cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4005288
title: Intermediate results objects for reproducing unbiased methylation gene set testing paper analyses

description: Intermediate results objects that can be used to replicate the analyses presented in <em>"Gene set enrichment analysis for genome-wide DNA methylation data"</em> available at https://www.biorxiv.org/content/10.1101/2020.08.24.265702v1.<br> Instructions for how to incorporate the objects into the analysis can be found at: http://oshlacklab.com/methyl-geneset-testing/gettingStarted.html and the complete analysis code can be cloned from: https://github.com/Oshlack/methyl-geneset-testing.
DOI: 10.6084/m9.figshare.7228421.v1
title: Supplementary Material for: Autosomal Dominant Polycystic Kidney Disease: Clinical Assessment of Rapid Progression

description: <b><i>Background:</i></b> Autosomal dominant polycystic kidney disease (ADPKD) causes the development of renal cysts and leads to a decline in renal function. Limited guidance exists in clinical practice on the use of tolvaptan. A decision algorithm from the European Renal Association-European Dialysis and Transplant Association (ERA-EDTA) Working Groups of Inherited Kidney Disorders and European Renal Best Practice (WGIKD/ERBP) has been proposed to identify candidates for tolvaptan treatment; however, this algorithm has not been assessed in clinical practice. <b><i>Methods:</i></b> Eighteen-month cross-sectional, unicenter, observational study assessing 305 consecutive ADPKD patients. The ERA-EDTA WGIKD/ERBP algorithm with a stepwise approach was used to assess rapid progression (RP). Subsequently, expanded criteria based on the REPRISE trial were applied to evaluate the ­impact of extended age (≤55 years) and estimated glomerular filtration rate (eGFR; ≥25 mL/min/1.73 m<sup>2</sup>). <b><i>Results:</i></b> Historical eGFR decline, indicative of RP, was fulfilled in 26% of 73 patients who were candidates for RP assessment, mostly aged 31–55 years. Further tests including ultrasound and MRI measurements of kidney volume plus genetic testing enabled the evaluation of the remaining patients. Overall, 15.7% of patients met the criteria for rapid or likely RP using the algorithm, and the percentage increased to 27% when extending age and eGFR. <b><i>Conclusions:</i></b> The ERA-EDTA WGIKD/ERBP algorithm provides a valuable means of identifying in routine clinical practice patients who may be eligible for treatment with tolvaptan. The impact of a new threshold for age and eGFR may increase the percentage of patients to be treated.
DOI: 10.6084/m9.figshare.7228418.v1
title: Dataset for: Spatial models for non-Gaussian data with covariates measurement error

description: Spatial models have been widely used in the public health set-up. In the case of continuous outcomes, the traditional approaches to model spatial data are based on the Gaussian distribution. This assumption might be overly restrictive to represent the data. The real data could be highly non-Gaussian and may show features like heavy tails and/or skewness. In spatial data modeling, it is also commonly assumed that the covariates are observed without errors, but for various reasons such as measurement techniques or instruments used, uncertainty is inherent in spatial (especially geostatistics) data and so these data are susceptible to measurement error in the covariates of interest. In this paper, we introduce a general class of spatial models with covariates measurement error that can account for both heavy tails, skewness, and also uncertainty of the covariates. A likelihood method, which leads to maximum likelihood estimation approach, is used for the inference through Monte Carlo Expectation-Maximization algorithm. The predictive distribution at non-sampled sites is approximated based on Markov chain Monte Carlo algorithm. The proposed approach is evaluated through a simulation study and also by a real application (particulate matters dataset).
DOI: 10.7284/126187
title: GNSS (Global Navigation Satellite System) data collected during research cruise SP1702 using a Ashtech ADU2 instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126188
title: GNSS (Global Navigation Satellite System) data collected during research cruise SP1702 using a Furuno GP-90D instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228400
title: Supplementary Material for: Empirical Types of Medical Psychiatry Units

description: Medicine
DOI: 10.7284/126189
title: GNSS (Global Navigation Satellite System) data collected during research cruise SP1702 using a Furuno GP-150 instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228379
title: Neuromarketing en España

description: Introducción. Se analizan cinco sitios Web de empresas españolas dedicadas al neuromárketing para conocer la información que difunden sobre sus métodos de trabajo, evaluar si los contenidos que facilitan son completos y accesibles tanto para un público experto como para uno novel, y para evidenciar patrones comunes en sus imágenes corporativas online. Metodología. Se procede a efectuar un análisis semiótico desde la Teoría de los Discursos Sociales atendiendo a aspectos retóricos, temáticos y enunciativos de los sitios Web. Asimismo, se diseñan categorías ad hoc para este estudio. Resultados. Se demuestra que las cinco empresas dedicadas al neuromárketing facilitan datos imprecisos y exiguos sobre las limitaciones de sus tecnologías, de sus campos de desempeño, validaciones y proyecciones, en discursos en los que se observan regularidades temáticas y retóricas que construyen efectos de cientificidad. Discusión. Visto lo anterior, se comprueba que la calidad de la información es insuficiente y engañosa tanto para una audiencia especializada como una que se introduce en el área. Conclusiones. Las empresas españolas de neuromárketing deberían proporcionar información concreta, veraz y contrastable sobre sus metodologías y sus limitaciones. Palabras clave: neuromárketing; consumer neuroscience; Internet; imagen corporativa; ética.
DOI: 10.7284/126185
title: Gyrocompass data collected during research cruise SP1702 using a Furuno Furuno SC-30 instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228376
title: Supplementary Material for: Probiotic Treatment in Individuals with Euthymic Bipolar Disorder: A Pilot-Study on Clinical Changes and Compliance

description: The importance of the microbiome for psychological well-being has gained rising interest in the last decade. A strategy to examine the role of the microbiome in different diseases is the intake of supplements that modulate the gut microbiome. Despite promising results in animal studies, research in humans is sparse to date and especially in individuals with psychiatric disorders almost missing. The current report of the ProbioBIP-one pilot study aims at describing general effects of the intake of the probiotic OMNi-BiOTiC Stress repair® on psychological parameters as well as gastrointestinal symptoms and general compliance in a cohort of euthymic individuals with bipolar disorder (BD), receiving daily probiotic treatment over a time period of 3 months. Twenty-seven individuals with BD took part in the present study (mean age = 50.7 years, SD = 12.2; females 40.7%). In sum, there was a high compliance rate with 81.5% of the study participants completing all 3 study visits and 85% of planned probiotic ingestions taken. Gastrointestinal problems were prevalent in more than half of the patients at the time of inclusion (t1). Expectedly, in the whole cohort, a high proportion of study participants experienced changes concerning digestion during probiotic treatment, around one third reported positive changes (reduced flatulence and easier and more frequent bowel movements) after 1 month (t2) and further after 3 months (t3). In contrast, a smaller part of study participants reported gastrointestinal discomfort after 1 and after 3 months (mainly flatulence and obstipation). We found a significantly reduced cognitive reactivity to sad mood between t2 and t3 indicating that participants under probiotic supplementation perceived themselves to be less distracted by ruminative thoughts. Further changes in psychiatric symptoms were small due to the euthymic state and already low scoring at the time of inclusion. Nevertheless, we found a significant symptom reduction in the rating scales measuring manic symptoms. From a clinical point of view, probiotic supplementation might provide a well-tolerated tool to positively influence gastrointestinal quality of life as well as mental and somatic health, cognition and immune response and potentially have effects on psychiatric symptoms.
DOI: 10.6084/m9.figshare.7228376.v1
title: Supplementary Material for: Probiotic Treatment in Individuals with Euthymic Bipolar Disorder: A Pilot-Study on Clinical Changes and Compliance

description: The importance of the microbiome for psychological well-being has gained rising interest in the last decade. A strategy to examine the role of the microbiome in different diseases is the intake of supplements that modulate the gut microbiome. Despite promising results in animal studies, research in humans is sparse to date and especially in individuals with psychiatric disorders almost missing. The current report of the ProbioBIP-one pilot study aims at describing general effects of the intake of the probiotic OMNi-BiOTiC Stress repair® on psychological parameters as well as gastrointestinal symptoms and general compliance in a cohort of euthymic individuals with bipolar disorder (BD), receiving daily probiotic treatment over a time period of 3 months. Twenty-seven individuals with BD took part in the present study (mean age = 50.7 years, SD = 12.2; females 40.7%). In sum, there was a high compliance rate with 81.5% of the study participants completing all 3 study visits and 85% of planned probiotic ingestions taken. Gastrointestinal problems were prevalent in more than half of the patients at the time of inclusion (t1). Expectedly, in the whole cohort, a high proportion of study participants experienced changes concerning digestion during probiotic treatment, around one third reported positive changes (reduced flatulence and easier and more frequent bowel movements) after 1 month (t2) and further after 3 months (t3). In contrast, a smaller part of study participants reported gastrointestinal discomfort after 1 and after 3 months (mainly flatulence and obstipation). We found a significantly reduced cognitive reactivity to sad mood between t2 and t3 indicating that participants under probiotic supplementation perceived themselves to be less distracted by ruminative thoughts. Further changes in psychiatric symptoms were small due to the euthymic state and already low scoring at the time of inclusion. Nevertheless, we found a significant symptom reduction in the rating scales measuring manic symptoms. From a clinical point of view, probiotic supplementation might provide a well-tolerated tool to positively influence gastrointestinal quality of life as well as mental and somatic health, cognition and immune response and potentially have effects on psychiatric symptoms.
DOI: 10.7284/126184
title: Meteorological Station data collected during research cruise SP1702 using a SIO MET-System instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228370
title: Underwater sounds in newts

description: Parameters of underwater sounds produced by adults of two newt species, Ichthyosaura alpestris and Lissotriton vulgaris.<br>
DOI: 10.7284/126183
title: Winch data collected during research cruise SP1702 using a Markey DEYSH-3 instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228364
title: Supplementary Material for: Alterations in Intra- and Interregional Intrinsic Brain Connectivity Are Differentially Associated with Memory Performance in Amnestic Mild Cognitive Impairment

description: <b><i>Background:</i></b> Previous research has separated spatial patterns of intra- and interregional intrinsic brain connectivity, as evaluated by regional homogeneity (ReHo) and functional connectivity (FC), respectively, in prodromal Alzheimer’s disease (AD). Moreover, the intra- and interregional intrinsic brain connectivities have been demonstrated to have a significant relationship with each other. <b><i>Objective:</i></b> To explore FCs from brain regions which display a difference in ReHo between an amnestic mild cognitive impairment (aMCI) group and healthy controls (HC) and to examine the relationship of intra- and interregional intrinsic brain connectivity to cognitive function in both groups. <b><i>Methods:</i></b> Thirty-four subjects with aMCI and 38 HC underwent 3T MRI scanning and a battery of neuropsychological tests. <b><i>Results:</i></b> The aMCI group exhibited significantly higher ReHo in the left putamen and lower ReHo in the left inferior temporal gyrus than the HC. Furthermore, both groups showed a distinctive functional connectivity pattern seeded from 2 regions of interest which exhibited significant ReHo differences between the groups. In the HC group, only ReHo exhibited significant associations with memory performance, but in the aMCI group, only FC seeded from the left inferior temporal gyrus showed significant correlations with memory performance. <b><i>Conclusions:</i></b> By approaching both intra- and interregional intrinsic brain activities in the early stages of AD, the findings of this research provide insights into the early pathogenesis of AD as related to memory performance.
DOI: 10.6084/m9.figshare.7228364.v1
title: Supplementary Material for: Alterations in Intra- and Interregional Intrinsic Brain Connectivity Are Differentially Associated with Memory Performance in Amnestic Mild Cognitive Impairment

description: <b><i>Background:</i></b> Previous research has separated spatial patterns of intra- and interregional intrinsic brain connectivity, as evaluated by regional homogeneity (ReHo) and functional connectivity (FC), respectively, in prodromal Alzheimer’s disease (AD). Moreover, the intra- and interregional intrinsic brain connectivities have been demonstrated to have a significant relationship with each other. <b><i>Objective:</i></b> To explore FCs from brain regions which display a difference in ReHo between an amnestic mild cognitive impairment (aMCI) group and healthy controls (HC) and to examine the relationship of intra- and interregional intrinsic brain connectivity to cognitive function in both groups. <b><i>Methods:</i></b> Thirty-four subjects with aMCI and 38 HC underwent 3T MRI scanning and a battery of neuropsychological tests. <b><i>Results:</i></b> The aMCI group exhibited significantly higher ReHo in the left putamen and lower ReHo in the left inferior temporal gyrus than the HC. Furthermore, both groups showed a distinctive functional connectivity pattern seeded from 2 regions of interest which exhibited significant ReHo differences between the groups. In the HC group, only ReHo exhibited significant associations with memory performance, but in the aMCI group, only FC seeded from the left inferior temporal gyrus showed significant correlations with memory performance. <b><i>Conclusions:</i></b> By approaching both intra- and interregional intrinsic brain activities in the early stages of AD, the findings of this research provide insights into the early pathogenesis of AD as related to memory performance.
DOI: 10.6084/m9.figshare.7228370.v1
title: Underwater sounds in newts

description: Parameters of underwater sounds produced by adults of two newt species, Ichthyosaura alpestris and Lissotriton vulgaris.<br>
DOI: 10.6084/m9.figshare.7228358
title: Supplementary Material for: Innate Myeloid Cell Subset-Specific Gene Expression Patterns in the Human Colon are Altered in Crohn’s Disease Patients

description: <b><i>Background/Aims:</i></b> There is a heterogeneous subset innate myeloid cells, such as macrophages and dendritic cells, in the human intestinal lamina propria. Several studies have demonstrated that these cells contribute to the maintenance of gut homeostasis through the induction of inflammatory responses and tolerance via cell type-specific mechanisms; whereas, disrupted innate immune responses are implicated in the pathogenesis of Crohn’s disease (CD). However, the detailed mechanisms by which each innate myeloid subset regulates gut homeostasis and inflammation largely remain unknown. We aimed to clarify the comprehensive gene expression profiles of innate myeloid cell ­subsets in the lamina propria from normal human colons (NC) and the inflamed colon sites from patients with Crohn’s disease (CDi). <b><i>Methods:</i></b> We performed RNA-sequencing analysis and precise bioinformatics analysis on 3 innate myeloid cell subsets, CD14<sup>–</sup>CD11c<sup>–</sup>, CD14<sup>–</sup>CD11c<sup>+</sup>, and CD14<sup>+</sup>CD11c<sup>+</sup>CD163<sup>low</sup> cells from NC and CDi. <b><i>Results:</i></b> Transcriptional analysis of the 3 subsets from the NC showed distinct gene expression patterns and gene ontology (GO) enrichment analysis revealed the associated innate myeloid subset-specific biological process (BP) terms. In addition, changes in gene expression patterns were observed in innate myeloid subsets from CDi. Furthermore, the core GO-BP terms for the genes upregulated in the innate myeloid cells from CDi were distinct from those found in NC. <b><i>Conclusion:</i></b> Our data identified the innate myeloid cell subset-specific transcriptomes and the associated enriched GO-BP terms in the NC and found these patterns were altered in CDi.
DOI: 10.6084/m9.figshare.7228358.v1
title: Supplementary Material for: Innate Myeloid Cell Subset-Specific Gene Expression Patterns in the Human Colon are Altered in Crohn’s Disease Patients

description: <b><i>Background/Aims:</i></b> There is a heterogeneous subset innate myeloid cells, such as macrophages and dendritic cells, in the human intestinal lamina propria. Several studies have demonstrated that these cells contribute to the maintenance of gut homeostasis through the induction of inflammatory responses and tolerance via cell type-specific mechanisms; whereas, disrupted innate immune responses are implicated in the pathogenesis of Crohn’s disease (CD). However, the detailed mechanisms by which each innate myeloid subset regulates gut homeostasis and inflammation largely remain unknown. We aimed to clarify the comprehensive gene expression profiles of innate myeloid cell ­subsets in the lamina propria from normal human colons (NC) and the inflamed colon sites from patients with Crohn’s disease (CDi). <b><i>Methods:</i></b> We performed RNA-sequencing analysis and precise bioinformatics analysis on 3 innate myeloid cell subsets, CD14<sup>–</sup>CD11c<sup>–</sup>, CD14<sup>–</sup>CD11c<sup>+</sup>, and CD14<sup>+</sup>CD11c<sup>+</sup>CD163<sup>low</sup> cells from NC and CDi. <b><i>Results:</i></b> Transcriptional analysis of the 3 subsets from the NC showed distinct gene expression patterns and gene ontology (GO) enrichment analysis revealed the associated innate myeloid subset-specific biological process (BP) terms. In addition, changes in gene expression patterns were observed in innate myeloid subsets from CDi. Furthermore, the core GO-BP terms for the genes upregulated in the innate myeloid cells from CDi were distinct from those found in NC. <b><i>Conclusion:</i></b> Our data identified the innate myeloid cell subset-specific transcriptomes and the associated enriched GO-BP terms in the NC and found these patterns were altered in CDi.
DOI: 10.7284/126198
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise SP1703 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126194
title: GNSS (Global Navigation Satellite System) data collected during research cruise SP1703 using a Garmin GPS-17HVS instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126195
title: GNSS (Global Navigation Satellite System) data collected during research cruise SP1703 using a Ashtech ADU2 instrument system onboard the platform RV Robert Gordon Sproul

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7228328
title: Supplementary Material for: Transcranial Magnetic Stimulation as an Intervention Tool to Recover from Language, Swallowing and Attentional Deficits after Stroke: A Systematic Review

description: <b><i>Background:</i></b> Following a stroke event, patients often are severely affected by disabilities that hinder their quality-of-life. There are currently several rehabilitative options and strategies, and it is crucial to find the most effective interventions. The applicability of transcranial magnetic stimulation (TMS) to the recovery of nonmotor functions such as communication skills, swallowing ability and spatial attention after stroke remains important clinical questions. <b><i>Summary:</i></b> We searched PubMed and ISI Web of Science for articles that used repetitive TMS protocols to rehabilitate post-stroke deficits. We analysed qualitatively 38 articles that met the eligibility criteria; of these, 21 dealt with aphasia, 8 with dysphagia, 8 with neglect and 1 with visual extinction. The efficacy of TMS as an intervention for post-stroke rehabilitation of these nonmotor deficits was studied as well as the current limitations were assessed. <b><i>Key Messages:</i></b> Most part of the included studies reported statistically significant functional improvements, supporting the use of TMS for the rehabilitation of aphasia, dysphagia and neglect. Future research, with larger sample sizes, is mandatory to confirm its efficacy, determine the optimal stimulation parameters and investigate inter-subject variability.
DOI: 10.6084/m9.figshare.7228331
title: Extreme response style syntax

description: This scoring syntax accompanies the extreme response style manuscript.
DOI: 10.6084/m9.figshare.7228331.v1
title: Extreme response style syntax

description: This scoring syntax accompanies the extreme response style manuscript.