cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14501781
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_1

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501781.v1
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_1

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501799
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_2

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501799.v1
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_2

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501811
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_3

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501811.v1
title: D'Ario_et_al_2021_KRP4-mCherry_time_course_replicate_3

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the KRP4-mCherry and acyl-YFP reporters. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, position in the meristem and expression level of reporter genes have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of reporter genes used, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.5287/bodleian:e9gpn7zzp
title: Is concentration an indirect link between social anxiety and educational achievement in adolescents?
DOI: 10.6084/m9.figshare.14501880
title: D'Ario_et_al_2021_NUP136_time_course

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the nuclear membrane marker NUP136-GFP. These images have been used to study how nuclear volume is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, nuclear volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14501880.v1
title: D'Ario_et_al_2021_NUP136_time_course

description: This dataset contains images of Arabidopsis shoot apical meristems expressing the nuclear membrane marker NUP136-GFP. These images have been used to study how nuclear volume is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes, nuclear volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14501907
title: D'Ario_et_al_2021_RBR1-GFP_images

description: This dataset contains image stacks of Arabidopsis shoot apical meristems expressing the RBR1-GFP reporter. The images have been segmented in three dimensions; cell volumes, position in the meristem and expression level of the reporter gene have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. Details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14501907.v1
title: D'Ario_et_al_2021_RBR1-GFP_images

description: This dataset contains image stacks of Arabidopsis shoot apical meristems expressing the RBR1-GFP reporter. The images have been segmented in three dimensions; cell volumes, position in the meristem and expression level of the reporter gene have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. Details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14501928
title: D'Ario_et_al_2021_wt_fbl17_mutant_images

description: This dataset contains images of wild-type (Col) and <i>fbl17</i> mutant Arabidopsis shoot apical meristems. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14501928.v1
title: D'Ario_et_al_2021_wt_fbl17_mutant_images

description: This dataset contains images of wild-type (Col) and <i>fbl17</i> mutant Arabidopsis shoot apical meristems. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript.
DOI: 10.6084/m9.figshare.14472695
title: The time to offer treatments for COVID-19

description: <b>Background:</b> COVID-19 has several overlapping phases. Treatments to date have focused on the late stage of disease in hospital. Yet, the pandemic is by propagated by the viral phase in out-patients. The current public health strategy relies solely on vaccines to prevent disease.<b>Methods:</b> We searched the major national registries, pubmed.org, and the preprint servers for all ongoing, completed and published trial results.<b>Results:</b> As of 2/15/2021, we found 111 publications reporting findings on 14 classes of agents, and 9 vaccines. There were 62 randomized controlled studies, the rest retrospective observational analyses. Only 21 publications dealt with outpatient care. Remdesivir and high titer convalescent plasma have emergency use authorization for hospitalized patients in the U.S.A. There is also support for glucocorticoid treatment of the COVID-19 respiratory distress syndrome. Monoclonal antibodies are authorized for outpatients, but supply is inadequate to treat all at time of diagnosis. Favipiravir, ivermectin, and interferons are approved in certain countries.<b>Expert Opinion</b>: Vaccines and antibodies are highly antigen specific, and new SARS-Cov-2 variants are appearing. We call on public health authorities to authorize treatments with known low-risk and possible benefit for outpatients in parallel with universal vaccination.
DOI: 10.6084/m9.figshare.14472695.v2
title: The time to offer treatments for COVID-19

description: <b>Background:</b> COVID-19 has several overlapping phases. Treatments to date have focused on the late stage of disease in hospital. Yet, the pandemic is by propagated by the viral phase in out-patients. The current public health strategy relies solely on vaccines to prevent disease.<b>Methods:</b> We searched the major national registries, pubmed.org, and the preprint servers for all ongoing, completed and published trial results.<b>Results:</b> As of 2/15/2021, we found 111 publications reporting findings on 14 classes of agents, and 9 vaccines. There were 62 randomized controlled studies, the rest retrospective observational analyses. Only 21 publications dealt with outpatient care. Remdesivir and high titer convalescent plasma have emergency use authorization for hospitalized patients in the U.S.A. There is also support for glucocorticoid treatment of the COVID-19 respiratory distress syndrome. Monoclonal antibodies are authorized for outpatients, but supply is inadequate to treat all at time of diagnosis. Favipiravir, ivermectin, and interferons are approved in certain countries.<b>Expert Opinion</b>: Vaccines and antibodies are highly antigen specific, and new SARS-Cov-2 variants are appearing. We call on public health authorities to authorize treatments with known low-risk and possible benefit for outpatients in parallel with universal vaccination.
DOI: 10.6084/m9.figshare.14472695.v1
title: The time to offer treatments for COVID-19

description: <b>Background:</b> COVID-19 has several overlapping phases. Treatments to date have focused on the late stage of disease in hospital. Yet, the pandemic is by propagated by the viral phase in out-patients. The current public health strategy relies solely on vaccines to prevent disease.<b>Methods:</b> We searched the major national registries, pubmed.org, and the preprint servers for all ongoing, completed and published trial results.<b>Results:</b> As of 2/15/2021, we found 111 publications reporting findings on 14 classes of agents, and 9 vaccines. There were 62 randomized controlled studies, the rest retrospective observational analyses. Only 21 publications dealt with outpatient care. Remdesivir and high titer convalescent plasma have emergency use authorization for hospitalized patients in the U.S.A. There is also support for glucocorticoid treatment of the COVID-19 respiratory distress syndrome. Monoclonal antibodies are authorized for outpatients, but supply is inadequate to treat all at time of diagnosis. Favipiravir, ivermectin, and interferons are approved in certain countries.<b>Expert Opinion</b>: Vaccines and antibodies are highly antigen specific, and new SARS-Cov-2 variants are appearing. We call on public health authorities to authorize treatments with known low-risk and possible benefit for outpatients in parallel with universal vaccination.
DOI: 10.6084/m9.figshare.14501937
title: D'Ario_et_al_2021_wt_krp_mutant_images

description: This dataset contains images of shoot apical meristems of wild-type Arabidopsis (Col), <i>krp4</i> mutants and <i>krp3 krp4</i> double mutants. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.6084/m9.figshare.14501937.v1
title: D'Ario_et_al_2021_wt_krp_mutant_images

description: This dataset contains images of shoot apical meristems of wild-type Arabidopsis (Col), <i>krp4</i> mutants and <i>krp3 krp4</i> double mutants. These images have been used to study how cell cycle progression is coordinated with cell growth in plants. The images have been segmented in three dimensions and tracked in time course experiments; cell volumes and position in the meristem have been measured. The metadata, landmark coordinates and measurement tables are included in the dataset. The details of plant material, imaging methods and processing steps are described in the associated manuscript. <br>
DOI: 10.5281/zenodo.4723598
title: Macapype validation, ucdavis_subject

description: T1 image and brain_mask segmentation manuelle for Prime-DE, ucdavis_subject
DOI: 10.5281/zenodo.4725347
title: Dataset related to article "Quantitative chest CT analysis in COVID-19 to predict the need for oxygenation support and intubation "

description: This record contains raw data related to article “Quantitative chest CT analysis in COVID-19 to predict the need for oxygenation support and intubation" <strong>Objective: </strong> Lombardy (Italy) was the epicentre of the COVID-19 pandemic in March 2020. The healthcare system suffered from a shortage of ICU beds and oxygenation support devices. In our Institution, most patients received chest CT at admission, only interpreted visually. Given the proven value of quantitative CT analysis (QCT) in the setting of ARDS, we tested QCT as an outcome predictor for COVID-19. <strong>Methods: </strong> We performed a single-centre retrospective study on COVID-19 patients hospitalised from January 25, 2020, to April 28, 2020, who received CT at admission prompted by respiratory symptoms such as dyspnea or desaturation. QCT was performed using a semi-automated method (3D Slicer). Lungs were divided by Hounsfield unit intervals. Compromised lung (%CL) volume was the sum of poorly and non-aerated volumes (- 500, 100 HU). We collected patient's clinical data including oxygenation support throughout hospitalisation. <strong>Results: </strong> Two hundred twenty-two patients (163 males, median age 66, IQR 54-6) were included; 75% received oxygenation support (20% intubation rate). Compromised lung volume was the most accurate outcome predictor (logistic regression, p &lt; 0.001). %CL values in the 6-23% range increased risk of oxygenation support; values above 23% were at risk for intubation. %CL showed a negative correlation with PaO<sub>2</sub>/FiO<sub>2</sub> ratio (p &lt; 0.001) and was a risk factor for in-hospital mortality (p &lt; 0.001). <strong>Conclusions: </strong> QCT provides new metrics of COVID-19. The compromised lung volume is accurate in predicting the need for oxygenation support and intubation and is a significant risk factor for in-hospital death. QCT may serve as a tool for the triaging process of COVID-19. <strong>Key points: </strong> • Quantitative computer-aided analysis of chest CT (QCT) provides new metrics of COVID-19. • The compromised lung volume measured in the - 500, 100 HU interval predicts oxygenation support and intubation and is a risk factor for in-hospital death. • Compromised lung values in the 6-23% range prompt oxygenation therapy; values above 23% increase the need for intubation.
DOI: 10.5281/zenodo.4725346
title: Dataset related to article "Quantitative chest CT analysis in COVID-19 to predict the need for oxygenation support and intubation "

description: This record contains raw data related to article “Quantitative chest CT analysis in COVID-19 to predict the need for oxygenation support and intubation" <strong>Objective: </strong> Lombardy (Italy) was the epicentre of the COVID-19 pandemic in March 2020. The healthcare system suffered from a shortage of ICU beds and oxygenation support devices. In our Institution, most patients received chest CT at admission, only interpreted visually. Given the proven value of quantitative CT analysis (QCT) in the setting of ARDS, we tested QCT as an outcome predictor for COVID-19. <strong>Methods: </strong> We performed a single-centre retrospective study on COVID-19 patients hospitalised from January 25, 2020, to April 28, 2020, who received CT at admission prompted by respiratory symptoms such as dyspnea or desaturation. QCT was performed using a semi-automated method (3D Slicer). Lungs were divided by Hounsfield unit intervals. Compromised lung (%CL) volume was the sum of poorly and non-aerated volumes (- 500, 100 HU). We collected patient's clinical data including oxygenation support throughout hospitalisation. <strong>Results: </strong> Two hundred twenty-two patients (163 males, median age 66, IQR 54-6) were included; 75% received oxygenation support (20% intubation rate). Compromised lung volume was the most accurate outcome predictor (logistic regression, p &lt; 0.001). %CL values in the 6-23% range increased risk of oxygenation support; values above 23% were at risk for intubation. %CL showed a negative correlation with PaO<sub>2</sub>/FiO<sub>2</sub> ratio (p &lt; 0.001) and was a risk factor for in-hospital mortality (p &lt; 0.001). <strong>Conclusions: </strong> QCT provides new metrics of COVID-19. The compromised lung volume is accurate in predicting the need for oxygenation support and intubation and is a significant risk factor for in-hospital death. QCT may serve as a tool for the triaging process of COVID-19. <strong>Key points: </strong> • Quantitative computer-aided analysis of chest CT (QCT) provides new metrics of COVID-19. • The compromised lung volume measured in the - 500, 100 HU interval predicts oxygenation support and intubation and is a risk factor for in-hospital death. • Compromised lung values in the 6-23% range prompt oxygenation therapy; values above 23% increase the need for intubation.
DOI: 10.6084/m9.figshare.12656738
title: Raw data and scripts from "Maximising Branch Power Flows as a Descriptive Structural Metric for Electrical Networks"

description: Just the raw data, scripts and bits and pieces underlying this paper.<br><br>Abstract:<br>This paper describes an optimization-based procedure that identifies the maximum power flow that each branch in an electrical network could be exposed to. The procedure uses a linear optimal power flow formulation that determines the flow-maximising generator dispatch and loading conditions for each branch in turn. This theoretical upper bound on the power flow that a branch could be exposed to is termed its loadability. The paper proposes this loadability as a descriptive structural metric that helps reveal the fundamental origin of congestion in power system. For instance, it is insightful to compare a branch's loadability with its as-built thermal capacity, to identify those branches that are most congestion-prone, or alternatively, those lines which can never exploit their full available capacity. In the six test systems studied, it is found that there is wide variation in the loadability of the various branches, where some would be loaded well beyond their thermal limits by particular generating schedules, whereas other branches can never operate beyond even a fraction of their thermal capabilities. Low branch reactance is found to be a key driver of high loadability in power systems, and this suggests new approches to alleviating transmission system congestion.<br><br>
DOI: 10.6084/m9.figshare.12656738.v1
title: Raw data and scripts from "Maximising Branch Power Flows as a Descriptive Structural Metric for Electrical Networks"

description: Just the raw data, scripts and bits and pieces underlying this paper.<br><br>Abstract:<br>This paper describes an optimization-based procedure that identifies the maximum power flow that each branch in an electrical network could be exposed to. The procedure uses a linear optimal power flow formulation that determines the flow-maximising generator dispatch and loading conditions for each branch in turn. This theoretical upper bound on the power flow that a branch could be exposed to is termed its loadability. The paper proposes this loadability as a descriptive structural metric that helps reveal the fundamental origin of congestion in power system. For instance, it is insightful to compare a branch's loadability with its as-built thermal capacity, to identify those branches that are most congestion-prone, or alternatively, those lines which can never exploit their full available capacity. In the six test systems studied, it is found that there is wide variation in the loadability of the various branches, where some would be loaded well beyond their thermal limits by particular generating schedules, whereas other branches can never operate beyond even a fraction of their thermal capabilities. Low branch reactance is found to be a key driver of high loadability in power systems, and this suggests new approches to alleviating transmission system congestion.<br><br>
DOI: 10.25773/6087-bj68
title: Mechanisms driving decadal changes in the carbonate system of a coastal plain estuary: Associated dataset
DOI: 10.6084/m9.figshare.14134169
title: Four Complete Genome Sequences for Bradyrhizobium sp. Strains Isolated from an Endemic Australian Acacia Legume Reveal Structural Variation

description: Additional information for publication in Microbial Resource Announcements: <br>Chia M-D, Simonsen AK. 2021. Four complete genome sequences for Bradyrhizobium sp. strains isolated from an endemic Australian Acacia legume revealstructural variation. Microbiol Resour Announc 10:e00229-21. https://doi.org/10.1128/MRA.00229-21.<br><br>One folder contains Unicycler genome assembly log files. The other folder contains Mauve alignment files, which can be downloaded and viewed interactively with Mauve software. <br>If using any of this material, please be sure to cite the original publication: https://doi.org/10.1128/MRA.00229-21<br>
DOI: 10.6084/m9.figshare.14134169.v2
title: Four Complete Genome Sequences for Bradyrhizobium sp. Strains Isolated from an Endemic Australian Acacia Legume Reveal Structural Variation

description: Additional information for publication in Microbial Resource Announcements: <br>Chia M-D, Simonsen AK. 2021. Four complete genome sequences for Bradyrhizobium sp. strains isolated from an endemic Australian Acacia legume revealstructural variation. Microbiol Resour Announc 10:e00229-21. https://doi.org/10.1128/MRA.00229-21.<br><br>One folder contains Unicycler genome assembly log files. The other folder contains Mauve alignment files, which can be downloaded and viewed interactively with Mauve software. <br>If using any of this material, please be sure to cite the original publication: https://doi.org/10.1128/MRA.00229-21<br>