cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21227/dadk-s070
title: Large-scale Ridesharing DARP Instances Based on Real Travel Demand

description: This dataset presents a set of large-scale Dial-a-Ride Problem (DARP) instances. The instances were created as a standardized set of ridesharing DARP problems for the purpose of benchmarking and comparing different solution methods.The instances are based on real demand and realistic travel time data from 3 different US cities: Chicago, New York City, and Washington, DC. The instances consist of real travel requests from the selected period, positions of vehicles with their capacities, and realistic shortest travel times between all pairs of locations in each city.The instances and results of two solution methods, the Insertion Heuristic and the optimal Vehicle-group Assignment method, can be found in the dataset. arXiv Paper: Large-scale Ridesharing DARP Instances Based on Real Travel Demand.Data: Zenodo RepositoryCode: Github RepositoryThe dataset was presented at the IEEE International Conference on Intelligent Transportation Systems (ITSC 2023) in Bilbao, Bizkaia, Spain, 24-28 September 2023 (Session CON03)
DOI: 10.6084/m9.figshare.24119484
title: Identification of two mutant <i>JASON-RELATED</i> genes associated with unreduced pollen production in potato

description: This zip file contains the data and code necessary to reproduce the figures and results of Clot et al. 2024 Identification of two mutant <i>JASON-RELATED</i> genes associated with unreduced pollen production in potato.
DOI: 10.5281/zenodo.10259217
title: 19ENG08.Measurement_T12HP_2kNm_TorqueTransducer.PTB.v1.20231106

description: Representative dataset of measurement data of HBK torque transducer performed at the motor test bench at PTB under rotation. The torque transducer has a telemetric system enabling rotational speed measurement.
description: The project 19ENG08 – WindEFCY has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.5281/zenodo.10259218
title: 19ENG08.Measurement_T12HP_2kNm_TorqueTransducer.PTB.v1.20231106

description: Representative dataset of measurement data of HBK torque transducer performed at the motor test bench at PTB under rotation. The torque transducer has a telemetric system enabling rotational speed measurement.
description: The project 19ENG08 – WindEFCY has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.6084/m9.figshare.24637704
title: Supplementary Material for: False-positive liquid biopsy assays secondary to overlapping aberrant methylation from non-cancer disease states

description: Introduction: Liquid biopsies are increasingly being adopted in the care of patients with cancer. Not only in patients with metastatic disease but the utility is also being recognized in earlier phases of the journey of a patient with cancer. More recently, methylated platforms are offering another lens of looking at the same question more so in minimal residual disease (MRD) and early detection settings. While false positives secondary to clonal hematopoiesis of indeterminant potential (CHIP) is recognized as one entity to consider when interpreting these assays and advanced CHIP filtering bioinformatics platforms can prevent this, false positives secondary to aberrant methylation is not described. Case presentation: Herein, we report a case of a patient with hepatitis C related viremia and a very high viral load that had a false positive plasma-only colorectal MRD assay. The colorectal MRD assay spontaneously cleared on HCV therapy which led to clearance of the virus. Conclusion: As these assays are increasingly applied in real-world settings, it would be of value to consider non-cancer chronic disease states that may lead to aberrant methylation that could lead to a false positive assay.
DOI: 10.6084/m9.figshare.24637704.v1
title: Supplementary Material for: False-positive liquid biopsy assays secondary to overlapping aberrant methylation from non-cancer disease states

description: Introduction: Liquid biopsies are increasingly being adopted in the care of patients with cancer. Not only in patients with metastatic disease but the utility is also being recognized in earlier phases of the journey of a patient with cancer. More recently, methylated platforms are offering another lens of looking at the same question more so in minimal residual disease (MRD) and early detection settings. While false positives secondary to clonal hematopoiesis of indeterminant potential (CHIP) is recognized as one entity to consider when interpreting these assays and advanced CHIP filtering bioinformatics platforms can prevent this, false positives secondary to aberrant methylation is not described. Case presentation: Herein, we report a case of a patient with hepatitis C related viremia and a very high viral load that had a false positive plasma-only colorectal MRD assay. The colorectal MRD assay spontaneously cleared on HCV therapy which led to clearance of the virus. Conclusion: As these assays are increasingly applied in real-world settings, it would be of value to consider non-cancer chronic disease states that may lead to aberrant methylation that could lead to a false positive assay.
DOI: 10.6084/m9.figshare.24540919
title: Supplementary Material for: Dose-response relationship between C-reactive protein/albumin ratio and in-hospital mortality in elderly patients with acute ischemic stroke

description: Introduction: The C-reactive protein/albumin ratio is a reliable indicator of outcome risk in several diseases. This study aims to evaluate prognostic power of the C-reactive protein/albumin ratio for in-hospital mortality and the dose-response relationship between the two in the oldest-old patients with acute ischemic stroke. Methods: A longitudinal observational study was conducted including patients with acute ischemic stroke (aged ≥ 80 years) from two tertiary hospitals between January 1, 2014, and January 31, 2020. Based on the tertiles of the C-reactive protein/albumin ratio, the patients were divided into three groups. Restrictive cubic spline and robust locally weighted regression analysis were performed on continuous variables to examine the dose–response relationship between the C-reactive protein/albumin ratio and in-hospital mortality risk. All-cause mortality during hospitalization was the outcome for this study. Results: The study included 584 patients (mean age = 84.6 ± 3.1 years; 59.6% men). The C-reactive protein/albumin ratio was divided into three groups, namely, T1 of &lt; 0.73, T2 of 0.73 – 2.03, and T3: &gt; 2.03. After adjusting for demographic and clinical characteristics, a higher C-reactive protein/albumin ratio was independently associated with in-hospital mortality. The hazard ratio for this association was 2.01 (95% confidence interval: 1.12 – 3.60, P = 0.019). A dose–response relationship between the C-reactive protein/albumin ratio and in-hospital mortality risk was observed. Sensitivity analysis found no attenuation in the hazard ratio in uninfected individuals, whereas no difference in the hazard ratio was noted in individuals with infections. Conclusions: When predicting in–hospital mortality in the oldest-old patients with ischemic stroke, the C-reactive protein/albumin ratio might be a helpful and convenient metric.
DOI: 10.6084/m9.figshare.24540919.v1
title: Supplementary Material for: Dose-response relationship between C-reactive protein/albumin ratio and in-hospital mortality in elderly patients with acute ischemic stroke

description: Introduction: The C-reactive protein/albumin ratio is a reliable indicator of outcome risk in several diseases. This study aims to evaluate prognostic power of the C-reactive protein/albumin ratio for in-hospital mortality and the dose-response relationship between the two in the oldest-old patients with acute ischemic stroke. Methods: A longitudinal observational study was conducted including patients with acute ischemic stroke (aged ≥ 80 years) from two tertiary hospitals between January 1, 2014, and January 31, 2020. Based on the tertiles of the C-reactive protein/albumin ratio, the patients were divided into three groups. Restrictive cubic spline and robust locally weighted regression analysis were performed on continuous variables to examine the dose–response relationship between the C-reactive protein/albumin ratio and in-hospital mortality risk. All-cause mortality during hospitalization was the outcome for this study. Results: The study included 584 patients (mean age = 84.6 ± 3.1 years; 59.6% men). The C-reactive protein/albumin ratio was divided into three groups, namely, T1 of &lt; 0.73, T2 of 0.73 – 2.03, and T3: &gt; 2.03. After adjusting for demographic and clinical characteristics, a higher C-reactive protein/albumin ratio was independently associated with in-hospital mortality. The hazard ratio for this association was 2.01 (95% confidence interval: 1.12 – 3.60, P = 0.019). A dose–response relationship between the C-reactive protein/albumin ratio and in-hospital mortality risk was observed. Sensitivity analysis found no attenuation in the hazard ratio in uninfected individuals, whereas no difference in the hazard ratio was noted in individuals with infections. Conclusions: When predicting in–hospital mortality in the oldest-old patients with ischemic stroke, the C-reactive protein/albumin ratio might be a helpful and convenient metric.
DOI: 10.4121/6952ac97-2753-4f4b-b9bc-8e65968d81e6
title: Data underlying the publication: TIMEWISE: Temporal Dynamics for Urban Resilience - Theoretical Insights and Empirical Reflections from Amsterdam and Mumbai

description: This repository contains publicly available supporting documents towards the publication <em>"</em><strong><em>TIMEWISE</em></strong><em>: Temporal Dynamics for Urban Resilience - Theoretical Insights and Empirical Reflections from Amsterdam and Mumbai". </em>We conducted and analysed interviews with researchers and practitioners in India and The Netherlands. All interview data in this study were collected through a GDPR-compliant framework and with approval from the Human Research Ethics Committee (HREC) at the parent institute. The publicly available datasets supporting the study's findings may be accessed at DOI: 10.4121/22220398. Restrictions apply to the availability of the interview participants' personal data per the consent form signed by all participants. Datasets containing personally identifiable information data are for verification and validation only; they may not be used for further research and are available upon request until March 2024, after which they will be deleted.<br>The interviews discussed how practitioners account for long-term climate risks and uncertainties while preparing urban planning strategies. Participants answered a series of questions through semi-structured interviews to reflect on the following:<br>the requirements and constraints city planning authorities and experts face while charting goals to manage long-term climate risks and uncertainties.the variables and values that guide long-term urban planning actions (climatological, environmental, cultural, socio-economic and technological).<br>The publicly available supporting documents are:Template of the informed consent form. Interview participants gave their verbal consent for the interviews as the interviews were conducted online.Project note with the interview agenda.Detailed semi-structured interview protocol. Codebook used for qualitative analysis on Atlas TI and Summary of Interview Findings.<br>
DOI: 10.4121/6952ac97-2753-4f4b-b9bc-8e65968d81e6.v1
title: Data underlying the publication: TIMEWISE: Temporal Dynamics for Urban Resilience - Theoretical Insights and Empirical Reflections from Amsterdam and Mumbai

description: This repository contains publicly available supporting documents towards the publication <em>"</em><strong><em>TIMEWISE</em></strong><em>: Temporal Dynamics for Urban Resilience - Theoretical Insights and Empirical Reflections from Amsterdam and Mumbai". </em>We conducted and analysed interviews with researchers and practitioners in India and The Netherlands. All interview data in this study were collected through a GDPR-compliant framework and with approval from the Human Research Ethics Committee (HREC) at the parent institute. The publicly available datasets supporting the study's findings may be accessed at DOI: 10.4121/22220398. Restrictions apply to the availability of the interview participants' personal data per the consent form signed by all participants. Datasets containing personally identifiable information data are for verification and validation only; they may not be used for further research and are available upon request until March 2024, after which they will be deleted.<br>The interviews discussed how practitioners account for long-term climate risks and uncertainties while preparing urban planning strategies. Participants answered a series of questions through semi-structured interviews to reflect on the following:<br>the requirements and constraints city planning authorities and experts face while charting goals to manage long-term climate risks and uncertainties.the variables and values that guide long-term urban planning actions (climatological, environmental, cultural, socio-economic and technological).<br>The publicly available supporting documents are:Template of the informed consent form. Interview participants gave their verbal consent for the interviews as the interviews were conducted online.Project note with the interview agenda.Detailed semi-structured interview protocol. Codebook used for qualitative analysis on Atlas TI and Summary of Interview Findings.<br>
DOI: 10.5281/zenodo.10259264
title: 19ENG08.Simulation_Inclinometer.PTB.v1.20231106

description: Accurately measuring the mechanical power of wind turbines is essential for determining their efficiencies. As there is currently no standardized method available for a traceable mechanical power measurement of wind turbines, we propose a 10 MW mechanical power transfer standard based on a 5 MN·m torque transducer and an inclinometer for rotational speed measurements up to 20 min-1. In particular, the deviation of using an inclinometer is investigated both in simulation and experiments, and a compensation method is proposed. By tracing both the torque and the rotational speed measurements to national standards, it can offer a mechanical power measurement with 0.5 % measurement uncertainty.
description: The project 19ENG08 – WindEFCY has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.5281/zenodo.10259263
title: 19ENG08.Simulation_Inclinometer.PTB.v1.20231106

description: Accurately measuring the mechanical power of wind turbines is essential for determining their efficiencies. As there is currently no standardized method available for a traceable mechanical power measurement of wind turbines, we propose a 10 MW mechanical power transfer standard based on a 5 MN·m torque transducer and an inclinometer for rotational speed measurements up to 20 min-1. In particular, the deviation of using an inclinometer is investigated both in simulation and experiments, and a compensation method is proposed. By tracing both the torque and the rotational speed measurements to national standards, it can offer a mechanical power measurement with 0.5 % measurement uncertainty.
description: The project 19ENG08 – WindEFCY has received funding from the EMPIR programme co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation programme.
DOI: 10.6084/m9.figshare.24547261
title: Supplementary Material for: Glutamate-sensing genes are conserved among populations compared to glutamate metabolism genes

description: Introduction: Glutamate is a representative taste molecule with an umami flavor and is a major nutrient found abundantly in nature. Furthermore, it plays a significant role in the human body as a key metabolic intermediate and neurotransmitter. Therefore, the divergence of glutamate functions among populations during their evolution is of particular interest with a hypothesis that the genetic variation can lead to understanding divergence in taste perception. To elucidate variation in glutamate applications and to deepen our understanding of taste perception, we examined the nucleotide diversity of genes associated with glutamate sensing and metabolism among human populations. Methods: We first established 67 genes related to glutamate sensing and metabolism based on the database and literature survey. Then, for those genes, we used a population genomics approach based on ten populations over 76,156 human genomes in the gnomAD database. Results: Statistical tests of means and medians of the minor allele frequencies did not show any significant difference among populations. However, we observed substantial differences between two functional groups, glutamate sensing and glutamate metabolism, in populations of Latino/admixed American, Ashkenazi Jewish, and Others. Interestingly, we could find significant differences between the African population and the East Asian population at the single nucleotide polymorphism level of glutamate metabolism genes, but no clear differences were noted in glutamate-sensing genes. These suggest that glutamate-sensing genes are under the functional constraint compared to glutamate metabolism genes. Conclusion: Thus, glutamate-sensing genes and metabolism genes have a contrasting mode of the evolution, and glutamate-sensing genes are conservatively evolved, indicating its functional importance.
DOI: 10.6084/m9.figshare.24547261.v1
title: Supplementary Material for: Glutamate-sensing genes are conserved among populations compared to glutamate metabolism genes

description: Introduction: Glutamate is a representative taste molecule with an umami flavor and is a major nutrient found abundantly in nature. Furthermore, it plays a significant role in the human body as a key metabolic intermediate and neurotransmitter. Therefore, the divergence of glutamate functions among populations during their evolution is of particular interest with a hypothesis that the genetic variation can lead to understanding divergence in taste perception. To elucidate variation in glutamate applications and to deepen our understanding of taste perception, we examined the nucleotide diversity of genes associated with glutamate sensing and metabolism among human populations. Methods: We first established 67 genes related to glutamate sensing and metabolism based on the database and literature survey. Then, for those genes, we used a population genomics approach based on ten populations over 76,156 human genomes in the gnomAD database. Results: Statistical tests of means and medians of the minor allele frequencies did not show any significant difference among populations. However, we observed substantial differences between two functional groups, glutamate sensing and glutamate metabolism, in populations of Latino/admixed American, Ashkenazi Jewish, and Others. Interestingly, we could find significant differences between the African population and the East Asian population at the single nucleotide polymorphism level of glutamate metabolism genes, but no clear differences were noted in glutamate-sensing genes. These suggest that glutamate-sensing genes are under the functional constraint compared to glutamate metabolism genes. Conclusion: Thus, glutamate-sensing genes and metabolism genes have a contrasting mode of the evolution, and glutamate-sensing genes are conservatively evolved, indicating its functional importance.
DOI: 10.17632/z7h7mndnwc.6
title: Datasets and R Markdown files for the article "Effect size and inferential statistical techniques coupled with machine learning for assessing the association between prolactin concentration and metabolic homeostasis" submitted to Clinica Chimica Acta

description: - Datasets - - - - - - - - - - - - - - - - - - - - - - - The dataset (dataset_individual_results.xlsx) contains 65,795 anonymized laboratory results from tests of Prolactin (PRL), Glucose (GLU), Insulin (INS), Total Cholesterol (TC), HDL-c, LDL-c, and Triglycerides (TG) conducted on adult patients of both sexes in the first half of 2018. Additionally, another dataset (dataset_mean_results.xlsx) includes 106 average results obtained from stratifying the 65,795 results into 106 partitions based on prolactin concentration ranges. Within each partition, the average concentrations of prolactin and tests for glucose and lipid metabolism were computed.
DOI: 10.6084/m9.figshare.24657762
title: Supplementary Material for: Molecular Profile of Subungual Melanoma: a MelaNostrum Consortium Study of 68 Cases Reporting BRAF, NRAS, KIT, and TERT promoter status.

description: Background: Subungual melanoma (SM) is an unusual type of melanocytic tumor affecting the nail apparatus. The mutational prevalence of the most prominently mutated genes in melanoma has been reported in small cohorts of SM, with unclear conclusions on whether SM is different from the rest of melanomas arising in acral locations or not. Hence, the molecular profile of a large series of SM is yet to be described. Objectives: The aim of this study was to describe the molecular characteristics of a large series of SM and their association with demographic and histopathological features. Methods: Patients diagnosed with SM between 2001 and 2021 were identified from six Spanish and Italian healthcare centers. The mutational status for BRAF, NRAS, KIT, and the promoter region of TERT (TERTp) were determined either by Sanger sequencing or Next-Generation Sequencing. Clinical data were retrieved from the hospital databases to elucidate potential associations. Results: A total of 68 SM cases were included. Mutations were most common in BRAF (10.3%) and KIT (10%), followed by NRAS (7.6%), and TERTp (3.8%). Their prevalence was similar to that of non-subungual acral melanoma, but higher in SM located on the hand than on the foot. Conclusions: To date, this study represents the largest cohort of SM patients with data on the known driver gene mutations. The low mutation rate supports a different etiopathogenic mechanism for SM in comparison of non-acral cutaneous melanoma, particularly for SM of the foot.
DOI: 10.5063/f1862dwc
title: Data: Is behavioral flexibility manipulatable and, if so, does it improve flexibility and problem solving in a new context?
DOI: 10.5522/04/23540079
title: GEOS-Chem model output used to assess UK public and ecosystem health benefits of emission controls

description: NetCDF files of data generated and used as part of Marais et al. (2023) submitted for review to AGU's GeoHealth journal. The data used, but not generated in this work are not available elsewhere and so provided here with permission from the data developers at the UK Centre for Ecology and Hydrology (UKCEH). <br> A brief summary of the datasets used and generated in this work is included below. Additional details are provided as metadata in the individual NetCDF files. <br> <strong>Datasets used in this work:</strong> Datasets used and not generated in this work are high-spatial-resolution senstive habitat maps and total reactive nitrogen deposition data derived for the present day. UKCEH sensitive habitat maps at 1 km resolution. UKCEH CBED nitrogen deposition to forests and to open vegetation at 5 km resolution. <br> <strong>Datasets generated as part of this work:</strong> Datasets generated as part of this work include air quality concentrations, nitrogen deposition and excess deaths for the present-day (2019) and by 2030 following adoption of currently legislated or maximum technically feasible control measures. GEOS-Chem annual mean ambient surface concentrations of fine particulate matter (PM2.5). GEOS-Chem annual mean ambient surface concentrations of ammonia (NH3). GEOS-Chem annual total wet and dry reactive nitrogen deposition. UK administrative area adult premature mortality.