cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1486354.v1
title: Data from "Warming reduces the cover and diversity of biocrust-forming mosses and lichens, and increases the physiological stress of soil microbial communities in a semi-arid Pinus halepensis plantation"

description: Data from "F. T. Maestre, Escolar, C., R. Bardgett, J. A. D. Dungait, B. Gozalo & V. Ochoa. Warming reduces the cover and diversity of biocrust-forming mosses and lichens, and increases the physiological stress of soil microbial communities in a semi-arid Pinus halepensis plantation. Frontiers in Microbiology 6:865. doi: 10.3389/fmicb.2015.00865" There are three spreadsheets with data. The spreadsheet "PLFA_data" contains the raw PLFA data at the different sampling times. The spreadsheet "Cover_data" contains the cover data for mosses, lichens and the sum of both at the different sampling times. The third spreadshet contains the associated metadata, where a description of all the variables and units can be found.
DOI: 10.6084/m9.figshare.1485698
title: Effect of aneurysm and ICA morphology on hemodynamics before and after flow diverter treatment

description: This dataset was added as supplementary material to the following paper: Larrabide I, Geers AJ, Morales HG, Aguilar ML, Rüfenacht DA. Effect of aneurysm and ICA morphology on hemodynamics before and after flow diverter treatment. Journal of Neurointerventional Surgery, 7(4):272–280, 2015. DOI: 10.1136/neurintsurg-2014-011171 The goal of the study was to investigate the relationship between vessel and aneurysm morphology and their influence on the way in which braided flow diverters change the intra-aneurysmal hemodynamics. Twenty-three patient-specific intracranial aneurysm models at the supraclinoid segment of the internal carotid artery were studied. The dataset contains values for geometric and hemodynamic variables, which are defined as follows (see also Figure 2 and Table 1 of the paper): * D_a [mm]: Aneurysm depth, measured from the neck centroid to the furthest point on the dome * A_a [mm^2]: Aneurysm dome area * V_a [mm^3]: Aneurysm volume * W_a [mm]: Aneurysm neck maximum width * A_n [mm^2]: Aneurysm neck area, defined as the surface of the aneurysm ostium * AR_a [-]: Aspect ratio, defined as D_a / W_a * d^peak [mm]: Describes the position of the aneurysm in the parent vessel, is the distance from o to the peak curvature C^peak before the aneurysm along the centerline * alpha^n [degrees]: Describes the orientation of the aneurysm, is the angle between the local osculating plane normal n_OP on the parent vessel at zero abscissa and the bifurcation reference system up normal u_B * alpha^t [degrees]: Describes the orientation of the aneurysm, is the angle between the tangent t_V at the parent vessel at zero abscissa and the aneurysm direction t_A * phi_FD [%]: Porosity of the flow diverter (FD) measured on the patch covering the neck as 100 × (area of voids) / (total area) * WSS_untreated [Pa]: Space- and time-averaged wall shear stress on the wall of the untreated aneurysm * totime_untreated [s]: Turnover time of blood in the untreated aneurysm. Turnover time was defined as the ratio between aneurysm volume and inflow at the aneurysm neck * WSS_treated [Pa]: Space- and time-averaged wall shear stress on the wall of the treated aneurysm * totime_treated [s]: Turnover time of blood in the treated aneurysm. Turnover time was defined as the ratio between aneurysm volume and inflow at the aneurysm neck
DOI: 10.6084/m9.figshare.1485700
title: Data from: Quantile benchmark dose estimation for continuous endpoints

description: Quantitative risk assessment (QRA) characterizes the risk of an adverse health outcome for an organism exposed to a chemical, environmental, physical, or other hazard. Historically, QRAs define risk based upon the increased probability of adverse response because of exposure when compared with the background probability of response in unexposed individuals. For a specified risk level, the exposure–response relationship is inverted to find an exposure (or dose) for minimizing risk; these exposures are often called the benchmark dose (BMD). For continuous endpoints, BMD analyses have employed strong assumptions on the form of the response distribution which may not be met for most toxicology data sets. We propose a reformulation of the BMD for use in QRA for continuous response that is based upon milder assumptions using quantile regression and monotone smoothing splines. This method takes into account the uncertainty in the response distribution as well as uncertainty in the exposure–response relationship. We apply this method to a data example and show through a simulation study that the approach is often superior to current practice.
DOI: 10.6084/m9.figshare.1485719.v7
title: A Pharmacokinetics-Neural Mass Model (PK-NMM) For the Simulation of EEG Activity during Propofol Anesthesia

description: This file includes the <strong>dataset</strong> and MATLAB programs underlying the findings in the artilcle "A Pharmacokinetics-Neural Mass Model for the Simulation of EEG activity during Propofol Anesthesia" submitted to PLoS ONE.
DOI: 10.6084/m9.figshare.1485695
title: Chemoreceptor evolution in Hymenoptera and its implications for the evolution of eusociality: Supplementary data

description: The supplementary data for "Chemoreceptor evolution in Hymenoptera and its implications for the evolution of eusociality", Zhou et al, 2015, GBE. This file includes all sequences, alignments, phylogenetic trees, and results of gene gain/loss and positive selection analyses.
DOI: 10.6084/m9.figshare.1485697
title: Long-term urban market dynamics reveal increased bushmeat carcass volume despite economic growth and proactive environmental legislation on Bioko Island, Equatorial Guinea

description: Bushmeat hunting is extensive in west and central Africa as both a means for subsistence and for commercial gain. Commercial hunting represents one of the primary threats to wildlife in the region, and confounding factors have made it challenging to examine how external factors influence the commercial bushmeat trade. Bioko Island, Equatorial Guinea is a small island with large tracts of intact forest that support sizeable populations of commercially valuable vertebrates, especially endemic primates. The island also has a low human population and has experienced dramatic economic growth and rapid development since the mid-1990’s. From October 1997 – September 2010, we monitored the largest bushmeat market on Bioko in Malabo, recording over 197,000 carcasses for sale. We used these data to analyze the dynamics of the market in relation to political events, environmental legislation, and rapid economic growth. Our findings suggest that bushmeat hunting and availability increased in parallel with the growth of Equatorial Guinea’s GDP and disposable income of its citizens. During this 13-year study, the predominant mode of capture shifted from trapping to shotguns. Consequently, carcass volume and rates of taxa typically captured with shotguns increased significantly, most notably including intensified hunting of Bioko's unique and endangered monkey fauna. Attempts to limit bushmeat sales, including a 2007 ban on primate hunting and trade, were only transiently effective. The hunting ban was not enforced, and was quickly followed by a marked increase in bushmeat hunting compared to hunting rates prior to the ban. Our results emphasize the negative impact that rapid development and unenforced legislation have had on Bioko’s wildlife, and demonstrate the need for strong governmental support if conservation strategies are to be successful at preventing extinctions of tropical wildlife.
DOI: 10.6084/m9.figshare.1485698.v1
title: Effect of aneurysm and ICA morphology on hemodynamics before and after flow diverter treatment

description: This dataset was added as supplementary material to the following paper: Larrabide I, Geers AJ, Morales HG, Aguilar ML, Rüfenacht DA. Effect of aneurysm and ICA morphology on hemodynamics before and after flow diverter treatment. Journal of Neurointerventional Surgery, 7(4):272–280, 2015. DOI: 10.1136/neurintsurg-2014-011171 The goal of the study was to investigate the relationship between vessel and aneurysm morphology and their influence on the way in which braided flow diverters change the intra-aneurysmal hemodynamics. Twenty-three patient-specific intracranial aneurysm models at the supraclinoid segment of the internal carotid artery were studied. The dataset contains values for geometric and hemodynamic variables, which are defined as follows (see also Figure 2 and Table 1 of the paper): * D_a [mm]: Aneurysm depth, measured from the neck centroid to the furthest point on the dome * A_a [mm^2]: Aneurysm dome area * V_a [mm^3]: Aneurysm volume * W_a [mm]: Aneurysm neck maximum width * A_n [mm^2]: Aneurysm neck area, defined as the surface of the aneurysm ostium * AR_a [-]: Aspect ratio, defined as D_a / W_a * d^peak [mm]: Describes the position of the aneurysm in the parent vessel, is the distance from o to the peak curvature C^peak before the aneurysm along the centerline * alpha^n [degrees]: Describes the orientation of the aneurysm, is the angle between the local osculating plane normal n_OP on the parent vessel at zero abscissa and the bifurcation reference system up normal u_B * alpha^t [degrees]: Describes the orientation of the aneurysm, is the angle between the tangent t_V at the parent vessel at zero abscissa and the aneurysm direction t_A * phi_FD [%]: Porosity of the flow diverter (FD) measured on the patch covering the neck as 100 × (area of voids) / (total area) * WSS_untreated [Pa]: Space- and time-averaged wall shear stress on the wall of the untreated aneurysm * totime_untreated [s]: Turnover time of blood in the untreated aneurysm. Turnover time was defined as the ratio between aneurysm volume and inflow at the aneurysm neck * WSS_treated [Pa]: Space- and time-averaged wall shear stress on the wall of the treated aneurysm * totime_treated [s]: Turnover time of blood in the treated aneurysm. Turnover time was defined as the ratio between aneurysm volume and inflow at the aneurysm neck
DOI: 10.6084/m9.figshare.1485695.v1
title: Chemoreceptor evolution in Hymenoptera and its implications for the evolution of eusociality: Supplementary data

description: The supplementary data for "Chemoreceptor evolution in Hymenoptera and its implications for the evolution of eusociality", Zhou et al, 2015, GBE. This file includes all sequences, alignments, phylogenetic trees, and results of gene gain/loss and positive selection analyses.
DOI: 10.6084/m9.figshare.1485700.v2
title: Data from: Quantile benchmark dose estimation for continuous endpoints

description: Quantitative risk assessment (QRA) characterizes the risk of an adverse health outcome for an organism exposed to a chemical, environmental, physical, or other hazard. Historically, QRAs define risk based upon the increased probability of adverse response because of exposure when compared with the background probability of response in unexposed individuals. For a specified risk level, the exposure–response relationship is inverted to find an exposure (or dose) for minimizing risk; these exposures are often called the benchmark dose (BMD). For continuous endpoints, BMD analyses have employed strong assumptions on the form of the response distribution which may not be met for most toxicology data sets. We propose a reformulation of the BMD for use in QRA for continuous response that is based upon milder assumptions using quantile regression and monotone smoothing splines. This method takes into account the uncertainty in the response distribution as well as uncertainty in the exposure–response relationship. We apply this method to a data example and show through a simulation study that the approach is often superior to current practice.
DOI: 10.6084/m9.figshare.1485700.v1
title: Quantile benchmark dose estimation for continuous endpoints

description: Quantitative risk assessment (QRA) characterizes the risk of an adverse health outcome for an organism exposed to a chemical, environmental, physical, or other hazard. Historically, QRAs define risk based upon the increased probability of adverse response because of exposure when compared with the background probability of response in unexposed individuals. For a specified risk level, the exposure–response relationship is inverted to find an exposure (or dose) for minimizing risk; these exposures are often called the benchmark dose (BMD). For continuous endpoints, BMD analyses have employed strong assumptions on the form of the response distribution which may not be met for most toxicology data sets. We propose a reformulation of the BMD for use in QRA for continuous response that is based upon milder assumptions using quantile regression and monotone smoothing splines. This method takes into account the uncertainty in the response distribution as well as uncertainty in the exposure–response relationship. We apply this method to a data example and show through a simulation study that the approach is often superior to current practice.
DOI: 10.6084/m9.figshare.1485322
title: Dynamic simulation of catastrophic late Pleistocene glacial-lake drainage, Altai Mountains, central Asia

description: Numerical simulations of the catastrophic draining of Pleistocene glacial-lake Kuray–Chuja quantify the discharge history of the draining event in detail. The plan-view basin flows are modelled as water emptied due to the instantaneous failure of the impounding ice-dam when the lake was at maximum capacity. The Chuja Basin water exited as a jet-flow into the Kuray Basin via a narrow conjoining valley. The peak discharge from the Chuja Basin is determined to be 1.20 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup>, and the peak discharge (3.19 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup> &gt; <i>Q</i> ≤ 2.0 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup>) that flowed from the Kuray Basin at the failed impoundment is also calculated for two limiting conditions. The variations in lake volume and depth indicate complete drainage within 50 h. In both basins, fields of relict gravel bedforms reflect sediment transport due to entrained lake-bed sediments. Thus, in addition to the general overview of drainage, the detailed temporal and spatial evolutions of drainage parameters are reported, including for the locations of the bedform fields. Local flow above the bedforms is considered in relation to thresholds for sediment motion, bedform development, and orientations. Within the simple bathymetry of the Chuja Basin, the flow field was fairly uniform with flow conducive to bedform evolution only occurring close to the exit from the basin, which accords with field evidence. In contrast, within the Kuray Basin, the flow responded sensitively to the complex bathymetry, which included rapid changes in flow direction due to interaction of the Kuray water with the jet-flow from Chuja, and as submerged ridges shoaled. Thus the Kuray flow field was complex but with time-dependent flow conditions in accordance with bedform development. It is concluded that the location of the bedforms can be explained in terms of the flow modelling and suggestions are made as to how future drainage models might be improved.
DOI: 10.6084/m9.figshare.1485322.v1
title: Dynamic simulation of catastrophic late Pleistocene glacial-lake drainage, Altai Mountains, central Asia

description: Numerical simulations of the catastrophic draining of Pleistocene glacial-lake Kuray–Chuja quantify the discharge history of the draining event in detail. The plan-view basin flows are modelled as water emptied due to the instantaneous failure of the impounding ice-dam when the lake was at maximum capacity. The Chuja Basin water exited as a jet-flow into the Kuray Basin via a narrow conjoining valley. The peak discharge from the Chuja Basin is determined to be 1.20 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup>, and the peak discharge (3.19 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup> &gt; <i>Q</i> ≤ 2.0 × 10<sup>7</sup> m<sup>3</sup> s<sup>−1</sup>) that flowed from the Kuray Basin at the failed impoundment is also calculated for two limiting conditions. The variations in lake volume and depth indicate complete drainage within 50 h. In both basins, fields of relict gravel bedforms reflect sediment transport due to entrained lake-bed sediments. Thus, in addition to the general overview of drainage, the detailed temporal and spatial evolutions of drainage parameters are reported, including for the locations of the bedform fields. Local flow above the bedforms is considered in relation to thresholds for sediment motion, bedform development, and orientations. Within the simple bathymetry of the Chuja Basin, the flow field was fairly uniform with flow conducive to bedform evolution only occurring close to the exit from the basin, which accords with field evidence. In contrast, within the Kuray Basin, the flow responded sensitively to the complex bathymetry, which included rapid changes in flow direction due to interaction of the Kuray water with the jet-flow from Chuja, and as submerged ridges shoaled. Thus the Kuray flow field was complex but with time-dependent flow conditions in accordance with bedform development. It is concluded that the location of the bedforms can be explained in terms of the flow modelling and suggestions are made as to how future drainage models might be improved.
DOI: 10.6084/m9.figshare.1483531
title: VBM_Eriksenflanker

description: This is the MRI and behavioral raw data to investigate the neuroanatomical correlates of the Eriksen Flanker Effect. The raw MRI data include high-resolution anatomical (T1) images of 42 Chinese adult participants. Article for these data could be cited: Chen C, Yang J, Lai J, Li H, Yuan J, Abbasi NuH (2015) Correlating Gray Matter Volume with Individual Difference in the Flanker Interference Effect. PLoS ONE 10(8): e0136877. doi:10.1371/journal.pone.0136877
DOI: 10.6084/m9.figshare.1483518
title: Near infrared spectroscopy facilitates rapid identification of both young and mature Amazonian tree species

description: This study was developed to assess the potencial of the Near Infrared (FT-NIR) Spectroscopy to discrimination Amazon tree species. The species used in the study belong to the Burseraceae, genus Protium and Crepidospermum. The botanical material used was from herbarium specimens collected in Ducke Reserve from January to March 2013, and herbarium specimens that were collected from trees tagged at permanent plots belonging the BDFFP project over the past 35 years. The herbarium specimens correspond to different ontogenetic stages: seedlings, juveniles and adults. The spectral readings are expressed by the values of absorbance between the wavenumbers 4000-10000 (cm-1) in the near infrared.
DOI: 10.6084/m9.figshare.1483507
title: <i>Canrightiopsis</i>, a new Early Cretaceous fossil with <i>Clavatipollenites</i>-type pollen bridge the gap between extinct <i>Canrightia</i> and extant Chloranthaceae

description: <i>Canrightiopsis</i> with three species (<i>C. intermedia, C. crassitesta, C. dinisii</i>) is described from the Early Cretaceous of Portugal based on small, one-seeded berries. The fruits are derived from bisexual flowers with three stamens borne on one side of the ovary. There are no traces of a perianth. Pollen is of the <i>Clavatipollenites</i>-type, monocolpate, semitectate, reticulate-columellate with heterobrochate reticulum and muri with beaded supratectal ornamentation. The ovary is unilocular with a single pendant, orthotropous and bitegmic ovule. The seed is endotestal. The endotesta consists of one layer of palisade-shaped crystal cells with fibrous infillings. The fruit wall has resin bodies or cavities from presumed ethereal oil cells sometimes seen as stomata-like structures on the fruit surface. A phylogenetic analysis resolves <i>Canrightiopsis</i> as a close relative of extant Chloranthaceae, particularly close to extant <i>Chloranthus</i> and <i>Sarcandra</i>. All three taxa share the one-sided position of the stamens on the ovary. An evolutionary sequence from fossil <i>Canrightia</i> to fossil <i>Canrightiopsis</i> and extant <i>Chloranthus</i> and <i>Sarcandra</i> is suggested by loss of perianth, reduction in number of ovules and stamens and displacement of stamens to one side of the ovary. <i>Canrightiopsis</i> also shares several critical features with extant <i>Ascarina</i> including monoaperturate pollen and beaded supratectal ornamentation of the pollen wall.
DOI: 10.6084/m9.figshare.1483531.v1
title: VBM_Eriksenflanker

description: This is the MRI and behavioral raw data to investigate the neuroanatomical correlates of the Eriksen Flanker Effect. The raw MRI data include high-resolution anatomical (T1) images of 42 Chinese adult participants. Article for these data could be cited: Chen C, Yang J, Lai J, Li H, Yuan J, Abbasi NuH (2015) Correlating Gray Matter Volume with Individual Difference in the Flanker Interference Effect. PLoS ONE 10(8): e0136877. doi:10.1371/journal.pone.0136877
DOI: 10.6084/m9.figshare.1483507.v1
title: <i>Canrightiopsis</i>, a new Early Cretaceous fossil with <i>Clavatipollenites</i>-type pollen bridge the gap between extinct <i>Canrightia</i> and extant Chloranthaceae

description: <i>Canrightiopsis</i> with three species (<i>C. intermedia, C. crassitesta, C. dinisii</i>) is described from the Early Cretaceous of Portugal based on small, one-seeded berries. The fruits are derived from bisexual flowers with three stamens borne on one side of the ovary. There are no traces of a perianth. Pollen is of the <i>Clavatipollenites</i>-type, monocolpate, semitectate, reticulate-columellate with heterobrochate reticulum and muri with beaded supratectal ornamentation. The ovary is unilocular with a single pendant, orthotropous and bitegmic ovule. The seed is endotestal. The endotesta consists of one layer of palisade-shaped crystal cells with fibrous infillings. The fruit wall has resin bodies or cavities from presumed ethereal oil cells sometimes seen as stomata-like structures on the fruit surface. A phylogenetic analysis resolves <i>Canrightiopsis</i> as a close relative of extant Chloranthaceae, particularly close to extant <i>Chloranthus</i> and <i>Sarcandra</i>. All three taxa share the one-sided position of the stamens on the ovary. An evolutionary sequence from fossil <i>Canrightia</i> to fossil <i>Canrightiopsis</i> and extant <i>Chloranthus</i> and <i>Sarcandra</i> is suggested by loss of perianth, reduction in number of ovules and stamens and displacement of stamens to one side of the ovary. <i>Canrightiopsis</i> also shares several critical features with extant <i>Ascarina</i> including monoaperturate pollen and beaded supratectal ornamentation of the pollen wall.
DOI: 10.6084/m9.figshare.1483490
title: Molecular chaperons and co-chaperons, Hsp90, RAR1, and SGT1 negatively regulate bacterial wilt disease caused by <i>Ralstonia solanacearum</i> in <i>Nicotiana benthamiana</i>

description: <i>Ralstonia solanacearum</i> is the causal agent of bacterial wilt disease. To better understand the molecular mechanisms involved in interaction between <i>Nicotiana benthamiana</i> and <i>R. solanacearum</i>, we focused on Hsp90, RAR1 and SGT1. Appearances of wilt symptom were significantly suppressed in <i>Hsp90</i>, <i>RAR1</i> and <i>SGT1</i>-silenced plants compared with control plants. In <i>RAR1</i>-silenced plants, population of <i>R. solanacearum</i> increased in a similar manner to control plants. In contrast, multiplication of <i>R. solanacearum</i> was significantly suppressed in <i>Hsp90</i> and <i>SGT1</i>-silenced plants. In addition, expression of PR genes were increased in <i>Hsp90</i> and <i>SGT1</i>-silenced plants challenged with <i>R. solanacearum.</i> Therefore, RAR1 might be required for disease development or suppression of disease tolerance. These results also suggested that Hsp90 and/or SGT1 might play an important role in suppression of plant defenses leading to disease susceptibility and disease development.