&gt;
description: A set of MATLAB scripts related to Gauss quadrature and Christoffel function for generalized Jacobi weight functions
DOI: 10.4231/9ssa-3890
title: Cold and heat tolerances of Juglans cinerea, Juglans ailantifolia, and their hybrids

description: &lt;p&gt;Hybridization could incorporate traits to native species for surviving detrimental global change. However, to serve as an effective substitute for restoration, hybrids must survive and reproduce in the same distribution as the target species. An ecophysiological evaluation of hybrids versus progenitor species could contribute to predicting potential hybrid distribution and utilization areas. &lt;em&gt;Juglans cinerea &lt;/em&gt;L. is an endangered, exceptionally cold hardy North American tree species that can hybridize with the non-native &lt;em&gt;Juglans ailantifolia &lt;/em&gt;Carr. Preliminary evidence indicates their hybrids could hold resistance to &lt;em&gt;Ophiognomonia clavigignenti-juglandacearum&lt;/em&gt;, the fungal disease threatening &lt;em&gt;J. cinerea.&lt;/em&gt; Consequently, hybrids are being evaluated as a possible conservation tool. This study aims to compare relative cold and heat tolerances within &lt;em&gt;J. cinerea&lt;/em&gt; provenances (USDA plant hardiness zones 4, colder, to 7, warmer) and between &lt;em&gt;J. cinerea&lt;/em&gt;, &lt;em&gt;J. ailantifolia&lt;/em&gt;, and their hybrids (F1 hybrids - &lt;em&gt;J. cinerea &lt;/em&gt;&times; &lt;em&gt;J. ailantifolia&lt;/em&gt;, and backcross hybrids - F1 &times; &lt;em&gt;J. cinerea&lt;/em&gt;). For the cold test, current-year twigs were subjected to five freeze treatments (-38 to 5 &deg;C). Resulting damage was estimated using electrolyte leakage. In the heat test, leaflets were subjected to six hot water bath treatments (30 to 54 &deg;C) and damage was estimated as change in chlorophyll fluorescence. Cold tolerance differed more than heat tolerance among &lt;em&gt;J. cinerea&lt;/em&gt; provenances and across species. Within &lt;em&gt;J. cinerea, &lt;/em&gt;trees from colder areas exhibited less cold damage than those from warmer areas. Differences in heat damage between hardiness zones occurred, but did not follow a clear trend. Consequently, at the intraspecific level cold and heat tolerance were not correlated. However, at the interspecific level cold and heat tolerance were negatively correlated. &lt;em&gt;J. cinerea&lt;/em&gt; exhibited greatest cold tolerance, &lt;em&gt;J. ailantifolia&lt;/em&gt; exhibited greatest heat tolerance, and hybrids were intermediate. Thus, the utility of hybrids for restoration could be limited at the ecophysiological extremes of species&rsquo; distributions.&lt;/p&gt;
description: Relative cold and heat tolerances of Juglans species and hybrids through measurement of twig electrolyte leakage following freezer treatments, and leaflet chlorophyll fluorescence following hot water bath treatments
DOI: 10.4231/e80w-7941
title: Evaluating Economic Opportunities for Product Recycling via the Sherwood Principle and Machine Learning - Supporting Information

description: &lt;p&gt;This study proposes an empirical model to identify economic feasibility of product recycling by integrating machine learning and the Sherwood principle. A boundary that differentiates profitable and non-profitable EoL products for material recycling is quantified and visualized. It is envisioned that the proposed method can be adopted in other circular economy domains for better decision-making.&lt;/p&gt;
description: This repository contains the supporting information for the manuscript regarding Sherwood principle and Machine learning. All critical underlying data files, along with a flow chart that describes the methodologies applied in the paper are enclosed.
DOI: 10.4231/8246-c724
title: Data for Intercomparison of thermal regime algorithms in 1-D lake models

description: &lt;p&gt;Lakes are an important component of the global weather and climate system, but the modeling of their thermal regimes has shown large uncertainties due to the highly diverse lake properties and model configurations. Here we evaluate the algorithms of four key lake thermal processes including turbulent heat fluxes, wind-driven mixing, light extinction, and snow density, using a highly diverse lake dataset provided by the Inter-sectoral Impact Model Intercomparison Project (ISIMIP) 2a lake sector. Algorithm codes are configured and run separately within the same parent model to rule out any interference from factors apart from the algorithms examined. Evaluations are based on both simulation accuracy and recalibration complexity for application to global lakes. For turbulent heat fluxes, the non-Monin-Obukhov similarity (MOS) based, more simplified algorithms perform better in predicting lake epilimnion temperatures and achieve high convergence in the values of the calibrated parameters. For wind-driven mixing, a two-algorithm strategy considering lake shape and season is suggested with the regular mixing algorithm used for spring and earlier summer and the mixing-enhanced algorithm for summer steady stratification and fall overturn periods. There are no evident differences in the simulated thermocline depths using different light extinction algorithms or the observation. Finally, for lake ice phenology, a constant snow density at around 110 kg m&lt;sup&gt;-3&lt;/sup&gt; is found to be sufficient for most northern lakes while the Arctic lakes require a higher value. Our study provides highly practical guides for improving 1-D lake models and feasible parameterization strategies to better simulate global lake thermal regimes.&lt;/p&gt;
description: This dataset includes the model intercomparison results using the Arctic Lake Biogeochemistry Model (ALBM) and codes for analysis.
DOI: 10.4231/w9sk-nz50
title: Lockout/Tagout (LOTO) Virtual Reality Safety Training

description: &lt;p&gt;Based on the OSHA Standard for the Control of Hazardous Energy (Lockout/Tagout), Title 29 Code of Federal Regulations (CFR) Part 1910.147, the training outlines measures for controlling hazardous energies&mdash;electrical, mechanical, hydraulic, pneumatic, chemical, thermal, and other energy sources. This training simulations includes two virtual reality modules with interactive hands on environment to have the participant walk through the entire procedure.&lt;/p&gt;

&lt;p&gt;Required Equipment and Programs to Run VR Training Simulation:&lt;/p&gt;

&lt;p&gt;&middot; VR Headset&lt;/p&gt;

&lt;p&gt;o Compatible Headsets: Oculus Rift, Oculus Go, HTC Vive, Vive Pro, or Steam Index&lt;/p&gt;

&lt;p&gt;&middot; A computer or laptop that is capable of running a VR Headset&lt;/p&gt;

&lt;p&gt;o If you are unsure of whether your computer or laptop has high-computing ability, check your specifications with the recommended specifications of the available VR Headset, or try a test run with a pre-built application on the VR Headset to see if the program functions&lt;/p&gt;

&lt;p&gt;&middot; Install Steam VR&lt;/p&gt;

&lt;p&gt;o This will require the application Steam to be installed, after which a prompt will appear to install Steam VR once a VR headset is plugged into the computer&lt;/p&gt;

&lt;p&gt;&middot; Desktop 360 video without VR headsets&lt;/p&gt;

&lt;p&gt; o If you don&#39;t have any VR equipment, you can use your video player to watch the 360 video.&lt;/p&gt;

&lt;p&gt;&middot; The entire project files of Log out Tag out Safety Virtual Training Exercise on PURR&lt;/p&gt;

&lt;p&gt;o Use the &ldquo;Download Bundle&rdquo; button to download a .zip folder of the simulation&lt;/p&gt;

&lt;p&gt; &lt;/p&gt;

&lt;p&gt;How to Download and Run VR Training Simulation:&lt;/p&gt;

&lt;p&gt;&middot; Use the &ldquo;Download Bundle&rdquo; button to download a .zip folder of the project; this will require at least 1 GB of free space&lt;/p&gt;

&lt;p&gt;&middot; Once the file is downloaded, extract all contents to a desired location on your machine&lt;/p&gt;

&lt;p&gt;&middot; Open the extracted folder and double click the video files to watch simulation.&lt;/p&gt;

&lt;p&gt;There are two scenarios within Log out Tag out Safety VR Training. The contents and topics that are covered throughout each module are as follows:&lt;/p&gt;

&lt;p&gt;Module 1: Introduction to the work environment and demonstration of Lockout/Tagout safety training .&lt;/p&gt;

&lt;p&gt;Module 2: A series of interactive Q&amp;A session to help participants go through the entire Lockout/Tagout safety training by completing each phase of the training.&lt;/p&gt;
description: This Lockout/Tagout (LOTO) Virtual Reality Safety Training is a Virtual Reality simulation built to provide safety training on the practices and procedures necessary to disable machinery or equipment.
DOI: 10.4231/02mw-ss48
title: Adaptive Video Simulation for Social Skills Development

description: &lt;p&gt;The video simulation can be used in educational environments and organizational training settings. To achieve best video experience, audience need to have a high-definition screen to play 360-videos in the screen. Participants can use mouse to drag the window for full 360-degree view. Learners will need to provide responses by using a mouse or a touchpad, and the responses to prompts/questions in the simulation will be automatically recorded and stored to the 2D file. This 2D video simulation is developed at Purdue HRD Virtual Lab.&lt;/p&gt;

&lt;p&gt;&lt;strong&gt;Required Equipment and Programs to Run 2D Video Training Simulation:&lt;/strong&gt;&lt;/p&gt;

&lt;ul&gt;
 &lt;li&gt;A computer or laptop that is capable of video play&lt;/li&gt;
 &lt;li&gt;Download the entire project file, titled &ldquo;Adaptive Video Simulation for Social Skills Development&rdquo; on PURR, missing files may cause failure of the play of the simulation.
 &lt;ul style="list-style-type:circle;"&gt;
 &lt;li&gt;Use the &ldquo;Download Bundle&rdquo; button to download a .zip folder of the project&lt;/li&gt;
 &lt;/ul&gt;
 &lt;/li&gt;
&lt;/ul&gt;

&lt;p&gt; &lt;/p&gt;

&lt;p&gt;&lt;strong&gt;How to Download and Run 2D Video Training Simulation:&lt;/strong&gt;&lt;/p&gt;

&lt;ul&gt;
 &lt;li&gt;Use the &ldquo;Download Bundle&rdquo; button to download a .zip folder of the project; this will require at least 2.5 GB of free space&lt;/li&gt;
 &lt;li&gt;Once the file is downloaded, extract all contents to a desired location on your device&lt;/li&gt;
 &lt;li&gt;Video version: Open the extracted &ldquo;Desktop&rdquo; folder and double click the &ldquo;Mesut360.exe&rdquo; file to run Video project&lt;/li&gt;
&lt;/ul&gt;
description: This 2-D video simulation aims to develop learners’ social skills in the immersive environment. After the training, learners may experience improvement in their personal attributes to interact effectively with other people who are culturally...