cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5718331
title: Gingival crevicular fluid oxidative stress level in patients with periodontal disease and hyperlipidemia

description: Abstract: This study aimed to assess the impact of hyperlipidemia on healthy and diseased periodontal tissue by evaluating oxidative stress biomarkers in gingival crevicular fluid (GCF). Clinical periodontal parameters and blood serum lipid, GCF malondialdehyde (MDA), protein carbonyl (PC), and total antioxidant capacity (TAOC) levels were evaluated in six age and sex-matched groups (n = 15 each) of normolipidemic and hyperlipidemic individuals as follows: normolipidemic + periodontally healthy (H), normolipidemic + gingivitis (G), normolipidemic + chronic periodontitis (CP), hyperlipidemic + periodontally healthy (HH), hyperlipidemic + gingivitis (HG), and hyperlipidemic + CP (HCP). GCF MDA, and PC levels varied among groups, with patients with periodontitis having the highest MDA and PC levels [CP &gt; G &gt; H (p &lt; 0.01) and HCP &gt; HG &gt; HH (p &lt; 0.01)] and the lowest TAOC levels [CP &lt; G &lt; H (p &lt; 0.01) and HCP &lt; HG &lt; HH (p &lt; 0.01)]. Furthermore, paired comparisons showed MDA and PC levels to be higher and TAOC levels to be lower in HCP compared with NCP (p &lt; 0.01). In patients with hyperlipidemia, GCF, MDA, and PC levels positively correlated with clinical assessments and serum triglycerides (TG), total cholesterol (TC), and low-density lipoprotein cholesterol (LDL) levels and negatively correlated with serum high-density lipoprotein cholesterol (HDL) levels, whereas GCF TAOC levels negatively correlated with clinical assessments and serum TG, TC, and LDL levels, but positively correlated with serum HDL levels (p &lt; 0.01). In normolipidemic patients, GCF, MDA, and PC levels positively correlated with clinical assessments and serum TG levels and negatively correlated with serum HDL levels, whereas GCF TAOC levels negatively correlated with clinical assessments and serum TG levels and positively correlated with serum HDL levels (p &lt; 0.01). In conclusion, abnormal serum lipid subfractions could be considered a risk factor for enhancing oxidative stress in GCF in the presence of periodontal disease.
DOI: 10.6084/m9.figshare.5718331.v1
title: Gingival crevicular fluid oxidative stress level in patients with periodontal disease and hyperlipidemia

description: Abstract: This study aimed to assess the impact of hyperlipidemia on healthy and diseased periodontal tissue by evaluating oxidative stress biomarkers in gingival crevicular fluid (GCF). Clinical periodontal parameters and blood serum lipid, GCF malondialdehyde (MDA), protein carbonyl (PC), and total antioxidant capacity (TAOC) levels were evaluated in six age and sex-matched groups (n = 15 each) of normolipidemic and hyperlipidemic individuals as follows: normolipidemic + periodontally healthy (H), normolipidemic + gingivitis (G), normolipidemic + chronic periodontitis (CP), hyperlipidemic + periodontally healthy (HH), hyperlipidemic + gingivitis (HG), and hyperlipidemic + CP (HCP). GCF MDA, and PC levels varied among groups, with patients with periodontitis having the highest MDA and PC levels [CP &gt; G &gt; H (p &lt; 0.01) and HCP &gt; HG &gt; HH (p &lt; 0.01)] and the lowest TAOC levels [CP &lt; G &lt; H (p &lt; 0.01) and HCP &lt; HG &lt; HH (p &lt; 0.01)]. Furthermore, paired comparisons showed MDA and PC levels to be higher and TAOC levels to be lower in HCP compared with NCP (p &lt; 0.01). In patients with hyperlipidemia, GCF, MDA, and PC levels positively correlated with clinical assessments and serum triglycerides (TG), total cholesterol (TC), and low-density lipoprotein cholesterol (LDL) levels and negatively correlated with serum high-density lipoprotein cholesterol (HDL) levels, whereas GCF TAOC levels negatively correlated with clinical assessments and serum TG, TC, and LDL levels, but positively correlated with serum HDL levels (p &lt; 0.01). In normolipidemic patients, GCF, MDA, and PC levels positively correlated with clinical assessments and serum TG levels and negatively correlated with serum HDL levels, whereas GCF TAOC levels negatively correlated with clinical assessments and serum TG levels and positively correlated with serum HDL levels (p &lt; 0.01). In conclusion, abnormal serum lipid subfractions could be considered a risk factor for enhancing oxidative stress in GCF in the presence of periodontal disease.
DOI: 10.6084/m9.figshare.5718328
title: PREDICTION OF PERFORMANCE FROM ANTHROPOMETRIC, PHYSIOLOGICAL AND STRENGTH COMPONENTS IN ROWING

description: ABSTRACT Introduction: The performance of rowers in the rowing ergometer is a matter of curiosity among scientists. Prediction models can measure performance on the rowing ergometer. In this sense, the studied variables were analyzed as possible predictors of performance. Objective: To develop different regression models in order to predict performance using the anthropometric variables body composition, maximal oxygen consumption, and strength. Methods: Twenty rowers participated in the study (21.35±0.98 years). The tests of maximal oxygen consumption, strength, 500 m, and dual-energy X-ray absorptiometry were applied. Multiple linear regressions were performed on SPSS 16 for the four different regression models. The reliability of the models was indicated by the coefficient of determination R2 and by the standard error of the estimation (SEE). Results: The anthropometry-power models (R2=0.92, SEE=0.06), VO2 peak (R2=0.88, SEE=0.07), strength-power (R2=0.93, SEE=0.06) presented reliable prediction for 500 m in the rowing ergometer, as well as the combination of all the variables (R2=0.94, SEE=0.08). Conclusion: Once these analyzes have been made, we can assure the necessity of these models with the objective of complementing the identification, selection of talents and, above all, improvement in performance.
DOI: 10.6084/m9.figshare.5718328.v1
title: PREDICTION OF PERFORMANCE FROM ANTHROPOMETRIC, PHYSIOLOGICAL AND STRENGTH COMPONENTS IN ROWING

description: ABSTRACT Introduction: The performance of rowers in the rowing ergometer is a matter of curiosity among scientists. Prediction models can measure performance on the rowing ergometer. In this sense, the studied variables were analyzed as possible predictors of performance. Objective: To develop different regression models in order to predict performance using the anthropometric variables body composition, maximal oxygen consumption, and strength. Methods: Twenty rowers participated in the study (21.35±0.98 years). The tests of maximal oxygen consumption, strength, 500 m, and dual-energy X-ray absorptiometry were applied. Multiple linear regressions were performed on SPSS 16 for the four different regression models. The reliability of the models was indicated by the coefficient of determination R2 and by the standard error of the estimation (SEE). Results: The anthropometry-power models (R2=0.92, SEE=0.06), VO2 peak (R2=0.88, SEE=0.07), strength-power (R2=0.93, SEE=0.06) presented reliable prediction for 500 m in the rowing ergometer, as well as the combination of all the variables (R2=0.94, SEE=0.08). Conclusion: Once these analyzes have been made, we can assure the necessity of these models with the objective of complementing the identification, selection of talents and, above all, improvement in performance.
DOI: 10.6084/m9.figshare.5718325
title: Plant species and abundance records for burned and unburned areas

description: These data were collected from three sites with paired burned and unburned comparison areas (6 survey units). Plant species and their abundances were recorded on 5 transects in each survey unit, at 4 meter intervals, for a total of 390 data points. More information available with published article: https://peerj.com/articles/5114/ p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 12.0px 'Helvetica Neue'; color: #454545}
DOI: 10.6084/m9.figshare.5718325.v1
title: Plant species and abundance records for burned and unburned areas

description: These data were collected from three sites with paired burned and unburned comparison areas (6 survey units). Plant species and their abundances were recorded on 5 transects in each survey unit, at 4 meter intervals, for a total of 390 data points. More information available with published article: https://peerj.com/articles/5114/ p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; font: 12.0px 'Helvetica Neue'; color: #454545}
DOI: 10.6084/m9.figshare.5718292
title: 2017-11-30_bhybridum_filtered_default.vcf.gz

description: VCF of genotype calls generated with mpileup. See paper for details
DOI: 10.6084/m9.figshare.5718292.v1
title: 2017-11-30_bhybridum_filtered_default.vcf.gz

description: VCF of genotype calls generated with mpileup. See paper for details
DOI: 10.6084/m9.figshare.5718286
title: Data to test figshare with website

description: Data to test website integration with phase field website<br>
DOI: 10.4225/03/5a3999b9e3215
title: High resolution temperature data for ecological research and management on the Southern Ocean Islands

description: Gap-filled, mean monthly, high-resolution (1 km) land surface temperature observations for 20 Southern Ocean Islands, for a 15-year period (2001-2015).
DOI: 10.6084/m9.figshare.5718268
title: Front-Door Versus Back-Door Adjustment With Unmeasured Confounding: Bias Formulas for Front-Door and Hybrid Adjustments With Application to a Job Training Program

description: We demonstrate that the front-door adjustment can be a useful alternative to standard covariate adjustments (i.e., back-door adjustments), even when the assumptions required for the front-door approach do not hold. We do this by providing asymptotic bias formulas for the front-door approach that can be compared directly to bias formulas for the back-door approach. In some cases, this allows the tightening of bounds on treatment effects. We also show that under one-sided noncompliance, the front-door approach does not rely on the use of control units. This finding has implications for the design of studies when treatment cannot be withheld from individuals (perhaps for ethical reasons). We illustrate these points with an application to the National Job Training Partnership Act Study.
DOI: 10.6084/m9.figshare.5718268.v2
title: Front-Door Versus Back-Door Adjustment With Unmeasured Confounding: Bias Formulas for Front-Door and Hybrid Adjustments With Application to a Job Training Program

description: We demonstrate that the front-door adjustment can be a useful alternative to standard covariate adjustments (i.e., back-door adjustments), even when the assumptions required for the front-door approach do not hold. We do this by providing asymptotic bias formulas for the front-door approach that can be compared directly to bias formulas for the back-door approach. In some cases, this allows the tightening of bounds on treatment effects. We also show that under one-sided noncompliance, the front-door approach does not rely on the use of control units. This finding has implications for the design of studies when treatment cannot be withheld from individuals (perhaps for ethical reasons). We illustrate these points with an application to the National Job Training Partnership Act Study.
DOI: 10.6084/m9.figshare.5718259
title: Service failures and challenges in responding to people bereaved through drugs and alcohol: An interprofessional analysis

description: This article reports findings from the first two stages of a three-stage qualitative study which considered the role of services, including public, private and charitable organisations, in responding to the needs of adults bereaved following the drug and/or alcohol-related death of someone close. The study, the first of its kind to explore the landscape and role of services in substance use deaths, was conducted over two sites: south west England and Scotland. In stage 1 of the research, adopting both convenience and purposive sampling, data were collected via semi-structured interviews on experiences and support needs of bereaved individuals (<i>n</i> = 106). In stage 2, six focus groups were conducted with a purposive sample of practitioners (<i>n</i> = 40), including those working for the police, coroner’s service, procurator fiscal depute (Scotland), health service, funeral service, press, clergy, Public Health England, Drugs Policy Unit, bereavement counselling/support and alcohol and drug treatment services, to investigate how services may better respond to this bereavement. Thematic analysis from both data-sets identified two overarching themes. The first, focusing on practitioner responses, captures how these bereaved people may meet with inadequate, unkind, and discriminatory responses from services. Having to navigate unfamiliar, fragmented, and time-consuming procedures compounds the bereaved’s distress at an already difficult time, illustrated by a ‘mapping’ of relevant services. The second relates to challenges and opportunities for those responding. Service failures reflect practitioners’ poor understanding of both substance use bereavement and the range of other practitioners and services involved. Those bereaved are a poorly understood, neglected and stigmatised group of service users. There is a need for services to respond without judgement or insensitive language, and provide information about, communicate and work closely with, other services despite differences in working practices and cultures. These recommendations could positively affect bereaved peoples’ experiences, alleviating stress and overwhelm at a particularly vulnerable time.
DOI: 10.6084/m9.figshare.5718259.v1
title: Service failures and challenges in responding to people bereaved through drugs and alcohol: An interprofessional analysis

description: This article reports findings from the first two stages of a three-stage qualitative study which considered the role of services, including public, private and charitable organisations, in responding to the needs of adults bereaved following the drug and/or alcohol-related death of someone close. The study, the first of its kind to explore the landscape and role of services in substance use deaths, was conducted over two sites: south west England and Scotland. In stage 1 of the research, adopting both convenience and purposive sampling, data were collected via semi-structured interviews on experiences and support needs of bereaved individuals (<i>n</i> = 106). In stage 2, six focus groups were conducted with a purposive sample of practitioners (<i>n</i> = 40), including those working for the police, coroner’s service, procurator fiscal depute (Scotland), health service, funeral service, press, clergy, Public Health England, Drugs Policy Unit, bereavement counselling/support and alcohol and drug treatment services, to investigate how services may better respond to this bereavement. Thematic analysis from both data-sets identified two overarching themes. The first, focusing on practitioner responses, captures how these bereaved people may meet with inadequate, unkind, and discriminatory responses from services. Having to navigate unfamiliar, fragmented, and time-consuming procedures compounds the bereaved’s distress at an already difficult time, illustrated by a ‘mapping’ of relevant services. The second relates to challenges and opportunities for those responding. Service failures reflect practitioners’ poor understanding of both substance use bereavement and the range of other practitioners and services involved. Those bereaved are a poorly understood, neglected and stigmatised group of service users. There is a need for services to respond without judgement or insensitive language, and provide information about, communicate and work closely with, other services despite differences in working practices and cultures. These recommendations could positively affect bereaved peoples’ experiences, alleviating stress and overwhelm at a particularly vulnerable time.
DOI: 10.6084/m9.figshare.5718232
title: Test for Trend With a Multinomial Outcome

description: There is no established procedure for testing for trend with nominal outcomes that would provide both a global hypothesis test and outcome-specific inference. We derive a simple formula for such a test using a weighted sum of Cochran–Armitage test statistics evaluating the trend in each outcome separately. The test is shown to be equivalent to the score test for multinomial logistic regression, however, the new formulation enables the derivation of a sample size formula and multiplicity-adjusted inference for individual outcomes. The proposed methods are implemented in the R package multiCA.
DOI: 10.6084/m9.figshare.5718232.v2
title: Test for Trend With a Multinomial Outcome

description: There is no established procedure for testing for trend with nominal outcomes that would provide both a global hypothesis test and outcome-specific inference. We derive a simple formula for such a test using a weighted sum of Cochran–Armitage test statistics evaluating the trend in each outcome separately. The test is shown to be equivalent to the score test for multinomial logistic regression, however, the new formulation enables the derivation of a sample size formula and multiplicity-adjusted inference for individual outcomes. The proposed methods are implemented in the R package multiCA.
DOI: 10.6084/m9.figshare.5718232.v1
title: Test for Trend with a Multinomial Outcome

description: There is no established procedure for testing for trend with nominal outcomes that would provide both a global hypothesis test and outcome-specific inference. We derive a simple formula for such a test using a weighted sum of Cochran-Armitage test statistics evaluating the trend in each outcome separately. The test is shown to be equivalent to the score test for multinomial logistic regression, however the new formulation enables the derivation of a sample size formula and multiplicity-adjusted inference for individual outcomes. The proposed methods are implemented in the R package multiCA.
DOI: 10.6084/m9.figshare.5718187
title: Carotid_Rete_Likelihood_ACE

description: R code, phylogeny, and data set to accompany O'Brien (in press) "From anomalous arteries to selective brain cooling..." Anatomical Record.
DOI: 10.6084/m9.figshare.5718187.v1
title: Carotid_Rete_Likelihood_ACE

description: R code, phylogeny, and data set to accompany O'Brien (in press) "From anomalous arteries to selective brain cooling..." Anatomical Record.
DOI: 10.6084/m9.figshare.5717983
title: IN REVIEW:Spatial and temporal population coherence in intertidal clams

description: This repository includes detailed code and raw data for reproducing analyses in <i>Spatial and temporal population coherence in intertidal clams </i>(Barber et al.). Files include readme.txt containing metadata, detailed R code, and several .csv files with environmental data needed for dynamic factor analysis.
DOI: 10.6084/m9.figshare.5717983.v1
title: Spatial and temporal population coherence in intertidal clams

description: This repository includes detailed code and raw data for reproducing analyses in <i>Spatial and temporal population coherence in intertidal clams </i>(Barber et al.). Files include readme.txt containing metadata, detailed R code, and several .csv files with environmental data needed for dynamic factor analysis.
DOI: 10.6084/m9.figshare.5717845
title: Fig3-4 data.xlsx

description: Fig. 3 and 4 source data
DOI: 10.6084/m9.figshare.5717845.v1
title: Fig3-4 data.xlsx

description: Fig. 3 and 4 source data
DOI: 10.6084/m9.figshare.5717842
title: Fig2 data.xlsx

description: Fig 2 source data
DOI: 10.6084/m9.figshare.5717842.v1
title: Fig2 data.xlsx

description: Fig 2 source data
DOI: 10.6084/m9.figshare.5717839
title: Fig7 data.xlsx

description: Fig. 7 source data. Raw measurements of phagocytic forces by human macrophages
DOI: 10.6084/m9.figshare.5717839.v1
title: Fig7 data.xlsx

description: Fig. 7 source data. Raw measurements of phagocytic forces by human macrophages
DOI: 10.25919/5ed5e83bb35b3
title: Research data sharing in the Australian national science agency: Understanding the relative importance of organisational, disciplinary and domain-specific factors

description: These data were captured as part of the CSIRO Data Practices and Attitudes Survey. The data files contain the R script and the set of measures used for the multi-level modelling of organisational, disciplinary and domain factors which influence research data sharing practices. For this reason there are four data files, one representing the data aggregated by disciplinary group (discipline_aggregation), one representing the data aggregated by organisational unit (orgunit_aggregation), one representing the data aggregated by domain group (domain_aggregation), and the corresponding R script.
DOI: 10.6084/m9.figshare.5716573
title: E14toE16allgeno.csv

description: R analysis code and csv data file for image analyses.
DOI: 10.6084/m9.figshare.5716573.v1
title: E14toE16allgeno.csv

description: R analysis code and csv data file for image analyses.
DOI: 10.6084/m9.figshare.5716366
title: Dataset from Tetrapod distribution and temperature rise during the Permian–Triassic mass extinction

description: Here we provide all data used in this paper, calculations and plots
DOI: 10.6084/m9.figshare.5716363
title: Acclimation curve data from Gradual plasticity alters population dynamics in variable environments: thermal acclimation in the green alga <i>Chlamydomonas reinhartdii</i>

description: Environmental variability is ubiquitous, but its effects on populations are not fully understood or predictable. Recent attention has focused on how rapid evolution can impact ecological dynamics via adaptive trait change. However, the impact of trait change arising from plastic responses has received less attention, and is often assumed to optimize performance and unfold on a separate, faster timescale than ecological dynamics. Challenging these assumptions, we propose that gradual plasticity is important for ecological dynamics, and present a study of the plastic responses of the freshwater green algae <i>Chlamydomonas reinhardtii</i> as it acclimates to temperature changes. First, we show that <i>C. reinhardtii</i>'s gradual acclimation responses can both enhance and suppress its performance after a perturbation, depending on its prior thermal history. Second, we demonstrate that where conventional approaches fail to predict the population dynamics of <i>C. reinhardtii</i> exposed to temperature fluctuations, a new model of gradual acclimation succeeds. Finally, using high-resolution data, we show that phytoplankton in lake ecosystems can experience thermal variation sufficient to make acclimation relevant. These results challenge prevailing assumptions about plasticity's interactions with ecological dynamics. Amidst the current emphasis on rapid evolution, it is critical that we also develop predictive methods accounting for plasticity.