cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5471827.v1
title: Dataset for: Exponential decay for binary time-varying covariates in Cox models

description: Cox models are commonly used in the analysis of time to event data. One advantage of Cox models is the ability to include time-varying covariates, often a binary covariate that codes for the occurrence of an event that affects an individual subject. A common assumption in this case is that the effect of the event on the outcome of interest is constant and permanent for each subject. In this paper we propose a modification to the Cox model to allow the influence of an event to exponentially decay over time. Methods for generating data using the inverse cumulative density function for the proposed model are developed. Likelihood ratio tests and AIC are investigated as methods for comparing the proposed model to the commonly used permanent exposure model. A more general model proposed by Cox and Oakes [1] is also discussed. A simulation study is performed and three different data sets are presented as examples.
DOI: 10.6084/m9.figshare.5471806
title: dataset_050p_010m.pl

description: This dataset is a simulation of a probabilistic logical model (sampling on a probabilistic logic program using ProbLog). It simulates a small village where people are concerned with their houses being subject to either burglaries or fires. The probabilistic logic program used to generate it was the following:<br>0.3 :: ﬁre(X) :− person(X).0.4 :: burglary(X) :− person(X).0.7 :: alarm(X) :− ﬁre(X).0.9 :: alarm(X) :− burglary(X).0.8 :: cares(X, Y) :− person(X), person(Y).0.8 :: calls(X, Y) :− cares(X, Y), alarm(Y), not samePerson(X, Y).
DOI: 10.6084/m9.figshare.5471806.v1
title: dataset_050p_010m.pl

description: This dataset is a simulation of a probabilistic logical model (sampling on a probabilistic logic program using ProbLog). It simulates a small village where people are concerned with their houses being subject to either burglaries or fires. The probabilistic logic program used to generate it was the following:<br>0.3 :: ﬁre(X) :− person(X).0.4 :: burglary(X) :− person(X).0.7 :: alarm(X) :− ﬁre(X).0.9 :: alarm(X) :− burglary(X).0.8 :: cares(X, Y) :− person(X), person(Y).0.8 :: calls(X, Y) :− cares(X, Y), alarm(Y), not samePerson(X, Y).
DOI: 10.6084/m9.figshare.5471752
title: FFD Accumulation Analysis

description: Python and intermediate datasets for analyzing the relationship of mean annual temperature and rates of successive FFD accumulation among flora occupying a continental temperature gradient<br>
DOI: 10.6084/m9.figshare.5471710
title: Effect of shade and level of fertilizer application on nutrient uptake and dry matter partitioning in cocoyam (<i>Xanthosoma sagittifolium</i> L.)

description: The effect of shade and fertilizer application on nutrient uptake and dry matter (DM) partitioning in cocoyam was evaluated by growing the plant under different levels of shade and fertilizer application at Forest and Horticultural Crops Research Centre, Kade, within a period of 9 months. The shade levels used were 80%, 70%, and 50% shade, and full sunlight exposure. The fertilizer rates used were 112 kg/ha nitrogen, phosphorus and potassium (NPK) (15-15-15 120 kg/ha NPK (15-15-15) in a form) of mineral fertilizer, 112 kg/ha NPK organic fertilizer and no fertilizer (control). The split-plot design was used with shade levels as the main plot factor and fertilizer levels as the sub plot factor. The interaction effect of shade and fertilizer had a significant effect (p ≤ 0.05) on DM of cocoyam leaves, petioles, corm, and cormels as well as nutrient accumulation in plant parts. Cocoyam leaves of plants grown under 50–70% shade stored significantly higher (p ≤ 0.05) quantities of nutrients (1.51 ppm of N, 6.61 ppm of P, and 53.10 ppm of K) and accumulated more DM (71.30 g) than leaves of plants grown under full sunlight exposure which accumulated 1.37 ppm of N, 4.31 ppm of P, 26.06 ppm of K, and 30.7 g DM, at the two rates of the chemical fertilizer application. Under full sunlight exposure, significantly higher amounts of DM were accumulated in the corms and cormels at mineral fertilizer level of 112 kg/ha. At mineral fertilizer rate of 120 kg/ha, nutrient accumulation was significantly higher (p ≤ 0.05) in the corm and cormels (1.72 ppm of N and 7.72 ppm of P) of plants grown under full sunlight exposure than those grown under 70% shade level (0.6 ppm of N and 2.94 ppm of P). Nitrogen and phosphorus accumulation was significant in the petioles of plants grown under the 70% shade level at fertilizer rate of 120 kg/ha. It is recommended that cocoyam be grown under 50–70% shade at a fertilizer rate of 112–120 kg/ha for leaf production and under full sunlight exposure at 112 kg/ha (NPK) for cormel production.
DOI: 10.6084/m9.figshare.5471752.v1
title: FFD Accumulation Analysis

description: Python and intermediate datasets for analyzing the relationship of mean annual temperature and rates of successive FFD accumulation among flora occupying a continental temperature gradient<br>
DOI: 10.6084/m9.figshare.5471692
title: Influence of salinomycin treatment on division and movement of individual cancer cells cultured in normoxia or hypoxia evaluated with time-lapse digital holographic microscopy

description: Most studies on new cancer drugs are based on population-derived data, where the absence of response of a small population may pass unnoticed. Thus, individual longitudinal tracking of cells is important for the future development of efficient cancer treatments. We have used digital holographic microscopy to track individual JIMT-1 human breast cancer cells and L929 mouse fibroblast cultivated in normoxia or hypoxia. In addition, JIMT-1 cells were treated with salinomycin, a cancer stem cell targeting compound. Three-day time-lapse movies were captured and individual cells were analysed with respect to cell division (cell cycle length) and cell movement. Comparing population-doubling time derived from population-based growth curves and individual cell cycle time data from time-lapse movies show that the former hide a sub-population of dividing cells. Salinomycin treatment increased the motility of cells, however, this motility did not result in an increased distant migration i.e. the cells increased their local movement. MCF-7 breast cancer cells showed similar motility behaviour as salinomycin-treated JIMT-1 cells. We suggest that combining features, such as motility and migration, can be used to distinguish cancer cells with mesenchymal (JIMT-1) and epithelial (MCF-7) features. The data clearly emphasize the importance of longitudinal cell tracking to understand the biology of individual cells under different conditions.
DOI: 10.6084/m9.figshare.5471692.v1
title: Influence of salinomycin treatment on division and movement of individual cancer cells cultured in normoxia or hypoxia evaluated with time-lapse digital holographic microscopy

description: Most studies on new cancer drugs are based on population-derived data, where the absence of response of a small population may pass unnoticed. Thus, individual longitudinal tracking of cells is important for the future development of efficient cancer treatments. We have used digital holographic microscopy to track individual JIMT-1 human breast cancer cells and L929 mouse fibroblast cultivated in normoxia or hypoxia. In addition, JIMT-1 cells were treated with salinomycin, a cancer stem cell targeting compound. Three-day time-lapse movies were captured and individual cells were analysed with respect to cell division (cell cycle length) and cell movement. Comparing population-doubling time derived from population-based growth curves and individual cell cycle time data from time-lapse movies show that the former hide a sub-population of dividing cells. Salinomycin treatment increased the motility of cells, however, this motility did not result in an increased distant migration i.e. the cells increased their local movement. MCF-7 breast cancer cells showed similar motility behaviour as salinomycin-treated JIMT-1 cells. We suggest that combining features, such as motility and migration, can be used to distinguish cancer cells with mesenchymal (JIMT-1) and epithelial (MCF-7) features. The data clearly emphasize the importance of longitudinal cell tracking to understand the biology of individual cells under different conditions.
DOI: 10.6084/m9.figshare.5471539
title: Thermal Model Results in Bramson et al. 2017 JGR-Planets

description: This file contains the thermal modeling inputs and outputs for model runs included in the Bramson et al. JGR-Planets manuscript "Preservation of Mid-Latitude Ice Sheets on Mars"<br>Bramson, A. M., Byrne, S. & Bapst, J. (2017). Preservation of Mid-Latitude Ice Sheets on Mars. Journal of Geophysical Research: Planets, 122. https://doi.org/10.1002/2017JE005357<br>
DOI: 10.6084/m9.figshare.5471710.v2
title: Effect of shade and level of fertilizer application on nutrient uptake and dry matter partitioning in cocoyam (<i>Xanthosoma sagittifolium</i> L.)

description: The effect of shade and fertilizer application on nutrient uptake and dry matter (DM) partitioning in cocoyam was evaluated by growing the plant under different levels of shade and fertilizer application at Forest and Horticultural Crops Research Centre, Kade, within a period of 9 months. The shade levels used were 80%, 70%, and 50% shade, and full sunlight exposure. The fertilizer rates used were 112 kg/ha nitrogen, phosphorus and potassium (NPK) (15-15-15 120 kg/ha NPK (15-15-15) in a form) of mineral fertilizer, 112 kg/ha NPK organic fertilizer and no fertilizer (control). The split-plot design was used with shade levels as the main plot factor and fertilizer levels as the sub plot factor. The interaction effect of shade and fertilizer had a significant effect (p ≤ 0.05) on DM of cocoyam leaves, petioles, corm, and cormels as well as nutrient accumulation in plant parts. Cocoyam leaves of plants grown under 50–70% shade stored significantly higher (p ≤ 0.05) quantities of nutrients (1.51 ppm of N, 6.61 ppm of P, and 53.10 ppm of K) and accumulated more DM (71.30 g) than leaves of plants grown under full sunlight exposure which accumulated 1.37 ppm of N, 4.31 ppm of P, 26.06 ppm of K, and 30.7 g DM, at the two rates of the chemical fertilizer application. Under full sunlight exposure, significantly higher amounts of DM were accumulated in the corms and cormels at mineral fertilizer level of 112 kg/ha. At mineral fertilizer rate of 120 kg/ha, nutrient accumulation was significantly higher (p ≤ 0.05) in the corm and cormels (1.72 ppm of N and 7.72 ppm of P) of plants grown under full sunlight exposure than those grown under 70% shade level (0.6 ppm of N and 2.94 ppm of P). Nitrogen and phosphorus accumulation was significant in the petioles of plants grown under the 70% shade level at fertilizer rate of 120 kg/ha. It is recommended that cocoyam be grown under 50–70% shade at a fertilizer rate of 112–120 kg/ha for leaf production and under full sunlight exposure at 112 kg/ha (NPK) for cormel production.
DOI: 10.6084/m9.figshare.5471509
title: Thermal Model Outputs 2017

description: Sorry for the confusion and ending up with the same files in two places. Please us the link https://doi.org/10.6084/m9.figshare.5471539.v1 for Bramson et al. 2017 inputs/outputs.<br>-Ali
DOI: 10.6084/m9.figshare.5471710.v1
title: Effect of Shade and Level of Fertiliser Application on Nutrient uptake and Dry Matter Partitioning in Cocoyam (Xanthosoma saggitifolium L.)

description: The effect of shade and fertilizer on nutrient uptake and dry matter partitioning in cocoyam were evaluated by growing the plant under different levels of shade and fertilizer application levels at Forest and Horticultural Crops Research Centre, Kade within a period of nine months. The shade levels used were 80%, 70%, 50% and full sunlight exposure. The fertilizer rates used were 112 kg/ha and 120 kg/ha nitrogen, phosphorus and potassium (NPK) (15-15-15) of mineral fertilizer, organic fertilizer at 112 kg/ha N, P and K and no fertilizer as control. The split-plot design was used with shade levels as the main plot factor and fertilizer levels as the sub plot factor. The interaction effect of shade and fertilizer had significant effect (p ≤ 0.05) on dry matter of cocoyam leaves, petioles, corm and cormels as well as nutrient accumulation in plant parts. Cocoyam leaves of plants grown under 50%–70% shade stored significantly higher (p ≤ 0.05) quantities of nutrients (1.51ppm of N, 6.61ppm of P and 53.10ppm of K); and accumulated more dry matter (71.30 g) than leaves of plants grown under full sunlight exposure which accumulated 1.37ppm of N, 4.31ppm of P and 26.06ppm of K and 30.7 g dry matter, at the two rates of the chemical fertilizer application. Under full sunlight exposure, significantly higher amounts of dry matter were accumulated in the corms and cormels at mineral fertilizer level of 112 Kg/ha. At mineral fertilizer rate of 120 Kg/ha, nutrients accumulation were significantly higher (p ≤ 0.05) in the corm and cormels (1.72ppm of N and 7.72ppm of P) of plants grown under full sunlight exposure than those grown under 70% shade level (0.6ppm of N and 2.94ppm of P). Nitrogen and Phosphorus accumulation were significant in the petioles of plants grown under the 70% shade at fertilizer rate of 120 Kg/ha. It is recommended that cocoyam should be grown under 50%–70% shade at fertilizer rate of 112–120 Kg/ha for leaf production and under full sunlight exposure at 112 Kg/ha (NPK) for cormel production.
DOI: 10.6084/m9.figshare.5471509.v2
title: Bramson_2017_JGR_OpenData.zip

description: These files still had random MacOS .DS_store files within the folders in my first upload and so was re-uploaded without those at https://doi.org/10.6084/m9.figshare.5471539.v1. Please use that link. (Though the files now contained here are the same)<br>Sorry for the confusion and ending up with the files in two places...was my first time using FigShare.<br>-Ali
DOI: 10.6084/m9.figshare.5471509.v1
title: Bramson_2017_JGR_OpenData.zip

description: This file contains the thermal modeling inputs and outputs for model runs included in the Bramson et al. JGR-Planets manuscript "Preservation of Mid-Latitude Ice Sheets on Mars"
DOI: 10.6084/m9.figshare.5469757
title: GI Biopsy Study PLOS ONE ETC Activity

description: Complex I and IV and Citrate Synthase Enzymes activity and Complex I-V protein quantity from mucosal biopsy from Cecum and Rectum of patients with autism, Crohn's disease and non-specific GI complaints
DOI: 10.6084/m9.figshare.5469757.v1
title: GI Biopsy Study PLOS ONE ETC Activity

description: Complex I and IV and Citrate Synthase Enzymes activity and Complex I-V protein quantity from mucosal biopsy from Cecum and Rectum of patients with autism, Crohn's disease and non-specific GI complaints
DOI: 10.6084/m9.figshare.5469622
title: Supplementary Data 1

description: Dataset used for the analyses
DOI: 10.6084/m9.figshare.5469607
title: Supplementary Data 3

description: R spaces containing the fitted models for each taxon, and corresponding tables reporting the model selection estimates, variance explained, forecasting error and coefficient estimates.
DOI: 10.6084/m9.figshare.5469607.v1
title: Supplementary Data 3

description: R spaces containing the fitted models for each taxon, and corresponding tables reporting the model selection estimates, variance explained, forecasting error and coefficient estimates.
DOI: 10.6084/m9.figshare.5469583
title: Dataset from Puttick 2018 - Mixed evidence for early bursts of morphological evolution in extant clades

description: data from Puttick 2018
DOI: 10.6084/m9.figshare.5469583.v1
title: Dataset from Puttick 2018 - Mixed evidence for early bursts of morphological evolution in extant clades

description: data from Puttick 2018
DOI: 10.6084/m9.figshare.5469598
title: Geotechnical map of a coastal and industrialized urban area (Avilés, NW Spain)

description: Geotechnical mapping of urban environments is usually constrained by the scarcity of outcrops during fieldwork. Such is the case of Avilés, a coastal Spanish city that has been heavily industrialized since the middle of the last century. This research approaches the study of its urban subsoil through the development of a Geographical Information Systems-based relational database containing thousands of unpublished ground data, partially extracted from geotechnical reports. This allowed analysing the distribution and changes of thickness of the superficial deposits and lithostratigraphic formations as well as the evaluation of their main geotechnical properties. Thus, 14 geotechnical units were differentiated (hierarchically displayed in three categories) depending on lithological, geotechnical and constructive criteria. As a result, this investigation provides a geo-engineering map at scale 1:25,000.
DOI: 10.6084/m9.figshare.5469598.v2
title: Geotechnical map of a coastal and industrialized urban area (Avilés, NW Spain)

description: Geotechnical mapping of urban environments is usually constrained by the scarcity of outcrops during fieldwork. Such is the case of Avilés, a coastal Spanish city that has been heavily industrialized since the middle of the last century. This research approaches the study of its urban subsoil through the development of a Geographical Information Systems-based relational database containing thousands of unpublished ground data, partially extracted from geotechnical reports. This allowed analysing the distribution and changes of thickness of the superficial deposits and lithostratigraphic formations as well as the evaluation of their main geotechnical properties. Thus, 14 geotechnical units were differentiated (hierarchically displayed in three categories) depending on lithological, geotechnical and constructive criteria. As a result, this investigation provides a geo-engineering map at scale 1:25,000.
DOI: 10.6084/m9.figshare.5469598.v1
title: Geotechnical map of a coastal and industrialized urban area (Avilés, NW Spain)

description: Geotechnical mapping of urban environments is usually constrained by the scarcity of outcrops during fieldwork. Such is the case of Avilés, a coastal Spanish city that has been heavily industrialized since the middle of the last century. This research approaches the study of its urban subsoil through the development of a Geographical Information Systems-based relational database containing thousands of unpublished ground data, partially extracted from geotechnical reports. This allowed analysing the distribution and changes of thickness of the superficial deposits and lithostratigraphic formations as well as the evaluation of their main geotechnical properties. Thus, 14 geotechnical units were differentiated (hierarchically displayed in three categories) depending on lithological, geotechnical and constructive criteria. As a result, this investigation provides a geo-engineering map at scale 1:25,000.
DOI: 10.6084/m9.figshare.5469517
title: PONE-D-17-30205

description: These are data sets for all figures published in PONE-D-17-30205. Data sets include raw data, statistics, and images generated i GraphPad Prism.
DOI: 10.6084/m9.figshare.5469517.v1
title: PONE-D-17-30205

description: These are data sets for all figures published in PONE-D-17-30205. Data sets include raw data, statistics, and images generated i GraphPad Prism.
DOI: 10.6084/m9.figshare.5469457
title: A New Approach to Censored Quantile Regression Estimation<sup>*</sup>

description: Quantile regression provides an attractive tool to the analysis of censored responses, because the conditional quantile functions are often of direct interest in regression analysis, and moreover, the quantiles are often identifiable while the conditional mean functions are not. Existing methods of estimation for censored quantiles are mostly limited to singly left- or right-censored data, with some attempts made to extend the methods to doubly-censored data. In this article we propose a new and unified approach, based on a variation of the data augmentation algorithm, to censored quantile regression estimation. The proposed method adapts easily to different forms of censoring including doubly censored and interval censored data, and somewhat surprisingly, the resulting estimates improve on the performance of the best known estimators with singly censored data.
DOI: 10.6084/m9.figshare.5469457.v1
title: A New Approach to Censored Quantile Regression Estimation<sup>*</sup>

description: Quantile regression provides an attractive tool to the analysis of censored responses, because the conditional quantile functions are often of direct interest in regression analysis, and moreover, the quantiles are often identifiable while the conditional mean functions are not. Existing methods of estimation for censored quantiles are mostly limited to singly left- or right-censored data, with some attempts made to extend the methods to doubly-censored data. In this article we propose a new and unified approach, based on a variation of the data augmentation algorithm, to censored quantile regression estimation. The proposed method adapts easily to different forms of censoring including doubly censored and interval censored data, and somewhat surprisingly, the resulting estimates improve on the performance of the best known estimators with singly censored data.
DOI: 10.6084/m9.figshare.5469427
title: Aetiology of stemphylium blight on lentil in Canada

description: Field isolates of <i>Stemphylium</i> spp. collected from lentil and nine other western Canadian crops were compared to the ex-type isolate of <i>Stemphylium botryosum</i> by morphology and by molecular phylogenetic analysis based on the internal transcribed spacer (ITS) and the <i>glyceraldehyde-3-phosphate dehydrogenase</i> gene regions. Sequence data of these genes for six other <i>Stemphylium</i> spp. obtained from GenBank were also included in the phylogenetic analysis. Morphology of colonies and morphometry of conidia agreed with previous descriptions of <i>S. botryosum</i>, but did not correlate with the clustering observed in the phylogenetic analysis. Sequence data revealed that <i>S. botryosum</i> is one of probably two <i>Stemphylium</i> spp. involved in the development of stemphylium blight on Canadian lentil, and is associated with other hosts such as faba bean, soybean, bean, pea, alfalfa, coriander, caraway and fenugreek. More than one validly described <i>Stemphylium</i> sp. was associated with the second cluster of isolates causing stemphylium blight, indicating that an extensive taxonomic review of the genus <i>Stemphylium</i> is required before this second stemphylium blight pathogen can be identified by name.
DOI: 10.17866/rd.salford.5469448.v1
title: Ballad of Isosceles Photo Documentation

description: Photo documentation by Jason Kenny/Mercurial Creative restaging certain key moments from <i>The Ballad of Isosceles, </i>each of which illustrate a particular performance 'relation'.