cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6798548.v3
title: Transcriptions of NIPS4B 2013 Bird Challenge Training Dataset

description: Created By-------------<br>Veronica Morfi (1), Dan Stowell (1) and Hanna Pamula (2).<br>(1): Machine Listening Lab, Centre for Digital Music (C4DM), Queen Mary University of London (QMUL), UK(2): AGH University of Science and Technology, Department of Mechanics and Vibroacoustics, Kraków, Poland<br>Description--------------<br>The zip file contains 674 individual recording temporal annotations for the training set of the NIPS4B 2013 dataset in the birdsong classifications task (original size of dataset is 687 recordings).<br>Task and dataset description can be found in: http://sabiod.univ-tln.fr/nips4b/challenge1.html Donwload zip file of dataset and weak annotations at: http://sabiod.univ-tln.fr/nips4b/media/birds/NIPS4B_BIRD_CHALLENGE_TRAIN_TEST_WAV.tar.gz<br><br>Annotation Files------------<br>Transcriptions were produced using Sonic Visualiser: https://www.sonicvisualiser.org/ by an experienced birdwatcher, Hanna Pamula.<br>Number of missing annotations: 13 (6 of these files contained sounds which could not be unambiguously labelled and the rest 7 of them only included insects)<br>The original (weak) labels provided during the NIPS4B 2013 challenge were used for guidance. However, some files were judged to have a slightly different set of species present than was given in the original metadata.<br>Extra Unknown label was added to the dataset for the vocalisations that couldn't be classified to a specific species. Also, extra Human label was added for a few recordings that had human sounds present in them.<br>Transcription format:[Starting time (sec)],[Duration of event (sec)],[Label]
DOI: 10.6084/m9.figshare.6798272
title: Environmental impact on the onset of hypertension-induced end-stage renal disease

description: This study intends to assess the impact of environmental factors on the onset of hypertension-induced end-stage renal disease (ESRD) and to compare the level of oxidative stress with nonhypertensive diabetic ESRD. ESRD patients were evaluated along with healthy controls through questionnaire for demographic, nutritional and lifestyle variables. Oxidants were measured along with antioxidants. Multiple linear regression (MLR) models were applied to analyze association of studied variables with oxidants and antioxidants. Most of the hypertensive nephrosclerotic patients were residing in locality that was either closer to industrial belt or polluting water bodies, belonging to low socioeconomic status that invariably affected their lifestyle and nutritional status. Hypertensive ESRD patients showed more pronounced oxidative stress than diabetic ESRD. Several of the studied variables were significantly associated with oxidants and antioxidants. Demographic, nutritional and lifestyle variables appeared to have suggestive effect on the onset of hypertensive nephrosclerosis.
DOI: 10.6084/m9.figshare.6798548.v4
title: Transcriptions of NIPS4B 2013 Bird Challenge Training Dataset

description: Created By-------------<br>Veronica Morfi (1), Dan Stowell (1) and Hanna Pamula (2).<br>(1): Machine Listening Lab, Centre for Digital Music (C4DM), Queen Mary University of London (QMUL), UK(2): AGH University of Science and Technology, Department of Mechanics and Vibroacoustics, Kraków, Poland<br>Description--------------<br>The zip file contains 674 individual recording temporal annotations for the training set of the NIPS4B 2013 dataset in the birdsong classifications task (original size of dataset is 687 recordings).<br>Task and dataset description can be found in: http://sabiod.univ-tln.fr/nips4b/challenge1.html Donwload zip file of dataset and weak annotations at: http://sabiod.univ-tln.fr/nips4b/media/birds/NIPS4B_BIRD_CHALLENGE_TRAIN_TEST_WAV.tar.gz<br><br>Annotation Files------------<br>Transcriptions were produced using Sonic Visualiser: https://www.sonicvisualiser.org/ by an experienced birdwatcher, Hanna Pamula.<br>Number of missing annotations: 13 (6 of these files contained sounds which could not be unambiguously labelled and the rest 7 of them only included insects)<br>The original (weak) labels provided during the NIPS4B 2013 challenge were used for guidance. However, some files were judged to have a slightly different set of species present than was given in the original metadata.<br>Extra Unknown label was added to the dataset for the vocalisations that couldn't be classified to a specific species. Also, extra Human label was added for a few recordings that had human sounds present in them.<br>Transcription format:[Starting time (sec)],[Duration of event (sec)],[Label]
DOI: 10.6084/m9.figshare.6798272.v1
title: Environmental impact on the onset of hypertension-induced end-stage renal disease

description: This study intends to assess the impact of environmental factors on the onset of hypertension-induced end-stage renal disease (ESRD) and to compare the level of oxidative stress with nonhypertensive diabetic ESRD. ESRD patients were evaluated along with healthy controls through questionnaire for demographic, nutritional and lifestyle variables. Oxidants were measured along with antioxidants. Multiple linear regression (MLR) models were applied to analyze association of studied variables with oxidants and antioxidants. Most of the hypertensive nephrosclerotic patients were residing in locality that was either closer to industrial belt or polluting water bodies, belonging to low socioeconomic status that invariably affected their lifestyle and nutritional status. Hypertensive ESRD patients showed more pronounced oxidative stress than diabetic ESRD. Several of the studied variables were significantly associated with oxidants and antioxidants. Demographic, nutritional and lifestyle variables appeared to have suggestive effect on the onset of hypertensive nephrosclerosis.
DOI: 10.6084/m9.figshare.6797951
title: Supplementary Material for: Repeat Thoracentesis in Hepatic Hydrothorax and Non-Hepatic Hydrothorax Effusions: A Case-Control Study

description: <b><i>Background:</i></b> Repeat thoracentesis for symptom control is offered to patients with refractory hepatic hydrothorax (HH) but the risk profile for this management strategy remains unclear. <b><i>Objectives:</i></b> This study aimed to compare complication frequency and nature during repeat thoracentesis in patients with and without HH. <b><i>Methods:</i></b> Complication rates in patients undergoing repeat thoracentesis for symptom relief was compared between patients with HH and a control group (non-HH group) at a single center from 2010 to 2015. Records were reviewed for demographics, laboratory values, number of thoracentesis, and associated complications with each procedure. <b><i>Results:</i></b> 82 patients with HH (274 thoracenteses) and 100 control patients (188 thoracenteses) were included. A complication was noted in 17/462 (0.03%) procedures in the entire cohort. There was a higher overall complication rate with repeat thoracentesis in the HH group (8 vs. 0%, <i>p</i> = 0.016, 95% CI = 1.5–14.6). In the HH group, the cumulative risk of complications increased with sequential thoracenteses; a complication occurring in the preceding intervention was the strongest predictor for subsequent complication (OR = 17.1, <i>p</i> = 0.0013) and more than 1 previous complication was associated with a 15-fold increased risk of a subsequent complication (<i>p</i> &lt; 0.001). In multivariate analysis within the HH group, the Model for End-Stage Liver Disease (MELD) score was an independent predictor of hemothorax (OR = 1.19, 95% CI = 1.03–1.36, <i>p</i> = 0.012). <b><i>Conclusions:</i></b> Repeat thoracentesis is an overall low-risk procedure, although a higher complication rate is observed in HH compared with non-HH patients. The presence of a previous complication significantly increases the risk of future complications in the HH population.
DOI: 10.6084/m9.figshare.6798548.v5
title: NIPS4Bplus: Transcriptions of NIPS4B 2013 Bird Challenge Training Dataset

description: Created By-------------<br>Veronica Morfi (1), Dan Stowell (1) and Hanna Pamula (2).<br>(1): Machine Listening Lab, Centre for Digital Music (C4DM), Queen Mary University of London (QMUL), UK(2): AGH University of Science and Technology, Department of Mechanics and Vibroacoustics, Kraków, Poland<br>Description--------------<br>The zip file contains 674 individual recording temporal annotations for the training set of the NIPS4B 2013 dataset in the birdsong classifications task (original size of dataset is 687 recordings).<br>Task and dataset description can be found in: http://sabiod.univ-tln.fr/nips4b/challenge1.html Donwload zip file of dataset and weak annotations at: http://sabiod.univ-tln.fr/nips4b/media/birds/NIPS4B_BIRD_CHALLENGE_TRAIN_TEST_WAV.tar.gz<br><br>Annotation Files------------<br>Transcriptions were produced using Sonic Visualiser: https://www.sonicvisualiser.org/ by an experienced birdwatcher, Hanna Pamula.<br>Number of missing annotations: 13 (6 of these files contained sounds which could not be unambiguously labelled and the rest 7 of them only included insects)<br>The original (weak) labels provided during the NIPS4B 2013 challenge were used for guidance. However, some files were judged to have a slightly different set of species present than was given in the original metadata.<br>Extra Unknown label was added to the dataset for the vocalisations that couldn't be classified to a specific species. Also, extra Human label was added for a few recordings that had human sounds present in them.<br>Transcription format:[Starting time (sec)],[Duration of event (sec)],[Label]
DOI: 10.6084/m9.figshare.6798548.v6
title: NIPS4Bplus: Transcriptions of NIPS4B 2013 Bird Challenge Training Dataset

description: Created By-------------<br>Veronica Morfi (1), Dan Stowell (1) and Hanna Pamula (2).<br>(1): Machine Listening Lab, Centre for Digital Music (C4DM), Queen Mary University of London (QMUL), UK(2): AGH University of Science and Technology, Department of Mechanics and Vibroacoustics, Kraków, Poland<br>Version 6 Updates--------------<br>Fixed: Annotation duration surpassing length of recording. Fixed: Empty spaces at the end of some labelsFixed: Label typos<br>Description--------------<br>The zip file contains 674 individual recording temporal annotations for the training set of the NIPS4B 2013 dataset in the birdsong classifications task (original size of dataset is 687 recordings).<br>Task and dataset description can be found in: http://sabiod.univ-tln.fr/nips4b/challenge1.html Donwload zip file of dataset and weak annotations at: http://sabiod.univ-tln.fr/nips4b/media/birds/NIPS4B_BIRD_CHALLENGE_TRAIN_TEST_WAV.tar.gz<br><br>Annotation Files------------<br>Transcriptions were produced using Sonic Visualiser: https://www.sonicvisualiser.org/ by an experienced birdwatcher, Hanna Pamula.<br>Number of missing annotations: 13 (6 of these files contained sounds which could not be unambiguously labelled and the rest 7 of them only included insects)<br>The original (weak) labels provided during the NIPS4B 2013 challenge were used for guidance. However, some files were judged to have a slightly different set of species present than was given in the original metadata.<br>Extra Unknown label was added to the dataset for the vocalisations that couldn't be classified to a specific species. Also, extra Human label was added for a few recordings that had human sounds present in them.<br>Transcription format:[Starting time (sec)],[Duration of event (sec)],[Label]
DOI: 10.6084/m9.figshare.6797408
title: Heterogeneous Exposure and Hotspots for Malaria Vectors at Three Study Sites in Uganda

description: Uganda_data.csv: The dataset contains mosquito count data from monthly entomological surveillance conducted at 330 households between 2011 and 2016 for three study sites in Uganda.<br>Uganda_housing_covariates.dta: The data file contains household-level housing covariates for the three study sites in Uganda, including roof type, wall type, floor type, open/closed eaves, types of airbricks, and house type. Site IDs and household IDs are also available.<br>TororoHH_info.xlsx: A full list of enumerated households in Tororo, Uganda.<br><br>KanunguHH_info.xlsx: A full list of enumerated households in Kanungu, Uganda.<br><br>JinjaHH_info.xlsx: A full list of enumerated households in Jinja, Uganda.<br>Uganda_environmental_covariates.csv: Environmental covariate data for three study sites in Uganda.<br><br><br>
DOI: 10.6084/m9.figshare.6797432
title: Plant soil feedbacks (PSF) as affected by soil microarthropods

description: Kuťáková, E.; Cesarz, S.; Münzberová, Z. & Eisenhauer, N. 2018. Soil microarthropods alter the outcome of plant-soil feedback experiments. Scientific Reports <i>in press</i>. DOI: 10.1038/s41598-018-30340-w<br>See the reference (Materials and Methods) for a detailed description of the PSF experiment and the individual measured variables.Plant data measured in the feedback phase refer to the mean values of plant individuals in each microcosm.Nematode counts refer to the numbers of individuals per gram soil dry weight (the actual numbers of determined nematodes being extrapolated to the total nematode counts in the respective sample).
DOI: 10.6084/m9.figshare.6797432.v1
title: Plant soil feedbacks (PSF) as affected by soil microarthropods

description: Kuťáková, E.; Cesarz, S.; Münzberová, Z. & Eisenhauer, N. 2018. Soil microarthropods alter the outcome of plant-soil feedback experiments. Scientific Reports <i>in press</i>. DOI: 10.1038/s41598-018-30340-w<br>See the reference (Materials and Methods) for a detailed description of the PSF experiment and the individual measured variables.Plant data measured in the feedback phase refer to the mean values of plant individuals in each microcosm.Nematode counts refer to the numbers of individuals per gram soil dry weight (the actual numbers of determined nematodes being extrapolated to the total nematode counts in the respective sample).
DOI: 10.6084/m9.figshare.6797408.v1
title: Uganda_environmental_covariates.csv

description: Environmental covariates data for three study sites in Uganda.
DOI: 10.6084/m9.figshare.6797237
title: Supplementary Material for: Golgi Phosphoprotein 3 Promotes Wls Recycling and Wnt Secretion in Glioma Progression

description: <b><i>Background/Aims:</i></b> Golgi phosphoprotein 3 (GOLPH3) plays pro-malignancy roles in several types of cancer. However, the molecular mechanism underlying GOLPH3 promoting tumor progression remains poorly understood. <b><i>Methods:</i></b> The expression of GOLPH3 and Wntless (Wls) in glioma tissues was examined by western blotting and immunohistochemistry. EdU incorporation assay and colony formation assay was used to examine the cell growth ability. The effect of GOLPH3 on Wls recycling, Wnt secretion and β-catenin activity was detected using western blotting, immunofluorescence, RT-PCR, ELISA or luciferase assay. <b><i>Results:</i></b> The protein levels of GOLPH3 and Wls were upregulated and positively correlated with each other in human glioma tissues. The promoting effect of GOLPH3 on glioma cell proliferation was partially mediated by Wls. In addition, GOLPH3 interacted with Wls and GOLPH3 down-regulation drove Wls into lysosome for degradation, inhibiting its recycling to golgi and the plasma membrane. Importantly, GOLPH3 down-regulation inhibited Wnt2b secretion and decreased β-catenin level and transcription activity. <b><i>Conclusions</i></b><i>:</i> This study provides a brand new evidence that GOLPH3 promotes glioma cell proliferation by facilitating Wls recycling and Wnt/β-catenin signaling. Our findings suggest a rationale for targeting the GOLPH3-Wls-Wnt axis as a promising therapeutic approach for glioblastoma.
DOI: 10.6084/m9.figshare.6797408.v2
title: Heterogeneous Exposure and Hotspots for Malaria Vectors at Three Study Sites in Uganda

description: Uganda_data.csv: The dataset contains mosquito count data from monthly entomological surveillance conducted at 330 households between 2011 and 2016 for three study sites in Uganda.<br>Uganda_housing_covariates.dta: The data file contains household-level housing covariates for the three study sites in Uganda, including roof type, wall type, floor type, open/closed eaves, types of airbricks, and house type. Site IDs and household IDs are also available.<br>TororoHH_info.xlsx: A full list of enumerated households in Tororo, Uganda.<br><br>KanunguHH_info.xlsx: A full list of enumerated households in Kanungu, Uganda.<br><br>JinjaHH_info.xlsx: A full list of enumerated households in Jinja, Uganda.<br>Uganda_environmental_covariates.csv: Environmental covariate data for three study sites in Uganda.<br><br><br>
DOI: 10.6084/m9.figshare.6797000
title: Supplementary Material for: Body Mass Index Categories and Attained Height in Portuguese Adults

description: <b><i>Objective: </i></b>To analyze the associations between height and BMI categories in a Portuguese representative sample. <b><i>Methods: </i></b>This is a cross-sectional study with a representative sample of 32,644 Portuguese adults (52.4% females). Sociodemographic and lifestyle characteristics were obtained along with self-reported height and weight. We performed generalized linear models to assess the differences in attained height across BMI categories; analyses were adjusted for age, gender, education, family income per month, proxy reporting information, dietary patterns, and smoking. <b><i>Results: </i></b>BMI categories included underweight and normal weight (46.4%), overweight (37.6%), obese class I and II (15.2%), and obese class III (0.8%). Adults with normal weight had a significantly higher height (females +7 cm and males +5 cm) when compared to obese class III. As BMI categories increased, height decreased. In females and males, after adjusting for confounders, estimates of attained height decreased when compared to the unadjusted model (β = -0.049, 95% CI = -0.050; -0.049 and β = -0.030, 95% CI = -0.031; -0.029, respectively), although they remained still significant. <b><i>Conclusion: </i></b>Our results suggest a significant difference in attained height between BMI categories. Future intervention programs aiming at preventing overweight and obesity should monitor sociodemographic, health and environmental conditions that affect attained height potential.
DOI: 10.6084/m9.figshare.6797000.v1
title: Supplementary Material for: Body Mass Index Categories and Attained Height in Portuguese Adults

description: <b><i>Objective: </i></b>To analyze the associations between height and BMI categories in a Portuguese representative sample. <b><i>Methods: </i></b>This is a cross-sectional study with a representative sample of 32,644 Portuguese adults (52.4% females). Sociodemographic and lifestyle characteristics were obtained along with self-reported height and weight. We performed generalized linear models to assess the differences in attained height across BMI categories; analyses were adjusted for age, gender, education, family income per month, proxy reporting information, dietary patterns, and smoking. <b><i>Results: </i></b>BMI categories included underweight and normal weight (46.4%), overweight (37.6%), obese class I and II (15.2%), and obese class III (0.8%). Adults with normal weight had a significantly higher height (females +7 cm and males +5 cm) when compared to obese class III. As BMI categories increased, height decreased. In females and males, after adjusting for confounders, estimates of attained height decreased when compared to the unadjusted model (β = -0.049, 95% CI = -0.050; -0.049 and β = -0.030, 95% CI = -0.031; -0.029, respectively), although they remained still significant. <b><i>Conclusion: </i></b>Our results suggest a significant difference in attained height between BMI categories. Future intervention programs aiming at preventing overweight and obesity should monitor sociodemographic, health and environmental conditions that affect attained height potential.
DOI: 10.6084/m9.figshare.6796970
title: Success and safety of high infliximab trough levels in inflammatory bowel disease

description: <b>Objective:</b> A prospective trial suggests target infliximab trough levels of 3–7 μg/mL, yet data on additional therapeutic benefits and safety of higher trough levels are scarce. <b>Aim:</b> To explore whether high infliximab trough levels (≥7 μg/mL) are more effective and still safe. <b>Material and methods:</b> In this cohort study of 183 patients (109 Crohn’s disease and 74 ulcerative colitis) on infliximab maintenance treatment at a tertiary referral center we correlated fecal calprotectin and C-reactive protein to trough levels (426 samples) at different time points during treatment. Rates of infections were compared in quadrimesters (four-month periods) with high trough levels to quadrimesters with trough levels &lt;7 μg/mL during 420 patient-years. <b>Results:</b> Fecal calprotectin and C-reactive protein (median [interquartile range]) were lower in patients with high trough levels (fecal calprotectin 66 mg/kg [30–257]; C-reactive protein 3 mg/L [3–3]) compared to trough levels below 7 μg/mL (fecal calprotectin 155 mg/kg [72–474]; C-reactive protein 3 mg/L [3–14.5]) (<i>p</i> p = .32). Maintaining high trough levels resulted in 32% (interquartile range: 2–54%) increase of infliximab consumption. <b>Conclusion:</b> High infliximab trough levels provide better control of inflammation in inflammatory bowel disease without increasing the risk of infection.
DOI: 10.6084/m9.figshare.6796970.v1
title: Success and safety of high infliximab trough levels in inflammatory bowel disease

description: <b>Objective:</b> A prospective trial suggests target infliximab trough levels of 3–7 μg/mL, yet data on additional therapeutic benefits and safety of higher trough levels are scarce. <b>Aim:</b> To explore whether high infliximab trough levels (≥7 μg/mL) are more effective and still safe. <b>Material and methods:</b> In this cohort study of 183 patients (109 Crohn’s disease and 74 ulcerative colitis) on infliximab maintenance treatment at a tertiary referral center we correlated fecal calprotectin and C-reactive protein to trough levels (426 samples) at different time points during treatment. Rates of infections were compared in quadrimesters (four-month periods) with high trough levels to quadrimesters with trough levels &lt;7 μg/mL during 420 patient-years. <b>Results:</b> Fecal calprotectin and C-reactive protein (median [interquartile range]) were lower in patients with high trough levels (fecal calprotectin 66 mg/kg [30–257]; C-reactive protein 3 mg/L [3–3]) compared to trough levels below 7 μg/mL (fecal calprotectin 155 mg/kg [72–474]; C-reactive protein 3 mg/L [3–14.5]) (<i>p</i> p = .32). Maintaining high trough levels resulted in 32% (interquartile range: 2–54%) increase of infliximab consumption. <b>Conclusion:</b> High infliximab trough levels provide better control of inflammation in inflammatory bowel disease without increasing the risk of infection.
DOI: 10.11583/dtu.6796928.v1
title: Supporting data - Effects of the cooperative interaction on the diffusion of hydrogen on MgO(100)

description: This dataset is the supporting data for the manuscript <i>"Effects of the cooperative interaction on the diffusion of hydrogen on MgO(100)"</i>, I.E. Castelli, Stefan G. Soriga, Isabela C. Man, J. Chem. Phys. 49, 034704 (2018). In the manuscript, we have investigated the role of pre-adsorbed fragments on H diffusion on MgO(100).<br><br>The data set contains all the relaxed structures and Nudged Elastic Bands (NEB) calculations in xyz and traj (Atomic Simulation Environment - ASE) format. Each structure can be visualized with the command:<br>ase gui filename.traj (or .xyz)<br>The NEB calculations with:<br>ase gui -n -1 *initial.traj *im?.traj *final.traj<br>and then select NEB from Tools. An example of the plot of a NEB calculation is the figure included here.<br><br>The scripts used to run and analyze the calculations are included in the archive. <br><br>A README file with more information about the data set and links have been provided.<br><br>The ASE code can be found here: https://wiki.fysik.dtu.dk/ase/<br><br>