cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5580004
title: Supplementary Material for: Highly Selective Endothelin-1 Receptor A Inhibition Prevents Bleomycin-Induced Pulmonary Inflammation and Fibrosis in Mice

description: <b><i>Background:</i></b> Pulmonary fibrosis is a chronic disease, which progressively leads to respiratory failure and ultimately death. Endothelin-1 (ET-1), a vasoconstrictor secreted by endothelial cells, promotes vasoconstriction by activation of its receptors A and B. <b><i>Objectives:</i></b> We addressed the role of highly selective ET-1 receptor A (ETA) inhibition in the pathogenesis of experimental pulmonary fibrosis by bleomycin (BLM). <b><i>Methods:</i></b> BLM sulfate (2 U/mL) or saline was intratracheally administered to C57/Bl6 mice (4 groups; <i>n</i> = 5-11/group). Pretreatment with the highly selective ETA receptor inhibitor sitaxentan (15 mg/kg/day) was started 1 day prior to BLM injection and continued for the duration of the experiment. Lung mechanics were assessed prior to sacrifice at days 7, 14, and 21 after BLM, followed by procurement of bronchoalveolar lavage fluid (BALF), blood, and lung tissue samples. <b><i>Results:</i></b> Time-dependent effects of BLM exposure included decreased static compliance and increased lung elastance, airspace inflammation and microvascular permeability, histological acute lung injury and fibrosis, and lung collagen deposition. Pretreatment with highly selective ETA receptor inhibitor had no adverse effect on control mice but improved lung mechanics and lung injury score in addition to decreasing BALF pleocytosis, protein content, and collagen deposition in BLM-treated mice. Mortality from BLM reached 40% and occurred primarily during the inflammatory stage of the model but was abrogated by sitaxentan pretreatment. <b><i>Conclusions:</i></b> We conclude that in our BLM-induced pulmonary fibrosis model, prophylactic highly selective ETA inhibition improves survival, preserves lung function, attenuates lung injury, and reduces collagen deposition.
DOI: 10.6084/m9.figshare.5579938
title: Excel Files with Tables.pdf

description: Data files used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579941
title: Fraction of persister, viable but non-culturable, susceptible lysed, and susceptible non lysed cells

description: Ampicillin concentration dependence of the fraction of VBNC, persister, susceptible non lysed cells, and lysed cells. Persister fractions were measured via both our newly developed single-cell approach and the standard persister assay based on colony forming units (CFU) measurements. However, the CFU method does not allow measuring the fraction of VBNC, susceptible non lysed cells, and lysed cells.<br>
DOI: 10.6084/m9.figshare.5579971.v1
title: Simulated global warming in the larval stage negatively affects dispersal-related traits

description: Data used for analysis in the paper "Simulated global warming in the larval stage negatively affects dispersal-related traits", submitted to Biology Letters.<br><b></b>
DOI: 10.6084/m9.figshare.5579938.v1
title: Excel Files with Tables.pdf

description: Data files used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579863
title: TN_Quest.pdf

description: Questionnaires used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579938.v2
title: Excel Files with Tables.pdf

description: Data files used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579863.v2
title: TN_Quest.pdf

description: Questionnaires used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579770
title: Table 1. List of Angiosperms from APA Pedra do Elefante, Espírito Santo State, Brazil..pdf

description: Table 1. List of Angiosperms from APA Pedra do Elefante, Espírito Santo State, Brazil. ●=new records to Espírito Santo State; ♦=endemic species to Espírito Santo State; St=Substrate; LF=Life form; CS=Conservation status; HN=herbarium number; Ch=chamaephytes; Ep=epiphytes; Geo=geophytes; Hcr= hemicryptophytes; Hem=hemiepiphyte; Ph=phanerophytes; TR=terrestrial; RU=rupicolous.
DOI: 10.6084/m9.figshare.5579770.v1
title: Table 1. List of Angiosperms from APA Pedra do Elefante, Espírito Santo State, Brazil..pdf

description: Table 1. List of Angiosperms from APA Pedra do Elefante, Espírito Santo State, Brazil. ●=new records to Espírito Santo State; ♦=endemic species to Espírito Santo State; St=Substrate; LF=Life form; CS=Conservation status; HN=herbarium number; Ch=chamaephytes; Ep=epiphytes; Geo=geophytes; Hcr= hemicryptophytes; Hem=hemiepiphyte; Ph=phanerophytes; TR=terrestrial; RU=rupicolous.
DOI: 10.6084/m9.figshare.5579863.v4
title: TN_Quest.pdf

description: Questionnaires used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579767
title: Dataset for: Gestation changes sodium pump isoform expression, leading to changes in ouabain sensitivity, contractility and intracellular calcium in rat uterus

description: Developmental and tissue-specific differences in isoforms allow Na+, K+-ATPase function to be tightly regulated, as they control sensitivity to ions and inhibitors. Uterine contraction relies on the activity of the Na+, K+ATPase, which creates ionic gradients that drive excitation-contraction coupling. It is unknown whether Na+, K+ATPase isoforms are regulated throughout pregnancy or whether they have a direct role in modulating uterine contractility. We hypothesized that gestation-dependent differential expression of isoforms would affect contractile responses to Na+, K+ATPase  subunit inhibition with ouabain. Our aims were therefore: (1) to determine the gestation-dependent expression of mRNA transcripts, protein abundance and tissue distribution of Na+, K+ATPase isoforms in myometrium, (2) to investigate the functional effects of differential isoform expression via ouabain sensitivity and, (3) if changes in contractile responses can be explained by changes in intracellular [Ca2+]. Changes in abundance and distribution of the Na+, K+ATPase α, β and FXYD1 and 2 isoforms, were studied in rat uterus from non-pregnant, and early, mid-, and term gestation. All α, β subunit isoforms (1,2,3) and FXYD1 were detected but FXYD2 was absent. The α1 and β1 isoforms were unchanged throughout pregnancy, whereas α2 and α3 significant decreased at term while β2 and FXYD1 significantly increased from mid-term onwards. These changes in expression correlated with increased functional sensitivity to ouabain, and parallel changes in intracellular Ca2+, measured with Indo-1. In conclusion, gestation induces specific regulatory changes in expression of Na+, K+ATPase isoforms in the uterus which influence contractility and may be related to the physiological requirements for successful pregnancy and delivery.
DOI: 10.6084/m9.figshare.5579863.v3
title: TN_Quest.pdf

description: Questionnaires used in the study "PONE-D-17-29693R1 - Characteristics of Somatic Tinnitus Patients with and without Hyperacusis. Ralli M et al"
DOI: 10.6084/m9.figshare.5579767.v1
title: Dataset for: Gestation changes sodium pump isoform expression, leading to changes in ouabain sensitivity, contractility and intracellular calcium in rat uterus

description: Developmental and tissue-specific differences in isoforms allow Na+, K+-ATPase function to be tightly regulated, as they control sensitivity to ions and inhibitors. Uterine contraction relies on the activity of the Na+, K+ATPase, which creates ionic gradients that drive excitation-contraction coupling. It is unknown whether Na+, K+ATPase isoforms are regulated throughout pregnancy or whether they have a direct role in modulating uterine contractility. We hypothesized that gestation-dependent differential expression of isoforms would affect contractile responses to Na+, K+ATPase  subunit inhibition with ouabain. Our aims were therefore: (1) to determine the gestation-dependent expression of mRNA transcripts, protein abundance and tissue distribution of Na+, K+ATPase isoforms in myometrium, (2) to investigate the functional effects of differential isoform expression via ouabain sensitivity and, (3) if changes in contractile responses can be explained by changes in intracellular [Ca2+]. Changes in abundance and distribution of the Na+, K+ATPase α, β and FXYD1 and 2 isoforms, were studied in rat uterus from non-pregnant, and early, mid-, and term gestation. All α, β subunit isoforms (1,2,3) and FXYD1 were detected but FXYD2 was absent. The α1 and β1 isoforms were unchanged throughout pregnancy, whereas α2 and α3 significant decreased at term while β2 and FXYD1 significantly increased from mid-term onwards. These changes in expression correlated with increased functional sensitivity to ouabain, and parallel changes in intracellular Ca2+, measured with Indo-1. In conclusion, gestation induces specific regulatory changes in expression of Na+, K+ATPase isoforms in the uterus which influence contractility and may be related to the physiological requirements for successful pregnancy and delivery.
DOI: 10.6084/m9.figshare.5579725
title: Pharmacophore modelling, virtual screening and molecular docking studies on PLD1 inhibitors

description: Lipid metabolism plays a significant role in influenza virus replication and subsequent infection. The regulatory mechanism governing lipid metabolism and viral replication is not properly understood to date, but both Phospholipase D (PLD1 and PLD2) activities are stimulated in viral infection. <i>In vitro</i> studies indicate that chemical inhibition of PLD1 delays viral entry and reduction of viral loads. The current study reports a three-dimensional pharmacophore model based on 35 known PLD1 inhibitors. A sub-set of 25 compounds was selected as the training set and the remaining 10 compounds were kept in the test set. One hundred and twelve pharmacophore models were generated; a six-featured pharmacophore model (AADDHR.57) with survival score (2.69) produced a statistically significant three-dimensional quantitative structure–activity relationship model with <i>r</i><sup>2</sup> = 0.97 (internal training set), <i>r</i><sup>2</sup> = 0.71 (internal test set) and <i>Q</i><sup>2</sup> = 0.64. The predictive power of the pharmacophore model was validated with an external test set (<i>r</i><sup>2</sup> = 0.73) and a systematic virtual screening work-flow was employed showing an enrichment factor of 23.68 at the top 2% of the dataset (active and decoys). Finally, the model was used for screening of the filtered PubChem database to fetch molecules which can be proposed as potential PLD1 inhibitors for blocking influenza infection.
DOI: 10.6084/m9.figshare.5579764.v1
title: Masterthesis_Supplementary S3

description: Supplementary material S3 for the Masterthesis : "Development of a K-mer based Method for High-Throughput Serotyping of S. pneumoniae".<br>
DOI: 10.6084/m9.figshare.5579725.v1
title: Pharmacophore modelling, virtual screening and molecular docking studies on PLD1 inhibitors

description: Lipid metabolism plays a significant role in influenza virus replication and subsequent infection. The regulatory mechanism governing lipid metabolism and viral replication is not properly understood to date, but both Phospholipase D (PLD1 and PLD2) activities are stimulated in viral infection. <i>In vitro</i> studies indicate that chemical inhibition of PLD1 delays viral entry and reduction of viral loads. The current study reports a three-dimensional pharmacophore model based on 35 known PLD1 inhibitors. A sub-set of 25 compounds was selected as the training set and the remaining 10 compounds were kept in the test set. One hundred and twelve pharmacophore models were generated; a six-featured pharmacophore model (AADDHR.57) with survival score (2.69) produced a statistically significant three-dimensional quantitative structure–activity relationship model with <i>r</i><sup>2</sup> = 0.97 (internal training set), <i>r</i><sup>2</sup> = 0.71 (internal test set) and <i>Q</i><sup>2</sup> = 0.64. The predictive power of the pharmacophore model was validated with an external test set (<i>r</i><sup>2</sup> = 0.73) and a systematic virtual screening work-flow was employed showing an enrichment factor of 23.68 at the top 2% of the dataset (active and decoys). Finally, the model was used for screening of the filtered PubChem database to fetch molecules which can be proposed as potential PLD1 inhibitors for blocking influenza infection.
DOI: 10.6084/m9.figshare.5579692
title: Data for "Movement velocity in the chair squat is associated with measures of functional capacity in elderly people: Measurement with a smartphone app"

description: Data for "Movement velocity in the chair squat is associated with measures of functional capacity in elderly people: Measurement with a smartphone app"
DOI: 10.6084/m9.figshare.5579680
title: Data acquisition Matlab scripts

description: Matlab scripts related to acquisition and import of EEG data in the dataset.
DOI: 10.6084/m9.figshare.5579683
title: Assessing the effect of sound file compression and background noise on measures of acoustic signal structure

description: The study of animal acoustic signals is a central tool for many fields in ecology and evolution, but the diversity of analytical methods and sources of animal sound recordings poses important challenges for carrying out robust acoustic analyses. Sound file compression and background noise may both affect acoustic analysis, although little attention has been paid to their respective effects. We evaluated the effect of these factors by assessing the systematic deviation (i.e. bias) and measurement error (i.e. precision) that they generate on spectrographic parameters and two (dis)similarity methods (dynamic time warping on frequency contours and cross-correlation), which represent the most common methods currently used for quantitative characterization of acoustic signals. Measurements were taken across a wide range of signals from a diverse group of bird species, and compared between uncompressed files and decompressed files obtained from mp3-encoded files generated using the two most common mp3 encoders (Fraunhofer and LAME). Measurements were also compared across a range of synthetically-generated background noise levels. Compression did not significantly bias any of the acoustic or similarity measurements. However, the precision of acoustic parameters representing single extreme values (e.g. peak frequency) as well as dynamic time warping distances, was strongly affected by compression. High background noise biased most energy distribution-related parameters (e.g. spectral entropy) and affected the precision of most acoustic parameters and dynamic time warping. Overall, compression and background noise did have considerable effects on acoustic analyses. We provide recommendations to avoid potential pitfalls and maximize the information that can be reliably obtained.
DOI: 10.6084/m9.figshare.5579692.v1
title: Data for "Movement velocity in the chair squat is associated with measures of functional capacity in elderly people: Measurement with a smartphone app"

description: Data for "Movement velocity in the chair squat is associated with measures of functional capacity in elderly people: Measurement with a smartphone app"
DOI: 10.6084/m9.figshare.5579659
title: An anthropometric survey of US pre-term and full-term neonates

description: <b>Background:</b> Anthropometric data prove valuable for screening and monitoring various medical conditions. In young infants, however, only weight, length and head circumference are represented in publicly accessible databases. <b>Aim:</b> To characterise length and circumferential measures in pre-term and full-term infants up to 90 days post-natal. <b>Subjects and methods:</b> In eight US medical centres, trained raters recorded humeral, ulnar, femoral, tibial and fibular lengths along with mid-upper arm, mid-thigh, chest, abdominal and neck circumference. Data were pooled by post-menstrual age into 1-week intervals and population curves created using the lambda, mu and sigma (LMS) method. Goodness-of-fit was assessed by examining de-trended quantile-quantile plots, Q statistics and fitted centiles overlaid on empirical centiles. <b>Results:</b> In total, 2097 infants were enrolled in this study with a mean ± SD gestational age and post-natal age of 37.1 ± 3.3 weeks and 27.3 ± 25.3 days, respectively. A re-scale option was used to describe all curves. The resultant models reliably characterised anthropometric measures from 33–52 weeks PMA, with less certainty at the extremes (27–55 weeks). <b>Conclusion:</b> The population curves generated under this investigation expand existing reference data on a comprehensive set of anthropometric traits in infants through the first 90 days post-natal.
DOI: 10.6084/m9.figshare.5579659.v1
title: An anthropometric survey of US pre-term and full-term neonates

description: <b>Background:</b> Anthropometric data prove valuable for screening and monitoring various medical conditions. In young infants, however, only weight, length and head circumference are represented in publicly accessible databases. <b>Aim:</b> To characterise length and circumferential measures in pre-term and full-term infants up to 90 days post-natal. <b>Subjects and methods:</b> In eight US medical centres, trained raters recorded humeral, ulnar, femoral, tibial and fibular lengths along with mid-upper arm, mid-thigh, chest, abdominal and neck circumference. Data were pooled by post-menstrual age into 1-week intervals and population curves created using the lambda, mu and sigma (LMS) method. Goodness-of-fit was assessed by examining de-trended quantile-quantile plots, Q statistics and fitted centiles overlaid on empirical centiles. <b>Results:</b> In total, 2097 infants were enrolled in this study with a mean ± SD gestational age and post-natal age of 37.1 ± 3.3 weeks and 27.3 ± 25.3 days, respectively. A re-scale option was used to describe all curves. The resultant models reliably characterised anthropometric measures from 33–52 weeks PMA, with less certainty at the extremes (27–55 weeks). <b>Conclusion:</b> The population curves generated under this investigation expand existing reference data on a comprehensive set of anthropometric traits in infants through the first 90 days post-natal.
DOI: 10.6084/m9.figshare.5579662.v1
title: Verilog A MEMRISTOR HP (Linear Ion Drift model)

description: Verilog A code for memristor based in the HP model with flux and charge extra outputs.<br><br>model parameters:<br>Roff: off resistance (HRS)<br>Ron: on resistance (LRS)<br>D: thickness of the oxide layer<br>uv : ions movitily<br>x0: initial state<br>
DOI: 10.6084/m9.figshare.5579620
title: Supporting information for: REMAP: An online remote sensing application for land cover classification and monitoring

description: Supporting information for: REMAP: An online remote sensing application for land cover classification and monitoring<br>csv and json files for implementing land cover classifications using the remap, the remote ecosystem assessment and monitoring pipeline (https://remap-app.org/)<br>Nearmap aerial photograph courtesy of Nearmap Pty Ltd.<br>For further information see:<br>Murray, N.J., Keith, D.A., Simpson, D., Wilshire, J.H., Lucas, R.M. (accepted) REMAP: A cloud-based remote sensing application for generalized ecosystem classifications. Methods in Ecology and Evolution.<br><br>
DOI: 10.6084/m9.figshare.5579662.v4
title: Verilog A MEMRISTOR HP (Linear Ion Drift model)

description: Verilog A code for memristor based in the HP model with flux and charge extra outputs.<br><br>model parameters:<br>R<sub>off</sub>: off resistance (HRS)<br>R<sub>on</sub>: on resistance (LRS)<br>D: thickness of the oxide layer<br>uv : ions movitily<br>x<sub>0</sub>: initial state<br>
DOI: 10.6084/m9.figshare.5579479
title: Visual attention in cannabis users Mikulskaya & Martin 2017

description: The neural correlates of a three stimulus oddball task in cannabis users. Dataset includes ERPs, accuracy, and demographics data.<br>
DOI: 10.6084/m9.figshare.5579479.v1
title: Visual attention in cannabis users Mikulskaya & Martin 2017

description: The neural correlates of a three stimulus oddball task in cannabis users. Dataset includes ERPs, accuracy, and demographics data.<br>
DOI: 10.6084/m9.figshare.5579461
title: Evaluating the versatility of EEG models generated from motor imagery tasks: an exploratory investigation on upper-limb elbow-centered motor imagery tasks

description: Electroencephalography (EEG) has recently been considered for use in rehabilitation of people with motor deficits. EEG data from the motor imagery of different body movements have been used, for instance, as an EEG-based control method to send commands to rehabilitation devices that assist people to perform a variety of different motor tasks. However, it is both time and effort consuming to go through data collection and model training for every rehabilitation task. In this paper, we investigate the possibility of using an EEG model from one type of motor imagery (e.g.: elbow extension and flexion) to classify EEG from other types of motor imagery activities (e.g.: open a drawer). In order to study the problem, we focused on the elbow joint. Specifically, nine kinesthetic motor imagery tasks involving the elbow were investigated in twelve healthy individuals who participated in the study. While results reported that models from goal-oriented motor imagery tasks had higher accuracy than models from the simple joint tasks in intra-task testing (e.g., model from elbow extension and flexion task was tested on EEG data collected from elbow extension and flexion task), models from simple joint tasks had higher accuracies than the others in inter-task testing (e.g., model from elbow extension and flexion task task tested on EEG data collected from drawer opening task). Simple single joint motor imagery tasks could, therefore, be considered for training models to potentially reduce the number of repetitive data acquisitions and model training in rehabilitation applications.
DOI: 10.6084/m9.figshare.5579458
title: OSMI Mental Health in Tech Survey

description: These data sets are survey results collected by OSMI and are made available by the CC-BY-SA 4.0 license. One survey was performed in 2014 and the other in 2016. Both of the surveys seek to understand how people that work in technology view mental health issues and to understand what support they receive from their employer.OSMI has made the data sets for both the 2014 survey and the 2016 survey available on Kaggle.<br><br>
DOI: 10.6084/m9.figshare.5579407
title: Consistent effects of biodiversity loss on multifunctionality across contrasting ecosystems

description: R code + data for "Consistent effects of biodiversity loss on multifunctionality across contrasting ecosystems"
DOI: 10.6084/m9.figshare.5579416
title: Harmful drinking, parenting style, and distress: Bhutan

description: Data from 245 young adults, self-report measures covering: parenting style, distress, and alcohol-related problems. Dysfunctional parenting styles were associated with increased distress and problematic alcohol use. Mediation model suggested that distress mediates the relationship between dysfunctional parenting styles and problematic alcohol use.
DOI: 10.6084/m9.figshare.5579407.v1
title: Consistent effects of biodiversity loss on multifunctionality across contrasting ecosystems

description: R code + data for "Consistent effects of biodiversity loss on multifunctionality across contrasting ecosystems"