cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5188273.v11
title: The reconstruction of 2,631 draft metagenome-assembled genomes from the global oceans

description: Data for 2,631 draft genomes (TOBG-GENOMES.tar.gz) generated using the Tara Oceans microbial metagenomic data sets - additionally includes:SECONDARY_CONTIGS.province.tar.gz -- SECONDARY contigs by provinceTOBG-READCOUNT.tar.gz -- read count values of each sample against SECONDARY contigsTOBG-BINS.tar.gz -- genome bins &lt;50% complete (15,557 bins with &gt;5 contigs)PRIMARY_CONTIGS.province.tar.gz -- PRIMARY contigs by province and sampleLarger files have been split - to restore the full tar ball, use cat to combine. E.G. cat PRIMARY_CONTIGS.MEDITERRANEAN0* &gt; PRIMARY_CONTIGS.MEDITERRANEAN.tar.gz cat And then decompressIndian Monsoon = 1 filesArabian Sea = 1 fileRed Sea = 1 fileMediterranean = 2 filesEast Africa Coastal = 2 filesChile-Peru Coastal = 2 filesNorth Pacific = 2 filesNorth Atlantic = 4 filesSouth Atlantic = 4 filesSouth Pacific = 7 files
DOI: 10.6084/m9.figshare.5188273.v12
title: The reconstruction of 2,631 draft metagenome-assembled genomes from the global oceans

description: Data for 2,631 draft genomes (TOBG-GENOMES.tar.gz) generated using the Tara Oceans microbial metagenomic data sets - additionally includes:SECONDARY_CONTIGS.province.tar.gz -- SECONDARY contigs by provinceTOBG-READCOUNT.tar.gz -- read count values of each sample against SECONDARY contigsTOBG-BINS.tar.gz -- genome bins &lt;50% complete (15,557 bins with &gt;5 contigs)PRIMARY_CONTIGS.province.tar.gz -- PRIMARY contigs by province and sampleLarger files have been split - to restore the full tar ball, use cat to combine. E.G. cat PRIMARY_CONTIGS.MEDITERRANEAN0* &gt; PRIMARY_CONTIGS.MEDITERRANEAN.tar.gz cat And then decompressIndian Monsoon = 1 filesArabian Sea = 1 fileRed Sea = 1 fileMediterranean = 2 filesEast Africa Coastal = 2 filesChile-Peru Coastal = 2 filesNorth Pacific = 2 filesNorth Atlantic = 4 filesSouth Atlantic = 4 filesSouth Pacific = 7 files
DOI: 10.6084/m9.figshare.5187865
title: Characterization of medaka ECG as a model for cardiological analysis

description: This data set is the summary of the electrophysiological experiment in medaka, which contains cell size of cardiomycyte and ECG and heart rate change by drugs and temperature, frequency analysis data. It was used in the study on Yonekura and Murakami (2017).
DOI: 10.6084/m9.figshare.5187865.v1
title: Characterization of medaka ECG as a model for cardiological analysis

description: This data set is the summary of the electrophysiological experiment in medaka, which contains cell size of cardiomycyte and ECG and heart rate change by drugs and temperature, frequency analysis data. It was used in the study on Yonekura and Murakami (2017).
DOI: 10.6084/m9.figshare.5187874
title: budgerigar_mirnaomes_rawdata

description: Budgerigar mirnaomes rawdata
DOI: 10.6084/m9.figshare.5187874.v1
title: budgerigar_mirnaomes_rawdata

description: Budgerigar mirnaomes rawdata
DOI: 10.6084/m9.figshare.5187574
title: RefSoil special request

description: RefSoil special request
DOI: 10.6084/m9.figshare.5187574.v2
title: RefSoil special request

description: RefSoil special request
DOI: 10.6084/m9.figshare.5187574.v1
title: RefSoil special request

description: RefSoil special request
DOI: 10.6084/m9.figshare.5187529.v1
title: Borchardt Hartings JACSChallenge Data.xlsx

description: The condensed dataset results of a survey, distributed to chemistry researchers in various chemistry subdisciplines, asking impact-related questions about one issue in JACS.
DOI: 10.6084/m9.figshare.5186446
title: Hunting for abscopal and bystander effects: clinical exploitation of non-targeted effects induced by partial high-single-dose irradiation of the hypoxic tumour segment in oligometastatic patients

description: Hunting for abscopal and bystander effects: clinical exploitation of non-targeted effects induced by partial high-single-dose irradiation of the hypoxic tumour segment in oligometastatic patients
DOI: 10.6084/m9.figshare.5186272
title: Improved treatment decisions in patients with esophageal cancer

description: <b>Background:</b> Patients with esophageal cancer seldom achieve long-term survival. This prospective cohort study investigated the selection of patients likely to benefit from curative treatment and whether information on patients’ health-related quality of life (HRQL) would assist treatment decisions in the multidisciplinary team. <b>Methods:</b> Consecutive patients completed HRQL assessments and clinical data were collected before start of treatment. Logistic regression analyses identified clinical factors associated with treatment intent in patients with stage-III disease. Kaplan–Meier method was used for survival analyses and Cox proportional hazards models were used to assess the impact of clinical factors and HRQL on survival in patients planned for curative treatment. <b>Results:</b> Patients with curative treatment intent (<i>n</i> = 90) were younger, had better WHO performance status and less fatigue than patients with palliative treatment intent (<i>n</i> = 89). Median survival for the total cohort (<i>n</i> = 179) and patients with palliative or curative treatment intent was nine, five and 19 months, respectively. In multivariate Cox regression analyses, performance status (0–1 favorable) and comorbidity (ASA I favorable) were factors of importance for survival, whereas measures of HRQL were not. <b>Conclusions:</b> Patients performance status and comorbidity must be considered in addition to stage of disease to avoid extensive curative treatment in patients with short life expectancy. This study did not provide evidence to support that information on patients HRQL adds value to the multidisciplinary team’s treatment decision process.
DOI: 10.6084/m9.figshare.5186446.v1
title: Hunting for abscopal and bystander effects: clinical exploitation of non-targeted effects induced by partial high-single-dose irradiation of the hypoxic tumour segment in oligometastatic patients

description: Hunting for abscopal and bystander effects: clinical exploitation of non-targeted effects induced by partial high-single-dose irradiation of the hypoxic tumour segment in oligometastatic patients
DOI: 10.6084/m9.figshare.5186272.v1
title: Improved treatment decisions in patients with esophageal cancer

description: <b>Background:</b> Patients with esophageal cancer seldom achieve long-term survival. This prospective cohort study investigated the selection of patients likely to benefit from curative treatment and whether information on patients’ health-related quality of life (HRQL) would assist treatment decisions in the multidisciplinary team. <b>Methods:</b> Consecutive patients completed HRQL assessments and clinical data were collected before start of treatment. Logistic regression analyses identified clinical factors associated with treatment intent in patients with stage-III disease. Kaplan–Meier method was used for survival analyses and Cox proportional hazards models were used to assess the impact of clinical factors and HRQL on survival in patients planned for curative treatment. <b>Results:</b> Patients with curative treatment intent (<i>n</i> = 90) were younger, had better WHO performance status and less fatigue than patients with palliative treatment intent (<i>n</i> = 89). Median survival for the total cohort (<i>n</i> = 179) and patients with palliative or curative treatment intent was nine, five and 19 months, respectively. In multivariate Cox regression analyses, performance status (0–1 favorable) and comorbidity (ASA I favorable) were factors of importance for survival, whereas measures of HRQL were not. <b>Conclusions:</b> Patients performance status and comorbidity must be considered in addition to stage of disease to avoid extensive curative treatment in patients with short life expectancy. This study did not provide evidence to support that information on patients HRQL adds value to the multidisciplinary team’s treatment decision process.
DOI: 10.6084/m9.figshare.5184814
title: Gaussian Process Modeling of a Functional Output with Information from Boundary and Initial Conditions and Analytical Approximations

description: A partial differential equation (PDE) models a physical quantity as a function of space and time. These models are often solved numerically with the finite element (FE) method and the computer output consists of values of the solution on a fine grid over the spatial and temporal domain. When the simulations are time-consuming, Gaussian process (GP) models can be used to approximate the relationship between the functional output and the computer inputs, which consists of boundary and initial conditions. The Dirichlet boundary and initial conditions give the functional output values on parts of the space-time domain boundary. Although this information can help improve prediction of the output, it has not been used to construct GP models. In addition, analytical solutions of the PDE derived by simplifying the PDE can often be obtained, which can help further improve performance of the GP model. This article proposes a Karhunen–Loève (KL) expansion-based GP model that satisfies the Dirichlet boundary and initial conditions almost surely, and effectively uses information from analytical approximations to the PDE solution. Real examples demonstrate the improved prediction performance achieved by using these sources of prior information. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5184745
title: Mindfulness-based interventions for women with breast cancer: an updated systematic review and meta-analysis

description: <b>Background:</b> The aim of this meta-analysis was to systematically update the evidence for mindfulness-based stress reduction (MBSR) and mindfulness-based cognitive therapy (MBCT) in women with breast cancer. <b>Material and methods:</b> In October 2016, PubMed, Scopus, and Central were searched for randomized controlled trials on MBSR/MBCT in breast cancer patients. The primary outcome was health-related quality of life. Secondary outcomes were fatigue, sleep stress, depression, anxiety, and safety. For each outcome, standardized mean differences (SMD/Hedges’ g) and 95% confidence intervals (CI) were calculated. Risk of bias was assessed by the Cochrane risk of bias tool. <b>Results:</b> The Literature search identified 14 articles on 10 studies that included 1709 participants. The overall risk of bias was unclear, except for risk of low attrition bias and low other bias. Compared to usual care, significant post-intervention effects of MBSR/MBCT were found for health-related quality of life (SMD = .21; 95%CI = [.04–.39]), fatigue (SMD = −.28; 95%CI = [−.43 to −.14]), sleep (SMD = −.23; 95%CI = [−.40 to −.05]), stress (SMD = −.33; 95%CI = [−.61 to −.05]), anxiety (SMD = −.28; 95%CI = [−.39 to −.16]), and depression (SMD = −.34; 95%CI = [−.46 to −.21]). Up to 6 months after baseline effects were significant for: anxiety (SMD = −.28; 95%CI = [−.47 to −.09]) and depression (SMD = −.26; 95%CI = [−.47 to −.04]); and significant for anxiety (SMD = −.21; 95%CI = [−.40 to −.03]) up to 12 months after baseline. Compared to other active interventions, significant effects were only found post-intervention and only for anxiety (SMD = −.45; 95%CI = [−.71 to −.18]) and depression (SMD = −.39; 95%CI = [−.65 to −.14]). However, average effects were all below the threshold of minimal clinically important differences. Effects were robust against potential methodological bias. Adverse events were insufficiently reported. <b>Conclusions:</b> This meta-analysis revealed evidence for the short-term effectiveness and safety of mindfulness-based interventions in women with breast cancer. However, their clinical relevance remains unclear. Further research is needed.
DOI: 10.6084/m9.figshare.5184745.v1
title: Mindfulness-based interventions for women with breast cancer: an updated systematic review and meta-analysis

description: <b>Background:</b> The aim of this meta-analysis was to systematically update the evidence for mindfulness-based stress reduction (MBSR) and mindfulness-based cognitive therapy (MBCT) in women with breast cancer. <b>Material and methods:</b> In October 2016, PubMed, Scopus, and Central were searched for randomized controlled trials on MBSR/MBCT in breast cancer patients. The primary outcome was health-related quality of life. Secondary outcomes were fatigue, sleep stress, depression, anxiety, and safety. For each outcome, standardized mean differences (SMD/Hedges’ g) and 95% confidence intervals (CI) were calculated. Risk of bias was assessed by the Cochrane risk of bias tool. <b>Results:</b> The Literature search identified 14 articles on 10 studies that included 1709 participants. The overall risk of bias was unclear, except for risk of low attrition bias and low other bias. Compared to usual care, significant post-intervention effects of MBSR/MBCT were found for health-related quality of life (SMD = .21; 95%CI = [.04–.39]), fatigue (SMD = −.28; 95%CI = [−.43 to −.14]), sleep (SMD = −.23; 95%CI = [−.40 to −.05]), stress (SMD = −.33; 95%CI = [−.61 to −.05]), anxiety (SMD = −.28; 95%CI = [−.39 to −.16]), and depression (SMD = −.34; 95%CI = [−.46 to −.21]). Up to 6 months after baseline effects were significant for: anxiety (SMD = −.28; 95%CI = [−.47 to −.09]) and depression (SMD = −.26; 95%CI = [−.47 to −.04]); and significant for anxiety (SMD = −.21; 95%CI = [−.40 to −.03]) up to 12 months after baseline. Compared to other active interventions, significant effects were only found post-intervention and only for anxiety (SMD = −.45; 95%CI = [−.71 to −.18]) and depression (SMD = −.39; 95%CI = [−.65 to −.14]). However, average effects were all below the threshold of minimal clinically important differences. Effects were robust against potential methodological bias. Adverse events were insufficiently reported. <b>Conclusions:</b> This meta-analysis revealed evidence for the short-term effectiveness and safety of mindfulness-based interventions in women with breast cancer. However, their clinical relevance remains unclear. Further research is needed.
DOI: 10.6084/m9.figshare.5184814.v1
title: Gaussian Process Modeling of a Functional Output with Information from Boundary and Initial Conditions and Analytical Approximations

description: A partial differential equation (PDE) models a physical quantity as a function of space and time. These models are often solved numerically with the finite element (FE) method and the computer output consists of values of the solution on a fine grid over the spatial and temporal domain. When the simulations are time-consuming, Gaussian process (GP) models can be used to approximate the relationship between the functional output and the computer inputs, which consists of boundary and initial conditions. The Dirichlet boundary and initial conditions give the functional output values on parts of the space-time domain boundary. Although this information can help improve prediction of the output, it has not been used to construct GP models. In addition, analytical solutions of the PDE derived by simplifying the PDE can often be obtained, which can help further improve performance of the GP model. This article proposes a Karhunen–Loève (KL) expansion-based GP model that satisfies the Dirichlet boundary and initial conditions almost surely, and effectively uses information from analytical approximations to the PDE solution. Real examples demonstrate the improved prediction performance achieved by using these sources of prior information. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5183710
title: Reply & Supply: Experiment 2 (Synonym Proposal Task) Crowdsourcing Data

description: These data support the <b>synonymy proposal task</b> (<b>SPT</b>) experiment described in the paper "<i>Reply & Supply: Efficient crowdsourcing when workers do more than answer questions</i>", https://arxiv.org/abs/1611.00954.<br><br>The data consist of two CSV files, one describing the questions built by the crowd as they work, the other recording the responses of workers when presented with questions. A "question id" (`qid`) field links these data. The IDs of Mechanical Turk workers were deidentified. The task interface is described in Fig. 2 of the paper.<br>Three question sampling algorithms were tested in the experiment. These are recorded in the `algorithm`. Note that workers may participate in multiple algorithms, and that `qid` is only unique for a given algorithm (`qid` 1 under the `random` algorithm and `qid` 1 under the `binomial` algorithm are not the same question).
DOI: 10.6084/m9.figshare.5183662
title: “'Cause You Can't Play This by Yourself”: Athletes' Perceptions of Team Influence on Their Precompetitive Psychological States

description: Although correlational studies indicate that team attributes are related to athletes' precompetitive psychological states, it is unknown how team members experience these relationships. The present study's purpose was to investigate athletes' perceptions of precompetitive team influence. Consequently, we worked from a constructivist realist position and used qualitative methods (interviews with competitive team-sport athletes). An inductive content analysis revealed that athletes perceived established and novel team characteristics and processes to influence their precompetitive psychological states. Athletes perceived these influences as both adaptive and maladaptive, and it appeared that they were qualified by contextual factors as well as intuitive regulatory attempts.
DOI: 10.6084/m9.figshare.5183662.v2
title: “'Cause You Can't Play This by Yourself”: Athletes' Perceptions of Team Influence on Their Precompetitive Psychological States

description: Although correlational studies indicate that team attributes are related to athletes' precompetitive psychological states, it is unknown how team members experience these relationships. The present study's purpose was to investigate athletes' perceptions of precompetitive team influence. Consequently, we worked from a constructivist realist position and used qualitative methods (interviews with competitive team-sport athletes). An inductive content analysis revealed that athletes perceived established and novel team characteristics and processes to influence their precompetitive psychological states. Athletes perceived these influences as both adaptive and maladaptive, and it appeared that they were qualified by contextual factors as well as intuitive regulatory attempts.
DOI: 10.6084/m9.figshare.5183662.v1
title: “‘Cause You Can't Play This by Yourself” – Athletes’ Perceptions of Team Influence on Their Precompetitive Psychological States

description: Although correlational studies indicate that team attributes are related to athletes' precompetitive psychological states, it is unknown how team members experience these relationships. The present study's purpose was to investigate athletes' perceptions of precompetitive team influence. Consequently, we worked from a constructivist realist position and used qualitative methods (interviews with competitive team-sport athletes). An inductive content analysis revealed that athletes perceived established and novel team characteristics and processes to influence their precompetitive psychological states. Athletes perceived these influences as both adaptive and maladaptive, and it appeared that they were qualified by contextual factors as well as intuitive regulatory attempts.
DOI: 10.6084/m9.figshare.5183515
title: Polypocephalus infection of hippoid crabs

description: Infection of <i>Lepidopa benedicti</i> and <i>Emerita benedicti</i> by <i>Polypocephalus</i> sp. larvae.<br><br>Data for PeerJ paper in press.
DOI: 10.6084/m9.figshare.5183518
title: Spatio-temporal Epidemiology of JE in Nepal: 2007-2015

description: Japanese encephalitis (JE) is a major public health problem in Nepal. For the effective management and surveillance of JE, a clear understanding of its epidemiology is essential. Therefore, we conducted descriptive and spatial analyses to understand the spatio-temporal distribution of JE in human in Nepal.<br>
DOI: 10.6084/m9.figshare.5183452
title: Functional relationship between material property, applied frequency and ozone generation for surface DBD in atmospheric air

description: This project contains raw data of ozone levels detected according to the type of dielectric materials of the surface DBD plasma reactor and operating frequency. For each case of study, an excel file containing the mean values and uncertainties, as well as the matlab code that generates it are provided. In addition, each figure is generated by a separate matlab code whose name corresponding to the order of the figure in the paper. The only line that needs modification in the code is the line containing the local directory where the code and the data are saved.
DOI: 10.6084/m9.figshare.5183485
title: MP PLOS One manuscript data.pdf

description: Data for a manuscript entitled "Aberrant cGMP Signaling Persists During Recovery in Mice with Oxygen-InducedPulmonary Hypertension".
DOI: 10.6084/m9.figshare.5183488
title: Data_for_Model_Averaging.xlsx

description: Data used for the model averaging performed in "Which temporal resolution to consider when invesitgating the impact of climatic data on population dynamic ? the case of the lesser horseshoe bat."<br>
DOI: 10.6084/m9.figshare.5183515.v1
title: Polypocephalus infection of hippoid crabs

description: Infection of <i>Lepidopa benedicti</i> and <i>Emerita benedicti</i> by <i>Polypocephalus</i> sp. larvae.<br><br>Data for PeerJ paper in press.
DOI: 10.6084/m9.figshare.5183518.v1
title: Spatio-temporal Epidemiology of JE in Nepal: 2007-2015

description: Japanese encephalitis (JE) is a major public health problem in Nepal. For the effective management and surveillance of JE, a clear understanding of its epidemiology is essential. Therefore, we conducted descriptive and spatial analyses to understand the spatio-temporal distribution of JE in human in Nepal.<br>
DOI: 10.6084/m9.figshare.5183485.v1
title: MP PLOS One manuscript data.pdf

description: Data for a manuscript entitled "Aberrant cGMP Signaling Persists During Recovery in Mice with Oxygen-InducedPulmonary Hypertension".
DOI: 10.6084/m9.figshare.5183488.v1
title: Data_for_Model_Averaging.xlsx

description: Data used for the model averaging performed in "Which temporal resolution to consider when invesitgating the impact of climatic data on population dynamic ? the case of the lesser horseshoe bat."<br>
DOI: 10.6084/m9.figshare.5183395.v1
title: Homogeneous earthquake catalogue for Northeast region of India using robust statistical approaches

description: Regular seismic hazard assessment requires essentially an updated and refined homogenous earthquake catalogue for the study region. Here, we have compiled the earthquake data for Northeast region of India in a chronological order from International Seismological Centre and Global Centroid Moment Tensor databases during the period 1 January 1900 to 31 April 2016. For this purpose, the regression techniques such as least square (SR), inverse least square (ISR), orthogonal (OR) and generalized orthogonal (GOR) which is the best one, out of that are employed for converting different types of magnitude scales, such as surface-wave magnitude (<i>M<sub>S</sub></i>), body-wave magnitude (<i>m<sub>b</sub></i>) and local magnitude (<i>M<sub>L</sub></i>) into a single homogenized moment magnitude, <i>M<sub>W</sub></i>. The homogenized catalogue is then treated with ‘runs test’ to estimate <i>p</i>-value of 0.8421 which suggest no spurious reporting on the catalogue. The prepared catalogue has also been declustered using standard procedure. Furthermore, the magnitude of completeness for space and time with 90% confidence level has been achieved. The seismicity parameters, namely magnitude of completeness <i>M<sub>C</sub></i>, <i>a</i>-value and <i>b</i>-value are found to be 4.6, 7.50 and 0.95(±0.023), respectively. The observed low <i>b</i>-value implies that the study region is tectonically very active with the presence of asperity.