cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12818726
title: Single cell sequencing reveals infection dynamics in lungs of African green monkeys infected with SARS-CoV-2

description: Studying the dynamics of SARS-CoV-2 infection in vivo is important to determine virus and host response factors that may play a role in pathogenesis. Controlled studies that include collection of time-resolved, multiple sampling days is not possible in humans and thus animal models of disease are essential to fill in the gaps in our understanding of disease progression. African green monkeys recapitulate mild COVID-19 cases, thereby serving as an important model for studying disease pathogenesis. In this study, we utilize the African green monkey model of SARS-CoV-2 infection and compare SARS-CoV-2-infected animals to animals inoculated with a gamma-irradiated form of the virus to study the dynamics of virus replication throughout the respiratory tract and other target tissues. We included single-cell sequencing of the lungs and mediastinal lymph nodes, allowing a high-resolution, simultaneous analysis of virus replication and the host response in these tissues over time. We found that viral genomic RNA (gRNA) is highly stable especially in the upper respiratory tract even without the presence of replicating virus. Additionally, we found that virus mainly replicates in the lower respiratory tract, mainly in the pneumocyte population. Additional analysis of the host response to infection showed that macrophages are playing vital and dynamic roles in initiating a pro-inflammatory state in the lungs, as well as interacting with infected pneumocytes. Together, our dataset provides a unique view of the changes in the host and virus replication dynamics over the course of a mild COVID-19 infection through to early stages of recovery and will be a valuable resource to identify new therapeutic targets.
DOI: 10.6084/m9.figshare.12818726.v1
title: Single cell sequencing reveals infection dynamics in lungs of African green monkeys infected with SARS-CoV-2

description: Studying the dynamics of SARS-CoV-2 infection in vivo is important to determine virus and host response factors that may play a role in pathogenesis. Controlled studies that include collection of time-resolved, multiple sampling days is not possible in humans and thus animal models of disease are essential to fill in the gaps in our understanding of disease progression. African green monkeys recapitulate mild COVID-19 cases, thereby serving as an important model for studying disease pathogenesis. In this study, we utilize the African green monkey model of SARS-CoV-2 infection and compare SARS-CoV-2-infected animals to animals inoculated with a gamma-irradiated form of the virus to study the dynamics of virus replication throughout the respiratory tract and other target tissues. We included single-cell sequencing of the lungs and mediastinal lymph nodes, allowing a high-resolution, simultaneous analysis of virus replication and the host response in these tissues over time. We found that viral genomic RNA (gRNA) is highly stable especially in the upper respiratory tract even without the presence of replicating virus. Additionally, we found that virus mainly replicates in the lower respiratory tract, mainly in the pneumocyte population. Additional analysis of the host response to infection showed that macrophages are playing vital and dynamic roles in initiating a pro-inflammatory state in the lungs, as well as interacting with infected pneumocytes. Together, our dataset provides a unique view of the changes in the host and virus replication dynamics over the course of a mild COVID-19 infection through to early stages of recovery and will be a valuable resource to identify new therapeutic targets.
DOI: 10.6084/m9.figshare.12818630
title: Employee happiness, quality of work life, and organizational commitment

description: These datasets include main and additional findings from my research. Data are in the form of tables, charts, and graphs.
DOI: 10.6084/m9.figshare.12818375
title: Supplementary Data to Schibany et al. 2020

description: Supplementary figures 1 to 4 and tables S1 and S2
DOI: 10.6084/m9.figshare.12818339
title: Measured Values.zip

description: All raw measured values used for the graphs included in the publication.
DOI: 10.6084/m9.figshare.12818339.v1
title: Measured Values.zip

description: All raw measured values used for the graphs included in the publication.
DOI: 10.6084/m9.figshare.12816455
title: HIP BCR samples

description: HIP year 1 BCR reads as presented in Soto et al, 2019<br>
DOI: 10.6084/m9.figshare.12816455.v1
title: HIP BCR samples

description: HIP year 1 BCR reads as presented in Soto et al, 2019<br>
DOI: 10.6084/m9.figshare.12816488.v1
title: Data assimilation for tsunami forecasting

description: Upon acceptance of publication, bathymetry and ship location data used in the study "data assimilation for tsunami forecasting" will be stored here in a tar file. Bathymetry data is formatted as .grd file and ship location data is formatted as HDF5. <br>
DOI: 10.6084/m9.figshare.12816410
title: Recurrent SARS-CoV-2 RNA positivity after COVID-19: A systematic review and meta‑analysis

description: Dataset of <b>Recurrent SARS-CoV-2 RNA positivity after COVID-19: A systematic review and meta‑analysis</b>
DOI: 10.6084/m9.figshare.12816410.v2
title: Recurrent SARS-CoV-2 RNA positivity after COVID-19: A systematic review and meta‑analysis

description: Dataset of <b>Recurrent SARS-CoV-2 RNA positivity after COVID-19: A systematic review and meta‑analysis</b>
DOI: 10.6084/m9.figshare.12816311
title: Evaluation of in vivo THz Imaging for Assessing Human Skin Hydration

description: Data taken from 20 human subjects using in vivo thz tds measurements and using a corneometer. Measurements taken before treatment after 20 minutes after treatment. Treatment regions: 1:Anhydrous, 2:Aqueous, 3:Water-in-Oil, 4:Control.Pressure data and thz data in the h5 files within the folders, corneometer data in a single spreadsheet.
DOI: 10.6084/m9.figshare.12816410.v1
title: Recurrent SARS-CoV-2 positivity after COVID-19 Azam et al.rm5

description: Dataset of <b>Recurrent SARS-CoV-2 RNA positivity after COVID-19: A systematic review and meta‑analysis</b>
DOI: 10.6084/m9.figshare.12816095
title: Local_Cadre V2_5.dta

description: Data used in the paper "Exploring Political Personalities: the Microfoundation of Local Innovation in China." Includes all of the original data as well as variable transformations that are used in the paper. We have also supplied the Stata log files that we used to create a paper for replicability purposes. A complete list of survey questions and the survey instrument for this study can be found with the accompanying methodological appendix for the paper, also stored hear as part of this project. <br>
DOI: 10.6084/m9.figshare.12816140
title: Data from: Adaptive evolution shapes the present-day distribution of the thermal sensitivity of population growth rate

description: <b>CONTENTS OF THIS DATASET</b><br><b>1) final_calibrated_phylogeny.nex:</b> The relative time-calibrated phylogeny reconstructed for this study.<br><b>2) phytoplankton_specific_growth_rate.csv; prokaryotes_specific_growth_rate.csv; photosynthesis_rate.csv; respiration_rate.csv:</b> raw datasets of trait performance vs temperature.<br><br><b>3) TPC_parameter_estimates_phytoplankton_r_max.csv; TPC_parameter_estimates_prokaryotes_r_max.csv; TPC_parameter_estimates_plants_net_photosynthesis_rate.csv; TPC_parameter_estimates_plants_respiration_rate.csv:</b> estimates of Sharpe-Schoolfield model parameters.<br><br><b>4) Fig_1B.csv; Fig_2_and_J.csv; Fig_4_and_C_E.csv; Fig_4_and_C_W_op.csv; Fig_7.csv; Fig_D.csv; Fig_N.csv; Fig_O.csv; Fig_P.csv:</b> data point values for Figures of this study. Note that the contents of all these files are subsets of the TPC parameter datasets, but we also include the former for convenience.
DOI: 10.6084/m9.figshare.12816086
title: Data and Code for "Feedback Gains modulate with motor memory uncertainty"

description: This is the data and matlab code to prepare the figures for the manuscript "Feedback gains modulate with motor memory uncertainty" by Sae Franklin and David Franklin.<br>The three main programs to obtain the analysis are:df_analyze_RJ_channeltrials.mdf_analyze_RJ_fieldtrials.mdf_analyze_RJ_visualpert.m<br><br>which will generate each of the figures in the results section of the manuscript. <br><br>Data files (.mat) are found within the datafiles.zipAdditional code is found within helpfunctions.zip<br>
DOI: 10.6084/m9.figshare.12816101
title: rtc data

description: Data
DOI: 10.6084/m9.figshare.12816101.v1
title: rtc data

description: Data
DOI: 10.6084/m9.figshare.12816140.v1
title: Data from: Adaptive evolution shapes the present-day distribution of the thermal sensitivity of population growth rate

description: <b>CONTENTS OF THIS DATASET</b><br><b>1) final_calibrated_phylogeny.nex:</b> The relative time-calibrated phylogeny reconstructed for this study.<br><b>2) phytoplankton_specific_growth_rate.csv; prokaryotes_specific_growth_rate.csv; photosynthesis_rate.csv; respiration_rate.csv:</b> raw datasets of trait performance vs temperature.<br><br><b>3) TPC_parameter_estimates_phytoplankton_r_max.csv; TPC_parameter_estimates_prokaryotes_r_max.csv; TPC_parameter_estimates_plants_net_photosynthesis_rate.csv; TPC_parameter_estimates_plants_respiration_rate.csv:</b> estimates of Sharpe-Schoolfield model parameters.<br><br><b>4) Fig_1B.csv; Fig_2_and_J.csv; Fig_4_and_C_E.csv; Fig_4_and_C_W_op.csv; Fig_7.csv; Fig_D.csv; Fig_N.csv; Fig_O.csv; Fig_P.csv:</b> data point values for Figures of this study. Note that the contents of all these files are subsets of the TPC parameter datasets, but we also include the former for convenience.
DOI: 10.6084/m9.figshare.12816086.v1
title: Data and Code for "Feedback Gains modulate with motor memory uncertainty"

description: This is the data and matlab code to prepare the figures for the manuscript "Feedback gains modulate with motor memory uncertainty" by Sae Franklin and David Franklin.<br>The three main programs to obtain the analysis are:df_analyze_RJ_channeltrials.mdf_analyze_RJ_fieldtrials.mdf_analyze_RJ_visualpert.m<br><br>which will generate each of the figures in the results section of the manuscript. <br><br>Data files (.mat) are found within the datafiles.zipAdditional code is found within helpfunctions.zip<br>
DOI: 10.17028/rd.lboro.12815945
title: Supplementary Information for Needles in haystacks: using fast-response LA chambers and ICP-TOF-MS to identify asbestos fibres in malignant mesothelioma models

description: Supplementary Information for Needles in haystacks: using fast-response LA chambers and ICP-TOF-MS to identify asbestos fibres in malignant mesothelioma models<br>Malignant mesothelioma is an aggressive cancer associated with exposure to asbestos. Diagnosis of mesothelioma and other related lung diseases remains elusive due to difficulties surrounding identification and quantification of asbestos fibres in lung tissue. This article presents a laser ablation-inductively coupled plasma-mass spectrometry (LA-ICP-MS) method to identify asbestos fibres in cellular models of mesothelioma. Use of a high-speed laser ablation system enabled rapid imaging of the samples with a lateral resolution of 3 μm, whilst use of a prototype time-of-flight ICP-MS provided pseudo-simultaneous detection of the elements between mass 23 (Na) and mass 238 (U). Three forms of asbestos fibre (actinolite, amosite and crocidolite) were distinguished from a non-asbestos control (wollastonite) based on their elemental profile, which demonstrated that LA-ICP-MS could be a viable technique for identification of asbestos fibres in clinical research samples.<br>
DOI: 10.17028/rd.lboro.12815945.v1
title: Supplementary Information for Needles in haystacks: using fast-response LA chambers and ICP-TOF-MS to identify asbestos fibres in malignant mesothelioma models

description: Supplementary Information for Needles in haystacks: using fast-response LA chambers and ICP-TOF-MS to identify asbestos fibres in malignant mesothelioma models<br>Malignant mesothelioma is an aggressive cancer associated with exposure to asbestos. Diagnosis of mesothelioma and other related lung diseases remains elusive due to difficulties surrounding identification and quantification of asbestos fibres in lung tissue. This article presents a laser ablation-inductively coupled plasma-mass spectrometry (LA-ICP-MS) method to identify asbestos fibres in cellular models of mesothelioma. Use of a high-speed laser ablation system enabled rapid imaging of the samples with a lateral resolution of 3 μm, whilst use of a prototype time-of-flight ICP-MS provided pseudo-simultaneous detection of the elements between mass 23 (Na) and mass 238 (U). Three forms of asbestos fibre (actinolite, amosite and crocidolite) were distinguished from a non-asbestos control (wollastonite) based on their elemental profile, which demonstrated that LA-ICP-MS could be a viable technique for identification of asbestos fibres in clinical research samples.<br>
DOI: 10.17028/rd.lboro.12815774
title: Supplementary Information files for Rapid quantification of prion proteins using resistive pulse sensing

description: Supplementary Information files for Rapid quantification of prion proteins using resistive pulse sensing<br>Prion diseases are a group of fatal transmissible neurological conditions caused by the change in conformation of intrinsic cellular prion protein (PrPC). We present a rapid assay using aptamers and resistive pulse sensing, RPS, to extract and quantify PrPC from complex sample matrices. We functionalise the surface of superparamagnetic beads, SPBs, with a DNA aptamer. First SPB’s termed P-beads, are used to pre-concentrate the analyte from a large sample volume. The PrPC protein is then eluted from the P-beads before aptamer modified sensing beads, S-beads, are added. The velocity of the S-beads through the nanopore reveals the concentration of the<br>
DOI: 10.17028/rd.lboro.12815879
title: Supplementary Information files for Solution processed CZTS solar cells using amine-thiol systems: under-standing the dissolution process and device fabrication

description: Supplementary Information files for Solution processed CZTS solar cells using amine-thiol systems: under-standing the dissolution process and device fabrication<br>Solar energy is one of the main renewable energy sources currently being researched, with commercial thin film solar cells currently made of CdTe or CuIn(1−x)GaxSe2 (CIGS) absorbers. However, whilst these materials make up the majority of the thin film commercial market, these solar cells have various problems relating to materials cost, and toxicity of constituent elements. Kesterite (Cu2ZnSn(S,Se)4) solar cells are becoming increasingly popular due to their tuneable band gap, relative affordability of the constituent elements, and the ability to produce high efficiency devices from solution processes. However, often expensive and toxic materials are used in production. In this paper we report on a newly developed amine–thiol solvent system based on 10% cysteamine in ethanolamine, which has low toxicity, is user-friendly and is able to readily dissolve all kesterite constituent elements, including metals and their oxides. The dissolution process and the structures of the prevalent metal complexes formed were investigated with the aid of spectroscopic methods, such as electrospray ionization mass spectrometry (ESI-MS) and infrared multiple photon dissociation (IRMPD). In most cases, two molecules of cysteamine were bound to the metals as bidentate ligands. By employing spin coating of the resulting inks, devices of up to 8.1% power conversion efficiency were fabricated.<br>
DOI: 10.17028/rd.lboro.12815774.v1
title: Supplementary Information files for Rapid quantification of prion proteins using resistive pulse sensing

description: Supplementary Information files for Rapid quantification of prion proteins using resistive pulse sensing<br>Prion diseases are a group of fatal transmissible neurological conditions caused by the change in conformation of intrinsic cellular prion protein (PrPC). We present a rapid assay using aptamers and resistive pulse sensing, RPS, to extract and quantify PrPC from complex sample matrices. We functionalise the surface of superparamagnetic beads, SPBs, with a DNA aptamer. First SPB’s termed P-beads, are used to pre-concentrate the analyte from a large sample volume. The PrPC protein is then eluted from the P-beads before aptamer modified sensing beads, S-beads, are added. The velocity of the S-beads through the nanopore reveals the concentration of the<br>
DOI: 10.17028/rd.lboro.12815879.v1
title: Supplementary Information files for Solution processed CZTS solar cells using amine-thiol systems: under-standing the dissolution process and device fabrication

description: Supplementary Information files for Solution processed CZTS solar cells using amine-thiol systems: under-standing the dissolution process and device fabrication<br>Solar energy is one of the main renewable energy sources currently being researched, with commercial thin film solar cells currently made of CdTe or CuIn(1−x)GaxSe2 (CIGS) absorbers. However, whilst these materials make up the majority of the thin film commercial market, these solar cells have various problems relating to materials cost, and toxicity of constituent elements. Kesterite (Cu2ZnSn(S,Se)4) solar cells are becoming increasingly popular due to their tuneable band gap, relative affordability of the constituent elements, and the ability to produce high efficiency devices from solution processes. However, often expensive and toxic materials are used in production. In this paper we report on a newly developed amine–thiol solvent system based on 10% cysteamine in ethanolamine, which has low toxicity, is user-friendly and is able to readily dissolve all kesterite constituent elements, including metals and their oxides. The dissolution process and the structures of the prevalent metal complexes formed were investigated with the aid of spectroscopic methods, such as electrospray ionization mass spectrometry (ESI-MS) and infrared multiple photon dissociation (IRMPD). In most cases, two molecules of cysteamine were bound to the metals as bidentate ligands. By employing spin coating of the resulting inks, devices of up to 8.1% power conversion efficiency were fabricated.<br>
DOI: 10.17028/rd.lboro.12815579
title: Supplementary information files for Designing a programming game to improve children’s procedural abstraction skills in scratch

description: Supplementary information files for Designing a programming game to improve children’s procedural abstraction skills in scratch <br>The recent shift in compulsory education from ICT-focused computing curricula to informatics, digital literacy and computer science, has resulted in children being taught computing using block-based programming tools such as Scratch, with teaching that is often limited by school resources and teacher expertise. Even without these limitations, Scratch users often produce code with ‘code smells’ such as duplicate blocks and long scripts which impact how they understand and debug projects. These code smells can be removed using procedural abstraction, an important concept in computer science rarely taught to this age group. This article describes the design of a novel educational block-based programming game, Pirate Plunder, which concentrates on how procedural abstraction is introduced and reinforced. The article then reports an extended evaluation to measure the game’s efficacy with children aged 10 and 11, finding that children who played the game were then able to use procedural abstraction in Scratch. The article then uses game analytics to explore why the game was effective and gives three recommendations for educational game design based on this research: using learning trajectories and restrictive success conditions to introduce complex content, increasing learner investment through customisable avatars and suggestions for improving the evaluations of educational games.<br>
DOI: 10.6084/m9.figshare.12815525
title: Job Rotation Approach in Nursing Profession

description: This study aims to explore the perceived level of job rotation, job satisfaction, job commitment, job turnover, and job conflict among nurses who had job rotation experience in Jordan.
DOI: 10.17028/rd.lboro.12815579.v1
title: Supplementary information files for Designing a programming game to improve children’s procedural abstraction skills in scratch

description: Supplementary information files for Designing a programming game to improve children’s procedural abstraction skills in scratch <br>The recent shift in compulsory education from ICT-focused computing curricula to informatics, digital literacy and computer science, has resulted in children being taught computing using block-based programming tools such as Scratch, with teaching that is often limited by school resources and teacher expertise. Even without these limitations, Scratch users often produce code with ‘code smells’ such as duplicate blocks and long scripts which impact how they understand and debug projects. These code smells can be removed using procedural abstraction, an important concept in computer science rarely taught to this age group. This article describes the design of a novel educational block-based programming game, Pirate Plunder, which concentrates on how procedural abstraction is introduced and reinforced. The article then reports an extended evaluation to measure the game’s efficacy with children aged 10 and 11, finding that children who played the game were then able to use procedural abstraction in Scratch. The article then uses game analytics to explore why the game was effective and gives three recommendations for educational game design based on this research: using learning trajectories and restrictive success conditions to introduce complex content, increasing learner investment through customisable avatars and suggestions for improving the evaluations of educational games.<br>
DOI: 10.6084/m9.figshare.12814853
title: Pöllänen et al. Supplement to Dynamics of Islet Autoantibodies During Prospective Follow-Up from Birth up to 15 Years of Age

description: Supplement to Pöllänen et al. "<b>Dynamics of Islet Autoantibodies During Prospective Follow-Up from Birth up to 15 Years of Age" containing supplemental methods, eight supplemental tables and two supplemental figures.</b>
DOI: 10.6084/m9.figshare.12814767
title: Table S1. Subduction-related subcontinental lithospheric mantle metasomatism and crustal thickening: origin for superchondritic Nb/Ta in mafic dykes

description: Table S1: Major elements (wt.%) and trace elements (ppm) compositions of Neoproterozoic mafic dykes, eastern Jiangnan Orogen.
DOI: 10.25592/uhhfdm.1452
title: PAIDUS Media

description: Additional data from the PAIDUS project.
DOI: 10.6084/m9.figshare.12814767.v1
title: Table S1. Subduction-related subcontinental lithospheric mantle metasomatism and crustal thickening: origin for superchondritic Nb/Ta in mafic dykes

description: Table S1: Major elements (wt.%) and trace elements (ppm) compositions of Neoproterozoic mafic dykes, eastern Jiangnan Orogen.
DOI: 10.25592/uhhfdm.1451
title: PAIDUS Media

description: Additional data from the PAIDUS project.
DOI: 10.6084/m9.figshare.12814751
title: A Delay Equation Model for the Atlantic Multidecadal Oscillation - Supplementary Material

description: Supplementary material for manuscript:<i>S. K. J. Falkena, C. Quinn, J. Sieber, H. A. Dijkstra</i> - <b>A Delay Equation Model for the Atlantic Multidecadal Oscillation</b><br>arxiv: 2008.07219<br>Contents:<b>Figure_codes_AMO.zip (</b>Mathematica and MATLAB codes)The zip file contains the codes for all the figures produced in the above manuscript. The codes are grouped by associated figure numbers. Figure 6 was produced with Mathematica. Figures 1, 4, 5, 7, 8 and 9 were produced with MATLAB.