cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/104563
title: Multiplexed data collected during research cruise HRS110607CB using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104562
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110607CB using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108899
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110607CB using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104565
title: Multiplexed data collected during research cruise HRS110620CB using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104564
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110620CB using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104569
title: Multiplexed data collected during research cruise HRS110714EN using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104568
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110714EN using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547546
title: MOESM5 of Itaconic acid degradation in Aspergillus niger: the role of unexpected bioconversion pathways

description: Additional file 5. Transcriptome data of downregulated genes in CitB#99 vs AB1.13 with a 2logR cut off at -2.0.
DOI: 10.7284/108901
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110714EN using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547546.v1
title: MOESM5 of Itaconic acid degradation in Aspergillus niger: the role of unexpected bioconversion pathways

description: Additional file 5. Transcriptome data of downregulated genes in CitB#99 vs AB1.13 with a 2logR cut off at -2.0.
DOI: 10.6084/m9.figshare.7547540
title: MOESM4 of Itaconic acid degradation in Aspergillus niger: the role of unexpected bioconversion pathways

description: Additional file 4. Transcriptome data of upregulated genes in CitB#99 vs AB1.13 with a 2logR cut off at 2.0.
DOI: 10.6084/m9.figshare.7547540.v1
title: MOESM4 of Itaconic acid degradation in Aspergillus niger: the role of unexpected bioconversion pathways

description: Additional file 4. Transcriptome data of upregulated genes in CitB#99 vs AB1.13 with a 2logR cut off at 2.0.
DOI: 10.7284/104571
title: Multiplexed data collected during research cruise HRS110719JP using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.7284/104570
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110719JP using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108902
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110719JP using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/104573
title: Multiplexed data collected during research cruise HRS110727GL using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547501
title: Additional file 2: of Next Generation-Targeted Amplicon Sequencing (NG-TAS): an optimised protocol and computational pipeline for cost-effective profiling of circulating tumour DNA

description: List and description of the 377 primers used. (XLS 208 kb)
DOI: 10.7284/104572
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110727GL using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547471
title: TG-Gates data

description: data for DE and GSEA of TG-gates data
DOI: 10.6084/m9.figshare.7547501.v1
title: Additional file 2: of Next Generation-Targeted Amplicon Sequencing (NG-TAS): an optimised protocol and computational pipeline for cost-effective profiling of circulating tumour DNA

description: List and description of the 377 primers used. (XLS 208 kb)
DOI: 10.7284/108903
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110727GL using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547471.v1
title: TG-Gates data

description: data for DE and GSEA of TG-gates data
DOI: 10.6084/m9.figshare.7547432
title: The Subnational Human Development Database

description: This Subnational Human Development Index Database contains for the period 1990-2017 for 1625 regions within 161 countries the national and subnational values of the Subnational Human Development Index (SHDI), for the three dimension indices on the basis of which the SHDI is constructed – education, health and standard of living --, and for the four indicators needed to create the dimension indices -- expected years of schooling, mean years of schooling, life expectancy and gross national income per capita.
DOI: 10.7284/104575
title: Multiplexed data collected during research cruise HRS110805DK using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25373/ctsnet.7547417
title: Southampton Reviews in Cardiothoracic Surgery Chapter One: Myocardial Protection

description: Mr Abdelhadi Ismail of the Southampton University Hospitals Trust in the UK presents an educational series on myocardial protection. He discusses the history of myocardial protection and perfusion, presents some of the fundamental concepts underlying myocardial protection, and reviews techniques. These lectures are part of the Southampton Reviews in Cardiothoracic Surgery. In this series of online lectures, the authors cover many aspects of adult, pediatric, cardiac, and thoracic surgery. The aim of this series is to provide a comprehensive accessible learning aid for cardiothoracic trainees at various stages of training. The authors seek to provide the rationale behind every concept presented and simplify each concept to make learning and recalling easier.
DOI: 10.6084/m9.figshare.7547432.v1
title: The Subnational Human Development Database

description: This Subnational Human Development Index Database contains for the period 1990-2017 for 1625 regions within 161 countries the national and subnational values of the Subnational Human Development Index (SHDI), for the three dimension indices on the basis of which the SHDI is constructed – education, health and standard of living --, and for the four indicators needed to create the dimension indices -- expected years of schooling, mean years of schooling, life expectancy and gross national income per capita.
DOI: 10.7284/104574
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110805DK using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25373/ctsnet.7547417.v2
title: Southampton Reviews in Cardiothoracic Surgery Chapter One: Myocardial Protection

description: Mr Abdelhadi Ismail of the Southampton University Hospitals Trust in the UK presents an educational series on myocardial protection. He discusses the history of myocardial protection and perfusion, presents some of the fundamental concepts underlying myocardial protection, and reviews techniques. These lectures are part of the Southampton Reviews in Cardiothoracic Surgery. In this series of online lectures, the authors cover many aspects of adult, pediatric, cardiac, and thoracic surgery. The aim of this series is to provide a comprehensive accessible learning aid for cardiothoracic trainees at various stages of training. The authors seek to provide the rationale behind every concept presented and simplify each concept to make learning and recalling easier.
DOI: 10.7284/108904
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110805DK using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.25373/ctsnet.7547417.v1
title: Southampton Reviews in Cardiothoracic Surgery: Myocardial Protection

description: Mr Abdelhadi Ismail of the Southampton University Hospitals Trust in the UK presents an educational series on myocardial protection. He discusses the history of myocardial protection and perfusion, presents some of the fundamental concepts underlying myocardial protection, and reviews techniques. These lectures are part of the Southampton Reviews in Cardiothoracic Surgery. In this series of online lectures, the authors cover many aspects of adult, pediatric, cardiac, and thoracic surgery. The aim of this series is to provide a comprehensive accessible learning aid for cardiothoracic trainees at various stages of training. The authors seek to provide the rationale behind every concept presented and simplify each concept to make learning and recalling easier.
DOI: 10.6084/m9.figshare.7547213
title: Review data from Mastering the scales: a survey on the benefits of multiscale computing software

description: In the last few decades, multiscale modelling has emerged as one of the dominant modelling paradigms in many areas of science and engineering. Its rise to dominance is primarily driven by advancements in computing power and the need to model systems of increasing complexity. The multiscale modelling paradigm is now accompanied by a vibrant ecosystem of multiscale computing software (MCS) which promise to address many challenges in the development of multiscale applications. In this paper, we define the common steps in the multiscale application development process and investigate to what degree a set of 22 representative MCS tools enhance each development step. We observe several gaps in the features provided by MCS tools, especially for application deployment and the preparation and management of production runs. In addition, we find that many MCS tools are tailored to a particular multiscale computing pattern, even though they are otherwise application agnostic. We conclude that the gaps we identify are characteristic of a field that is still maturing and features that enhance the deployment and production steps of multiscale application development are desirable for the long-term success of MCS in its application fields.This article is part of the theme issue ‘Multiscale modelling, simulation and computing: from the desktop to the exascale’.
DOI: 10.7284/104577
title: Multiplexed data collected during research cruise HRS110811JK using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547213.v1
title: Review data from Mastering the scales: a survey on the benefits of multiscale computing software

description: In the last few decades, multiscale modelling has emerged as one of the dominant modelling paradigms in many areas of science and engineering. Its rise to dominance is primarily driven by advancements in computing power and the need to model systems of increasing complexity. The multiscale modelling paradigm is now accompanied by a vibrant ecosystem of multiscale computing software (MCS) which promise to address many challenges in the development of multiscale applications. In this paper, we define the common steps in the multiscale application development process and investigate to what degree a set of 22 representative MCS tools enhance each development step. We observe several gaps in the features provided by MCS tools, especially for application deployment and the preparation and management of production runs. In addition, we find that many MCS tools are tailored to a particular multiscale computing pattern, even though they are otherwise application agnostic. We conclude that the gaps we identify are characteristic of a field that is still maturing and features that enhance the deployment and production steps of multiscale application development are desirable for the long-term success of MCS in its application fields.This article is part of the theme issue ‘Multiscale modelling, simulation and computing: from the desktop to the exascale’.
DOI: 10.6084/m9.figshare.7547210
title: Raw survey data from Mastering the scales: a survey on the benefits of multiscale computing software

description: Unedited CSV file with data from the survey. We used these results as a basis for the analysis results presented in our paper. Some second opinions were performed outside of the survey form.
DOI: 10.6084/m9.figshare.7547210.v1
title: Raw survey data from Mastering the scales: a survey on the benefits of multiscale computing software

description: Unedited CSV file with data from the survey. We used these results as a basis for the analysis results presented in our paper. Some second opinions were performed outside of the survey form.
DOI: 10.7284/104576
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise HRS110811JK using a RDI VmDas instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547084
title: Pneumococcal RNase R globally impacts protein synthesis by regulating the amount of actively translating ribosomes

description: Ribosomes are macromolecular machines that carry out protein synthesis. After each round of translation, ribosome recycling is essential for reinitiating protein synthesis. Ribosome recycling factor (RRF), together with elongation factor G (EF-G), catalyse the transient split of the 70S ribosome into subunits. This splitting is then stabilized by initiation factor 3 (IF3), which functions as an anti-association factor. The correct amount of these factors ensures the precise level of 70S ribosomes in the cell. RNase R is a highly conserved exoribonuclease involved in the 3ʹ to 5ʹ degradation of RNAs. In this work we show that pneumococcal RNase R directly controls the expression levels of <i>frr, fusA</i> and <i>infC</i> mRNAs, the corresponding transcripts of RRF, EF-G and IF3, respectively. We present evidences showing that accumulation of these factors leads to a decreased amount of 70S active particles, as demonstrated by the altered sucrose gradient ribosomal pattern in the RNase R mutant strain. Furthermore, the single deletion of RNase R is shown to have a global impact on protein synthesis and cell viability, leading to a ~50% reduction in bacterial CFU/ml. We believe that the fine-tuned regulation of these transcripts by RNase R is essential for maintaining the precise amount of active ribosomal complexes required for proper mRNA translation and thus we propose RNase R as a new auxiliary factor in ribosome reassociation. Considering the overall impact of RNase R on protein synthesis, one of the main targets of antibiotics, this enzyme may be a promising target for antimicrobial treatment.
DOI: 10.6084/m9.figshare.7547159
title: Anvi'o pangenome analysis of Limnohabitans MAGs and genomes

description: Pangenome analysis of Limnohabitans MAGs and reference genomes as conducted with Anvi'o v2.3.0. One pangenome analysis was conducted with only the MAGs (folder panG-LIM-MI), another one with both MAGs and reference genomes (folder panG-LIM-ALL).
DOI: 10.7284/108905
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise HRS110811JK using a Sea-Bird SBE-911+ instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547159.v1
title: Anvi'o pangenome analysis of Limnohabitans MAGs and genomes

description: Pangenome analysis Limnohabitans MAGs and reference genomes as conducted with Anvi'o v2.3.0. One pangenome analysis was conducted with only the MAGs (folder panG-LIM-MI), another one with both MAGs and reference genomes (folder panG-LIM-ALL).
DOI: 10.6084/m9.figshare.7547069
title: Evolution of dengue virus escape variants in response to Wolbachia-mediated blocking in Aedes aegypti cell culture

description: qPCR data of DENV titres during sequential passaging and from fitness assays, and of <i>Wolbachia</i> densities.
DOI: 10.6084/m9.figshare.7547069.v1
title: Evolution of dengue virus escape variants in response to Wolbachia-mediated blocking in Aedes aegypti cell culture

description: qPCR data of DENV titres during sequential passaging and from fitness assays, and of Wolbachia densities.
DOI: 10.6084/m9.figshare.7547084.v2
title: Pneumococcal RNase R globally impacts protein synthesis by regulating the amount of actively translating ribosomes

description: Ribosomes are macromolecular machines that carry out protein synthesis. After each round of translation, ribosome recycling is essential for reinitiating protein synthesis. Ribosome recycling factor (RRF), together with elongation factor G (EF-G), catalyse the transient split of the 70S ribosome into subunits. This splitting is then stabilized by initiation factor 3 (IF3), which functions as an anti-association factor. The correct amount of these factors ensures the precise level of 70S ribosomes in the cell. RNase R is a highly conserved exoribonuclease involved in the 3ʹ to 5ʹ degradation of RNAs. In this work we show that pneumococcal RNase R directly controls the expression levels of <i>frr, fusA</i> and <i>infC</i> mRNAs, the corresponding transcripts of RRF, EF-G and IF3, respectively. We present evidences showing that accumulation of these factors leads to a decreased amount of 70S active particles, as demonstrated by the altered sucrose gradient ribosomal pattern in the RNase R mutant strain. Furthermore, the single deletion of RNase R is shown to have a global impact on protein synthesis and cell viability, leading to a ~50% reduction in bacterial CFU/ml. We believe that the fine-tuned regulation of these transcripts by RNase R is essential for maintaining the precise amount of active ribosomal complexes required for proper mRNA translation and thus we propose RNase R as a new auxiliary factor in ribosome reassociation. Considering the overall impact of RNase R on protein synthesis, one of the main targets of antibiotics, this enzyme may be a promising target for antimicrobial treatment.
DOI: 10.7284/104579
title: Multiplexed data collected during research cruise HRS110909GG using a UDel SMS instrument system onboard the platform RV Hugh R. Sharp

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7547066
title: Data 60-m and 200-m runs

description: Study data
DOI: 10.6084/m9.figshare.7547066.v1
title: Data 60-m and 200-m runs

description: Study data
DOI: 10.6084/m9.figshare.7547084.v1
title: Pneumococcal RNase R globally impacts protein synthesis by regulating the amount of actively translating ribosomes.

description: Ribosomes are macromolecular machines that carry out protein synthesis. After each round of translation, ribosome recycling is essential for reinitiating protein synthesis. Ribosome recycling factor (RRF), together with elongation factor G (EF-G), catalyse the transient split of the 70S ribosome into subunits. This splitting is then stabilized by initiation factor 3 (IF3), which functions as an anti-association factor. The correct amount of these factors ensures the precise level of 70S ribosomes in the cell. RNase R is a highly conserved exoribonuclease involved in the 3ʹ to 5ʹ degradation of RNAs. In this work we show that pneumococcal RNase R directly controls the expression levels of <i>frr, fusA</i> and <i>infC</i> mRNAs, the corresponding transcripts of RRF, EF-G and IF3, respectively. We present evidences showing that accumulation of these factors leads to a decreased amount of 70S active particles, as demonstrated by the altered sucrose gradient ribosomal pattern in the RNase R mutant strain. Furthermore, the single deletion of RNase R is shown to have a global impact on protein synthesis and cell viability, leading to a ~50% reduction in CFU/ml. We believe that the fine-tuned regulation of these transcripts by RNase R is essential for maintaining the precise amount of ribosomal active complexes required for proper mRNA translation and thus we propose RNase R as a new auxiliary factor in ribosome reassociation. Considering the overall impact of RNase R on protein synthesis, one of the main targets of antibiotics, this enzyme may be a promising target for antimicrobial treatment.
DOI: 10.6084/m9.figshare.7547021
title: Planning Improves Vocal Fluency and the Appearance of Concern When Communicating Emotional Support

description: Emotional support is often conveyed to people with cancer; however, not all support messages are effective, leading some potential supporters to fear appearing incompetent when communicating support. Additionally, nonverbal behaviors, such as vocal fluency, pitch variety, eye contact, and conveying concern, have previously been associated with support recipients’ outcomes and perceptions of speaker competence. This experiment determines whether these nonverbal behaviors can be increased through message planning. Participants were randomly assigned to either a planning condition or a distraction task condition before recording emotional support messages for a friend hypothetically diagnosed with cancer. Results showed that planners spoke with significantly more vocal fluency and conveyed significantly more nonverbal concern than nonplanners. Planners also used more eye contact and pitch variety than nonplanners, but these differences were not statistically significant. Results suggest that planning may improve some nonverbal aspects of communicating support, which may in turn improve perceptions of supporters’ competence.
DOI: 10.6084/m9.figshare.7547021.v1
title: Planning Improves Vocal Fluency and the Appearance of Concern When Communicating Emotional Support

description: Emotional support is often conveyed to people with cancer; however, not all support messages are effective, leading some potential supporters to fear appearing incompetent when communicating support. Additionally, nonverbal behaviors, such as vocal fluency, pitch variety, eye contact, and conveying concern, have previously been associated with support recipients’ outcomes and perceptions of speaker competence. This experiment determines whether these nonverbal behaviors can be increased through message planning. Participants were randomly assigned to either a planning condition or a distraction task condition before recording emotional support messages for a friend hypothetically diagnosed with cancer. Results showed that planners spoke with significantly more vocal fluency and conveyed significantly more nonverbal concern than nonplanners. Planners also used more eye contact and pitch variety than nonplanners, but these differences were not statistically significant. Results suggest that planning may improve some nonverbal aspects of communicating support, which may in turn improve perceptions of supporters’ competence.