cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/105722
title: Gyrocompass data collected during research cruise SAV-10-02 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300475
title: Understanding the role of exogenous boosting in modeling varicella vaccination

description: <b>Introduction</b>: The exogenous boosting (EB) hypothesis posits that cell-mediated immunity is boosted for individuals reexposed to varicella-zoster virus (VZV). Historically, mathematical models of the impact of universal childhood varicella vaccination (UVV) have used limited data to capture EB and often conclude that UVV will temporarily increase herpes zoster (HZ) incidence. <b>Areas covered</b>: We updated a 2013 systematic literature review of 40 studies to summarize new evidence from observational or modeling studies related to EB and its parameterization. We abstracted data on observational study designs and mathematical model structures, EB frameworks, and HZ-related parameter values. <b>Expert commentary</b>: This review identified an additional 41 studies: 22 observational and 19 modeling studies. Observational analyses generally reported pre-UVV increases in HZ incidence, making it difficult to attribute post-UVV increases to UVV versus other causes. Modeling studies considered a range of EB frameworks, from no boosting to full permanent immunity. Mathematical modeling efforts are needed in countries with long-standing vaccination programs to capture the dynamics of VZV transmission and temporal changes that may affect HZ incidence. Use of real-world pre-/postvaccination data on varicella and HZ incidence to validate model predictions may improve approaches to EB parameterization and understanding of the effects of varicella vaccination programs.
DOI: 10.6084/m9.figshare.7300478
title: Where Have the Persons Gone? – An Illustration of Individual Score Methods in Autoregressive Panel Models

description: Much effort has been made to develop models for longitudinal data analysis, but comparably less attention has been paid to the use of individual specific values on latent variables in longitudinal models. In a tutorial style, this article introduces the reader to four common approaches to obtain individual scores – individual mean score, Bartlett method, regression method, Kalman filter – and reviews criteria commonly used to evaluate their performance. By means of simulated data, we mimic realistic scenarios and investigate in how far analytic results on the asymptotic performance of individual scores translate into practical situations. We end this article with a discussion of the use and usefulness of individual scores.
DOI: 10.7284/105724
title: Meteorological Station data collected during research cruise SAV-10-02 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300475.v1
title: Understanding the role of exogenous boosting in modeling varicella vaccination

description: <b>Introduction</b>: The exogenous boosting (EB) hypothesis posits that cell-mediated immunity is boosted for individuals reexposed to varicella-zoster virus (VZV). Historically, mathematical models of the impact of universal childhood varicella vaccination (UVV) have used limited data to capture EB and often conclude that UVV will temporarily increase herpes zoster (HZ) incidence. <b>Areas covered</b>: We updated a 2013 systematic literature review of 40 studies to summarize new evidence from observational or modeling studies related to EB and its parameterization. We abstracted data on observational study designs and mathematical model structures, EB frameworks, and HZ-related parameter values. <b>Expert commentary</b>: This review identified an additional 41 studies: 22 observational and 19 modeling studies. Observational analyses generally reported pre-UVV increases in HZ incidence, making it difficult to attribute post-UVV increases to UVV versus other causes. Modeling studies considered a range of EB frameworks, from no boosting to full permanent immunity. Mathematical modeling efforts are needed in countries with long-standing vaccination programs to capture the dynamics of VZV transmission and temporal changes that may affect HZ incidence. Use of real-world pre-/postvaccination data on varicella and HZ incidence to validate model predictions may improve approaches to EB parameterization and understanding of the effects of varicella vaccination programs.
DOI: 10.6084/m9.figshare.7300478.v1
title: Where Have the Persons Gone? – An Illustration of Individual Score Methods in Autoregressive Panel Models

description: Much effort has been made to develop models for longitudinal data analysis, but comparably less attention has been paid to the use of individual specific values on latent variables in longitudinal models. In a tutorial style, this article introduces the reader to four common approaches to obtain individual scores – individual mean score, Bartlett method, regression method, Kalman filter – and reviews criteria commonly used to evaluate their performance. By means of simulated data, we mimic realistic scenarios and investigate in how far analytic results on the asymptotic performance of individual scores translate into practical situations. We end this article with a discussion of the use and usefulness of individual scores.
DOI: 10.6084/m9.figshare.7300469
title: Simultaneous Credible Regions for Multiple Changepoint Locations

description: Within a Bayesian retrospective framework, we present a way of examining the distribution of changepoints through a novel set estimator. For a given level, α, we aim at smallest sets that cover all changepoints with a probability of at least 1 − α. These so-called smallest simultaneous credible regions, computed for certain values of α, provide parsimonious representations of the possible changepoint locations. In addition, combining them for a range of different α’s enables very informative yet condensed visualisations. Therewith we allow for the evaluation of model choices and the analysis of changepoint data to an unprecedented degree. This approach exhibits superior sensitivity, specificity and interpretability in comparison with highest density regions, marginal inclusion probabilities and confidence intervals inferred by stepR. Whilst their direct construction is usually intractable, asymptotically correct solutions can be derived from posterior samples. This leads to a novel NP-complete problem. Through reformulations into an Integer Linear Program we show empirically that a fast greedy heuristic computes virtually exact solutions.
DOI: 10.7284/105723
title: Singlebeam Echosounder data collected during research cruise SAV-10-02 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300469.v1
title: Simultaneous Credible Regions for Multiple Changepoint Locations

description: Within a Bayesian retrospective framework, we present a way of examining the distribution of changepoints through a novel set estimator. For a given level, α, we aim at smallest sets that cover all changepoints with a probability of at least 1 − α. These so-called smallest simultaneous credible regions, computed for certain values of α, provide parsimonious representations of the possible changepoint locations. In addition, combining them for a range of different α’s enables very informative yet condensed visualisations. Therewith we allow for the evaluation of model choices and the analysis of changepoint data to an unprecedented degree. This approach exhibits superior sensitivity, specificity and interpretability in comparison with highest density regions, marginal inclusion probabilities and confidence intervals inferred by stepR. Whilst their direct construction is usually intractable, asymptotically correct solutions can be derived from posterior samples. This leads to a novel NP-complete problem. Through reformulations into an Integer Linear Program we show empirically that a fast greedy heuristic computes virtually exact solutions.
DOI: 10.7284/105725
title: TSG (Thermosalinograph) data collected during research cruise SAV-10-02 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105727
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-10-03 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105736
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise SAV-10-04 using a RDI WM-300 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105740
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-10-04 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105734
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-10-04 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105735
title: Gyrocompass data collected during research cruise SAV-10-04 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300439
title: Examining perceptions from in situ simulation-based training on interprofessional collaboration during crisis event management in post-anesthesia care

description: Due to the potentially life-threatening conditions and risk of severe complications, post-anesthesia care units (PACU) require prompt team interventions. Miscommunication among professionals during crisis event management may directly affect patient safety. Therefore, developing strategies to enhance interprofessional collaboration (IPC) among critical care teams should be prioritized. In situ simulation (ISS) can be valuable in improving patient safety because it allows the practice of care team dynamics within a real clinical environment. However, its impact on IPC has yet to be demonstrated. The aim of this study was to evaluate the effect of in situ simulation-based training on interprofessional collaboration and satisfaction toward co-workers during crisis event management in post-anesthesia care. A quasi-experimental study, pretest and post-test design with a paired control group was performed. A convenience sample (N = 69) was recruited from the healthcare professionals of the regular PACU team. The intervention group (N = 33) underwent a 6-hour ISS-based interprofessional training session. Three scenarios of deteriorating cases encountered in critical care settings were used, each followed by a debriefing period. The measured outcomes were evaluated by the Collaborative Work Questionnaire and the Satisfaction Towards Coworkers Questionnaire. Questionnaires were answered by the two groups before the intervention (T1), immediately after (T2) and six to eight weeks later (T3). We found that the change from baseline (T1) was different between the groups for global IPC (F = 3.88; p = 0.025) and for communication (F = 4.09; p = 0.021). Regarding global IPC, we observed a significant group effect from T1 to T2 (F = 5.65; p = 0.021) and from T1 to T3 (F = 5.34; p = 0.024). Furthermore, we observed a significant time effect for the experimental group (F = 4.06; p = 0.027). Regarding communication, we observed a significant group effect from T1 to T2 (F = 7.5; p = 0.001). In conclusion, ISS-based training had a slight impact on self-assessed IPC and communication during crisis event management in the PACU. The use of ISS should be promoted among critical care teams to enhance IPC and contribute to patient safety.
DOI: 10.6084/m9.figshare.7300439.v1
title: Examining perceptions from in situ simulation-based training on interprofessional collaboration during crisis event management in post-anesthesia care

description: Due to the potentially life-threatening conditions and risk of severe complications, post-anesthesia care units (PACU) require prompt team interventions. Miscommunication among professionals during crisis event management may directly affect patient safety. Therefore, developing strategies to enhance interprofessional collaboration (IPC) among critical care teams should be prioritized. In situ simulation (ISS) can be valuable in improving patient safety because it allows the practice of care team dynamics within a real clinical environment. However, its impact on IPC has yet to be demonstrated. The aim of this study was to evaluate the effect of in situ simulation-based training on interprofessional collaboration and satisfaction toward co-workers during crisis event management in post-anesthesia care. A quasi-experimental study, pretest and post-test design with a paired control group was performed. A convenience sample (N = 69) was recruited from the healthcare professionals of the regular PACU team. The intervention group (N = 33) underwent a 6-hour ISS-based interprofessional training session. Three scenarios of deteriorating cases encountered in critical care settings were used, each followed by a debriefing period. The measured outcomes were evaluated by the Collaborative Work Questionnaire and the Satisfaction Towards Coworkers Questionnaire. Questionnaires were answered by the two groups before the intervention (T1), immediately after (T2) and six to eight weeks later (T3). We found that the change from baseline (T1) was different between the groups for global IPC (F = 3.88; p = 0.025) and for communication (F = 4.09; p = 0.021). Regarding global IPC, we observed a significant group effect from T1 to T2 (F = 5.65; p = 0.021) and from T1 to T3 (F = 5.34; p = 0.024). Furthermore, we observed a significant time effect for the experimental group (F = 4.06; p = 0.027). Regarding communication, we observed a significant group effect from T1 to T2 (F = 7.5; p = 0.001). In conclusion, ISS-based training had a slight impact on self-assessed IPC and communication during crisis event management in the PACU. The use of ISS should be promoted among critical care teams to enhance IPC and contribute to patient safety.
DOI: 10.7284/105738
title: Meteorological Station data collected during research cruise SAV-10-04 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300430
title: I'll see it when I believe it data file.csv

description: Data file for I'll see it when I believe it: motivated numeracy in perceptions of climate change risk
DOI: 10.6084/m9.figshare.7300430.v1
title: I'll see it when I believe it data file.csv

description: Data file for I'll see it when I believe it: motivated numeracy in perceptions of climate change risk
DOI: 10.7284/105737
title: Singlebeam Echosounder data collected during research cruise SAV-10-04 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105739
title: TSG (Thermosalinograph) data collected during research cruise SAV-10-04 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300421
title: Code snapshot of PathRacer for review

description: Source code snapshot of PathRacer – tool that aligns de Bruijn graph to profile HMMs
DOI: 10.7284/105746
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SAV-10-05 using a Sea-Bird SBE-25 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300421.v1
title: Code snapshot of PathRacer for review

description: Source code snapshot of PathRacer – tool that aligns de Bruijn graph to profile HMMs
DOI: 10.7284/105741
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-10-05 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105742
title: Gyrocompass data collected during research cruise SAV-10-05 using a Yokogawa CMZ700B instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300409
title: Dataset of Pycnopodia helianthoides abundance shallow nearshore waters from REEF and the sea surface temperature, as well as the data for the abundance of this species at deep offshore waters.

description: 3 Datasets. NOAA_2003_2016.xlsx contains the data to show the decline of Pycnopodia helianthoides in deep offshore waters (trawls) between 2004 and 2016. Hakai biomass 2010-2017.csv contains the data to show the decline of Pycnopodia in belt transects at 11 rocky reef sites located on the central coast of British Columbia between 2010 and 2017. Finally, Sunflower_data_complete_abundance_score_lower_limit_with_temp.csv contains the data to assess the abundance of P. helianthoides between 2006-2017 based on data gathered by trained scuba divers. This dataset also contains the sea surface temperature informartion to explore a relationship between P. helianthoides abundance and ocean surface temperature anomalies.
DOI: 10.7284/105744
title: Meteorological Station data collected during research cruise SAV-10-05 using a RM Young 26800 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300409.v1
title: Dataset of Pycnopodia helianthoides abundance shallow nearshore waters from REEF and the sea surface temperature, as well as the data for the abundance of this species at deep offshore waters.

description: 3 Datasets. NOAA_2003_2016.xlsx contains the data to show the decline of Pycnopodia helianthoides in deep offshore waters (trawls) between 2004 and 2016. Hakai biomass 2010-2017.csv contains the data to show the decline of Pycnopodia in belt transects at 11 rocky reef sites located on the central coast of British Columbia between 2010 and 2017. Finally, Sunflower_data_complete_abundance_score_lower_limit_with_temp.csv contains the data to assess the abundance of P. helianthoides between 2006-2017 based on data gathered by trained scuba divers. This dataset also contains the sea surface temperature informartion to explore a relationship between P. helianthoides abundance and ocean surface temperature anomalies.
DOI: 10.7284/105743
title: Singlebeam Echosounder data collected during research cruise SAV-10-05 using a Furuno FCV-582 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300409.v2
title: Dataset of Pycnopodia helianthoides abundance shallow nearshore waters from REEF and the sea surface temperature, as well as the data for the abundance of this species at deep offshore waters.

description: 3 Datasets. NOAA_2003_2016.xlsx contains the data to show the decline of Pycnopodia helianthoides in deep offshore waters (trawls) between 2004 and 2016. Hakai biomass 2010-2017.csv contains the data to show the decline of Pycnopodia in belt transects at 11 rocky reef sites located on the central coast of British Columbia between 2010 and 2017. Finally, Sunflower_data_complete_abundance_score_lower_limit_with_temp.csv contains the data to assess the abundance of P. helianthoides between 2006-2017 based on data gathered by trained scuba divers. This dataset also contains the sea surface temperature informartion to explore a relationship between P. helianthoides abundance and ocean surface temperature anomalies.
DOI: 10.7284/105745
title: TSG (Thermosalinograph) data collected during research cruise SAV-10-05 using a Sea-Bird SBE-21 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/105747
title: GNSS (Global Navigation Satellite System) data collected during research cruise SAV-10-06 using a Furuno GP-90 instrument system onboard the platform RV Savannah

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7300340
title: Integrated analysis of lncRNA–mRNA co-expression networks in the α-particle induced carcinogenesis of human branchial epithelial cells

description: <b>Purpose:</b> To identify the mRNA and long noncoding RNA (lncRNA) expression profiles and explore the lncRNA–mRNA co-expression networks associated with the carcinogenesis induced by α-particles. <b>Materials and methods:</b> Immortalized human bronchial epithelial cell line, BEP2D, and its two malignant transformed cell lines, BERP35T-1 and BERP35T-4, were investigated. The lncRNA and mRNA expression profiles of BEP2D, BERP35T-1 and BERP35T-4 were generated. lncRNAs and mRNAs co-expression analysis was performed. <b>Results:</b> The microarray identified 668 lncRNAs in BERP35T-1 cells and 555 in BERP35T-4 cells that were differentially expressed compared to BEP2D cells. The GO terms and KEGG pathway annotation data indicated that mitotic cell cycle, DNA repair, apoptotic processes, and RNA splicing functional pathways were significantly associated with the α-particle induced cell carcinogenesis. Co-expression network analysis revealed 8902 interactions between 495 differentially expressed mRNAs and 430 corresponding lncRNAs in BERP35T-1 cells compared with BEP2D cells. The genes, situated at the important nodes of the co-expression network, include B3GNT5, RAD23, YWHAZ (14-3-3ζ), FBXW11, TGFBR2, LRP6, PSMD11, MYL12A, etc. <b>Conclusions:</b> This pilot study is the first to explore epigenetic mechanisms of α-particle induced carcinogenesis of human bronchial epithelial cells. It provides basic information for further investigation into the detail mechanisms underlying radiation-induced lung cancer.