cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16772215
title: Supporting the use of adjuvant radiotherapy in recurrent pleomorphic adenoma of the parotid

description: The use of adjuvant radiotherapy remains controversial in the treatment of recurrent pleomorphic adenomas. The aim of this study was to provide the highest level of evidence possible by performing a systematic review and meta-analysis of the literature. We searched the English-language literature between 1985 and 2019.Inclusion criteria included any study on the treatment and outcome of recurrent pleomorphic adenomas. Exclusion criteria included the use of radiotherapy for residual tumors, case reports, and pleomorphic adenomas not arising from the parotid. A total of 522 abstracts were studied, data analyzed from 14 studies, on a total of 697 patients. When the data werepooled, the overall risk of further recurrence was 21%. In studies where surgery alone was undertaken this increased to 26% and decreased to 10% in those receiving adjuvant radiotherapy (<i>p</i> = .000). There were 21 recurrences in 159 patients in the radiotherapy group, and 151 recurrences out of 538 patients in the surgery group (<i>p</i> &lt; .0001). These data support the use of radiotherapy to decrease the risk of re-recurrence in recurrent pleomorphic adenoma. This study is the highest level of evidence currently available in guiding management of recurrent pleomorphic adenoma.
DOI: 10.6084/m9.figshare.16772215.v1
title: Supporting the use of adjuvant radiotherapy in recurrent pleomorphic adenoma of the parotid

description: The use of adjuvant radiotherapy remains controversial in the treatment of recurrent pleomorphic adenomas. The aim of this study was to provide the highest level of evidence possible by performing a systematic review and meta-analysis of the literature. We searched the English-language literature between 1985 and 2019.Inclusion criteria included any study on the treatment and outcome of recurrent pleomorphic adenomas. Exclusion criteria included the use of radiotherapy for residual tumors, case reports, and pleomorphic adenomas not arising from the parotid. A total of 522 abstracts were studied, data analyzed from 14 studies, on a total of 697 patients. When the data werepooled, the overall risk of further recurrence was 21%. In studies where surgery alone was undertaken this increased to 26% and decreased to 10% in those receiving adjuvant radiotherapy (<i>p</i> = .000). There were 21 recurrences in 159 patients in the radiotherapy group, and 151 recurrences out of 538 patients in the surgery group (<i>p</i> &lt; .0001). These data support the use of radiotherapy to decrease the risk of re-recurrence in recurrent pleomorphic adenoma. This study is the highest level of evidence currently available in guiding management of recurrent pleomorphic adenoma.
DOI: 10.17028/rd.lboro.22658971
title: Supplementary information files for Motility and self-organization of gliding Chlamydomonas populations

description: Supplementary files for article Motility and self-organization of gliding <em>Chlamydomonas</em> populations <br> Cellular appendages such as cilia and flagella represent universal tools enabling cells and microbes, among other essential functionalities, to propel themselves in diverse environments. In its planktonic, i.e., freely swimming, state the unicellular biflagellated microbe <em>Chlamydomonas reinhardtii</em> employs a periodic breaststroke-like flagellar beating to displace the surrounding fluid. Another flagella-mediated motility mode is observed for surface-associated <em>Chlamydomonas</em> cells, which glide along the surface by means of force transduction through an intraflagellar transport machinery. Experiments and statistical motility analysis demonstrate that this gliding motility enhances clustering and supports self-organization of <em>Chlamydomonas</em> populations. We employ Minkowski functionals to characterize the spatiotemporal organization of the surface-associated cell monolayer. We find that simulations based on a purely mechanistic approach cannot capture the observed nonrandom cell configurations. Quantitative agreement with experimental data, however, is achieved when considering a minimal cognitive model of the flagellar mechanosensing.
DOI: 10.17028/rd.lboro.22658971.v1
title: Supplementary information files for Motility and self-organization of gliding Chlamydomonas populations

description: Supplementary files for article Motility and self-organization of gliding <em>Chlamydomonas</em> populations <br> Cellular appendages such as cilia and flagella represent universal tools enabling cells and microbes, among other essential functionalities, to propel themselves in diverse environments. In its planktonic, i.e., freely swimming, state the unicellular biflagellated microbe <em>Chlamydomonas reinhardtii</em> employs a periodic breaststroke-like flagellar beating to displace the surrounding fluid. Another flagella-mediated motility mode is observed for surface-associated <em>Chlamydomonas</em> cells, which glide along the surface by means of force transduction through an intraflagellar transport machinery. Experiments and statistical motility analysis demonstrate that this gliding motility enhances clustering and supports self-organization of <em>Chlamydomonas</em> populations. We employ Minkowski functionals to characterize the spatiotemporal organization of the surface-associated cell monolayer. We find that simulations based on a purely mechanistic approach cannot capture the observed nonrandom cell configurations. Quantitative agreement with experimental data, however, is achieved when considering a minimal cognitive model of the flagellar mechanosensing.
DOI: 10.6084/m9.figshare.22658749
title: Supplementary data for ''Optimal Pricing and Energy Sharing of EV Charging Stations With an Augmented User Equilibrium Model''

description: This file includes the data of test system 2. Please refer to my paper ''Optimal Pricing and Energy Sharing of EV Charging Stations With an Augmented User Equilibrium Model'' if published online.
DOI: 10.5522/04/21982400.v1
title: Lattice-Brusselator kinetic Monte Carlo simulation: raw data

description: Raw input/output data from a kinetic Monte Carlo simulation of the lattice-based Brusselator model, performed using software <em>Zacros</em> (http://zacros.org; v3.00dev, commit hash a620e1a56ec45622488646bf85e9bf18d06753b8). The simulation was performed on HPC facility Thomas@UCL using 625 MPI processes, from 14-May-2021 to 4-Jul-2021 (the simulation was restarted 24 times during this period, to address cluster walltime restrictions). The simulation reproduces spiral wave formation from initial conditions that result in a "broken" wavefront. The dataset is provided as a compressed rar file containing plain text files.
DOI: 10.5522/04/21982400
title: Lattice-Brusselator kinetic Monte Carlo simulation: raw data

description: Raw input/output data from a kinetic Monte Carlo simulation of the lattice-based Brusselator model, performed using software <em>Zacros</em> (http://zacros.org; v3.00dev, commit hash a620e1a56ec45622488646bf85e9bf18d06753b8). The simulation was performed on HPC facility Thomas@UCL using 625 MPI processes, from 14-May-2021 to 4-Jul-2021 (the simulation was restarted 24 times during this period, to address cluster walltime restrictions). The simulation reproduces spiral wave formation from initial conditions that result in a "broken" wavefront. The dataset is provided as a compressed rar file containing plain text files.
DOI: 10.5255/ukda-sn-855189
title: International Rural Gentrification Project: England Data, 2014-2018

description: The project aimed to thoroughly examine the rural geographies of gentrification in France, the UK, and the USA through a comparative study of its theory, forms, and dynamics. It sought to determine whether rural gentrification could be used as a concept to explain changes in rural areas in these countries. he project began by using the concept of "sociologies of translation" to understand how the term "rural gentrification" was used in academic, policy, and popular discourses in the past and present in these countries. To identify the presence and use of social assets within rural gentrification, an asset-based theory was developed. National datasets were mapped using empirical indicators and comparable measures of rural, urban, and peri-urban spaces to analyse the geographies of gentrification in these countries and develop a typology of rural gentrification. The archive consists of the UK element of the International Rural Gentrification (iRGENT) project The dataset contains material from a questionnaire survey conducted in 9 villages, located in 6 local authority Districts in England
DOI: 10.35078/cwva8i
title: Replication Data for: Ficha epidemiológica de localidade: Distrito: Diamantina| Município: Confins

description: Levantamento Triatomínico com operações de campo ocorridas em Minas Gerais pela Superintendência de Campanhas de Saúde Pública (SUCAM) e FUNASA (Fundação Nacional de Saúde), no período de 1979 a 1999, objetivando a busca da presença de vetores da doença de Chagas ou de vestígios dessa presença. A partir dela são orientadas as operações com inseticida (pt) Triatomine survey with field operations carried out in Minas Gerais by the Public Health Campaigns Superintendence (SUCAM) and FUNASA (National Health Foundation), from 1979 to 1999, aiming to search for the presence of Chagas disease vectors or traces of that presence. From it, operations with insecticide are guided (en) Encuesta de triatominos con operaciones de campo realizada en Minas Gerais por la Superintendencia de Campañas de Salud Pública (SUCAM) y FUNASA (Fundación Nacional de Salud), de 1979 a 1999, con el objetivo de buscar la presencia de vectores de la enfermedad de Chagas o rastros de esa presencia. Desde ella se orientan las operaciones con insecticida (es)
DOI: 10.6084/m9.figshare.14192783
title: Genome-scale profiling of gene function by genetic interactions and single-cell phenotyping

description: <strong>Cellular and organismal phenotypes are controlled by complex gene regulatory networks. However, reference maps of gene function are still scarce across different organisms. Here, we generated synthetic genetic interaction and cell morphology profiles of more than 6,800 genes in cultured </strong><em><strong>Drosophila</strong></em><strong> cells. The resulting map of genetic interactions was used for machine learning-based gene function discovery, assigning function to genes in 47 modules. Further, we developed Cytoclass, as a method to analyze genetic interactions for discrete cell states at the single cell level. This approach identified an interaction of Cdk2 and the Cop9 signalosome complex, triggering senescence-associated secretory phenotypes and immunogenic conversion in hemocytic cells. Together, our data represent a genome-scale resource of functional gene profiles to uncover mechanisms underlying genetic interactions and their plasticity at the single cell level.</strong>
DOI: 10.6084/m9.figshare.14192783.v3
title: Genome-scale profiling of gene function by genetic interactions and single-cell phenotyping

description: <strong>Cellular and organismal phenotypes are controlled by complex gene regulatory networks. However, reference maps of gene function are still scarce across different organisms. Here, we generated synthetic genetic interaction and cell morphology profiles of more than 6,800 genes in cultured </strong><em><strong>Drosophila</strong></em><strong> cells. The resulting map of genetic interactions was used for machine learning-based gene function discovery, assigning function to genes in 47 modules. Further, we developed Cytoclass, as a method to analyze genetic interactions for discrete cell states at the single cell level. This approach identified an interaction of Cdk2 and the Cop9 signalosome complex, triggering senescence-associated secretory phenotypes and immunogenic conversion in hemocytic cells. Together, our data represent a genome-scale resource of functional gene profiles to uncover mechanisms underlying genetic interactions and their plasticity at the single cell level.</strong>
DOI: 10.6084/m9.figshare.14192783.v2
title: Genome-scale profiling of gene function by genetic interactions and single-cell phenotyping

description: <strong>Cellular and organismal phenotypes are controlled by complex gene regulatory networks. However, reference maps of gene function are still scarce across different organisms. Here, we generated synthetic genetic interaction and cell morphology profiles of more than 6,800 genes in cultured </strong><em><strong>Drosophila</strong></em><strong> cells. The resulting map of genetic interactions was used for machine learning-based gene function discovery, assigning function to genes in 47 modules. Further, we developed Cytoclass, as a method to analyze genetic interactions for discrete cell states at the single cell level. This approach identified an interaction of Cdk2 and the Cop9 signalosome complex, triggering senescence-associated secretory phenotypes and immunogenic conversion in hemocytic cells. Together, our data represent a genome-scale resource of functional gene profiles to uncover mechanisms underlying genetic interactions and their plasticity at the single cell level.</strong>
DOI: 10.5522/04/21990122.v1
title: Lattice-Brusselator kinetic Monte Carlo simulation: merged output

description: Merged dataset from a kinetic Monte Carlo simulation of the lattice-based Brusselator model, performed using software <em>Zacros</em> (http://zacros.org; v3.00dev, commit hash a620e1a56ec45622488646bf85e9bf18d06753b8). The simulation was performed on HPC facility Thomas@UCL using 625 MPI processes, from 14-May-2021 to 4-Jul-2021 (the simulation was restarted 24 times during this period, to address cluster walltime restrictions). All individual trajectories of the 625 MPI processes were combined for the history, lattice, process statistics and species output. The dataset is provided as a compressed rar file containing plain text files.
DOI: 10.5522/04/21990122
title: Lattice-Brusselator kinetic Monte Carlo simulation: merged output

description: Merged dataset from a kinetic Monte Carlo simulation of the lattice-based Brusselator model, performed using software <em>Zacros</em> (http://zacros.org; v3.00dev, commit hash a620e1a56ec45622488646bf85e9bf18d06753b8). The simulation was performed on HPC facility Thomas@UCL using 625 MPI processes, from 14-May-2021 to 4-Jul-2021 (the simulation was restarted 24 times during this period, to address cluster walltime restrictions). All individual trajectories of the 625 MPI processes were combined for the history, lattice, process statistics and species output. The dataset is provided as a compressed rar file containing plain text files.
DOI: 10.6084/m9.figshare.22658824.v2
title: lnRR data of mnp on nitrogen 20230419

description: Data for "Global analysis of the perturbation effects of metal-based nanoparticles on soil nitrogen cycling". It contains four Excel sheets: three data sheets and one annotation sheet.
DOI: 10.5281/zenodo.5655380
title: Supplementary Tables

description: <strong>Supplementary table 1. </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for subclinical ketosis for first lactation from 5 to 21 DIM (SCK1.1). <strong>Supplementary table 2.</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for subclinical ketosis for<strong> </strong>first lactation from 22 to 45 DIM (SCK1.2). <strong>Supplementary table 3.</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for subclinical ketosis for later lactations (2 to 5) from 5 to 21 DIM (SCK2.1). <strong>Supplementary table 4</strong>. Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for subclinical ketosis for<strong> </strong>later lactations (2 to 5) from 22 to 45 DIM (SCK2.2). <strong>Supplementary table 5.</strong> Enriched pathways (p&gt;0.01) obtained for subclinical ketosis for first lactation from 5 to 21 DIM (SCK1.1). <strong>Supplementary table 6.</strong> Enriched pathways (p&gt;0.01) obtained for subclinical ketosis for first lactation from 22 to 45 DIM (SCK1.2). <strong>Supplementary table 7.</strong> Enriched pathways (p&gt;0.01) obtained for subclinical ketosis for later lactations (2 to 5) from 5 to 21 DIM (SCK2.1). <strong>Supplementary table 8.</strong> Enriched pathways (p&gt;0.01) obtained for subclinical ketosis for later lactations (2 to 5) from 22 to 45 DIM (SCK2.2).
DOI: 10.5281/zenodo.5655379
title: Supplementary Tables

description: <strong>Table S1: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S2:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S3: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S4:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2) <strong>Table S5:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S6: </strong>Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S7:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S8:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2)
DOI: 10.5281/zenodo.7846174
title: Supplementary Tables

description: <strong>Table S1: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S2:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S3: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S4:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2) <strong>Table S5:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S6: </strong>Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S7:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S8:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2)
DOI: 10.5281/zenodo.7846177
title: Supplementary Tables

description: <strong>Table S1: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S2:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S3: </strong>Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S4:</strong> Significant (P≤ 0.05) enriched Molecular Function, Cellular component, and Biological process by Fisher's test for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2) <strong>Table S5:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 5 to 21 DIM (BHB1.1) <strong>Table S6: </strong>Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at first lactation from 22 to 45 DIM (BHB1.2) <strong>Table S7:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 5 to 21 DIM (BHB2.1) <strong>Table S8:</strong> Enriched pathways (p&gt;0.01) obtained for β-hydroxybutyrate concentration at later lactations (2 to 5) from 22 to 45 DIM (BHB2.2)
DOI: 10.17028/rd.lboro.22659067
title: Supplementary information files for Disconnection in a left-hemispheric temporo-parietal network impairs multiplication fact retrieval

description: Supplementary files for article Disconnection in a left-hemispheric temporo-parietal network impairs multiplication fact retrieval <br> Arithmetic fact retrieval has been suggested to recruit a left-lateralized network comprising perisylvian language areas, parietal areas such as the angular gyrus (AG), and non-neocortical structures such as the hippocampus. However, the underlying white matter connectivity of these areas has not been evaluated systematically so far. Using simple multiplication problems, we evaluated how disconnections in parietal brain areas affected arithmetic fact retrieval following stroke. We derived disconnectivity measures by jointly considering data from n = 73 patients with acute unilateral lesions in either hemisphere and a white-matter tractography atlas (HCP-842) using the Lesion Quantification Toolbox (LQT). Whole-brain voxel-based analysis indicated a left-hemispheric cluster of white matter fibers connecting the AG and superior temporal areas to be associated with a fact retrieval deficit. Subsequent analyses of direct gray-to-gray matter disconnections revealed that disconnections of additional left-hemispheric areas (e.g., between the superior temporal gyrus and parietal areas) were significantly associated with the observed fact retrieval deficit. Results imply that disconnections of parietal areas (i.e., the AG) with language-related areas (i.e., superior and middle temporal gyri) seem specifically detrimental to arithmetic fact retrieval. This suggests that arithmetic fact retrieval recruits a widespread left-hemispheric network and emphasizes the relevance of white matter connectivity for number processing.