cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1210773.v1
title: Metadata: Fish Mercury Datalayer for Canada (FIDMAC).

description: Metadata: Fish Mercury Datalayer for Canada (FIDMAC). Excerpt: SUMMARY Until now, characterization of mercury (Hg) risks posed to piscivorous fish and wildlife through the consumption of prey fish has generally remained limited to local or regional surveys. Furthermore, spatiotemporal and sample characteristic effects in fish-mercury data can lead to difficulty comparing results from different studies. The Fish Mercury Datalayer for Canada (FIMDAC, Depew et al. 2013a) provides model-derived estimates of Hg in a common indicator species (12-cm whole-yellow perch), and represents a useful preliminary national-level standardized index of Hg exposure to piscivorous fish and wildlife. DESCRIPTION The FIMDAC represents a model-derived output of Hg concentrations in a common indicator species (12-cm whole-yellow perch), established from the application of the United States Geological Survey's (USGS) National Descriptive Model of Mercury in Fish (NDMMF, Wente 2004) to the Canadian Fish Mercury Database (CFMD, Depew et al. 2013b). The geographical distribution of yellow perch is wide-ranging, and they represent an important prey species for piscivorous fish, birds, and mammals. Parameters estimated by way of NDMMF were unbiased, and strong spatial biases in prediction error were not evident. The FIMDAC records represent the estimated Hg burden (ug.g, wet weight) for a standard length (12 cm) whole-yellow perch at 1936 unique freshwater sites across Canada, collected between 1990 and 2010. Further details regarding the development of the FIMDAC can be found in Depew et al. (2013a).
DOI: 10.6084/m9.figshare.1210770.v1
title: Raw data for a piolitazone study

description: This is a raw data for a manuscript submitted to PLOS ONE. The title of the manuscript is "Pioglitazone Increases Whole Body Insulin Sensitivity in Obese, Insulin-Resistant Rhesus Monkeys"
DOI: 10.6084/m9.figshare.1210788.v3
title: Müllerian mimicry as a result of codivergence between velvet ants and spider wasps

description: Distribution and morphological data for Psorthaspis spider wasps used by Rodriguez et al. 2014
DOI: 10.6084/m9.figshare.1210772.v1
title: OA Week 2014 Blog

description: This is related content for a blog posted to the SJSU ASIS&T Student Chapter website for OA Week 2014
DOI: 10.6084/m9.figshare.1210772.v2
title: OA Week 2014 Blog

description: This is related content for a blog posted to the SJSU ASIS&T Student Chapter website for OA Week 2014.
DOI: 10.6084/m9.figshare.1210772.v4
title: OA Week 2014 Blog

description: This is related content for a blog posted to the SJSU ASIS&T Student Chapter website for OA Week 2014. The original blog was published at http://ischoolgroups.sjsu.edu/asistsc/sjsu-asist-blog/
DOI: 10.6084/m9.figshare.1210772.v3
title: OA Week 2014 Blog

description: This is related content for a blog posted to the SJSU ASIS&T Student Chapter website for OA Week 2014. The original blog was published at http://ischoolgroups.sjsu.edu/asistsc/sjsu-asist-blog/
DOI: 10.6084/m9.figshare.1210741
title: Monitoring ungulates in steep non-forest habitat: a comparison of faecal pellet and helicopter counts

description: Faecal pellet counts have been widely used to monitor the abundances of introduced ungulates in New Zealand, but ground-based sampling cannot be conducted safely in the steep non-forest habitats that are common in New Zealand's Southern Alps. Helicopter counts may be an effective technique for monitoring ungulates in steep non-forest habitat. We evaluated the relationship between faecal pellet and helicopter counts of ungulates (primarily feral goat <i>Capra hircus</i>) at 12 non-forest sites in the Southern Alps. Within each site we counted the numbers of ungulates from a helicopter on three occasions and the number of intact faecal pellets along 30 transects. Mean observed densities of feral goats derived from helicopter counts ranged from 0.0 to 20.2 km<sup>−2</sup>. There was a positive curvilinear (concave down) relationship between faecal pellet and helicopter counts. Compared with faecal pellet counts, helicopter counts were cheaper, could identify ungulate species and provided estimates of absolute density. Helicopter counts are a cost-effective method for monitoring ungulates in the steep non-forest habitats of New Zealand's Southern Alps.
DOI: 10.6084/m9.figshare.1210741.v2
title: Monitoring ungulates in steep non-forest habitat: a comparison of faecal pellet and helicopter counts

description: Faecal pellet counts have been widely used to monitor the abundances of introduced ungulates in New Zealand, but ground-based sampling cannot be conducted safely in the steep non-forest habitats that are common in New Zealand's Southern Alps. Helicopter counts may be an effective technique for monitoring ungulates in steep non-forest habitat. We evaluated the relationship between faecal pellet and helicopter counts of ungulates (primarily feral goat <i>Capra hircus</i>) at 12 non-forest sites in the Southern Alps. Within each site we counted the numbers of ungulates from a helicopter on three occasions and the number of intact faecal pellets along 30 transects. Mean observed densities of feral goats derived from helicopter counts ranged from 0.0 to 20.2 km<sup>−2</sup>. There was a positive curvilinear (concave down) relationship between faecal pellet and helicopter counts. Compared with faecal pellet counts, helicopter counts were cheaper, could identify ungulate species and provided estimates of absolute density. Helicopter counts are a cost-effective method for monitoring ungulates in the steep non-forest habitats of New Zealand's Southern Alps.
DOI: 10.6084/m9.figshare.1210738
title: Phenoscape Guide to Character Annotation

description: Archived versions (February 2, 2018 and October 21, 2014) of the Phenoscape project's Guide to Character Annotation. The updated version of the Guide is available on the Phenoscape wiki (http://phenoscape.org/wiki/Guide_to_Character_Annotation).
DOI: 10.6084/m9.figshare.1210741.v1
title: Monitoring ungulates in steep non-forest habitat: a comparison of faecal pellet and helicopter counts

description: Faecal pellet counts have been widely used to monitor the abundances of introduced ungulates in New Zealand, but ground-based sampling cannot be conducted safely in the steep non-forest habitats that are common in New Zealand's Southern Alps. Helicopter counts may be an effective technique for monitoring ungulates in steep non-forest habitat. We evaluated the relationship between faecal pellet and helicopter counts of ungulates (primarily feral goat <i>Capra hircus</i>) at 12 non-forest sites in the Southern Alps. Within each site we counted the numbers of ungulates from a helicopter on three occasions and the number of intact faecal pellets along 30 transects. Mean observed densities of feral goats derived from helicopter counts ranged from 0.0 to 20.2 km<sup>−2</sup>. There was a positive curvilinear (concave down) relationship between faecal pellet and helicopter counts. Compared with faecal pellet counts, helicopter counts were cheaper, could identify ungulate species and provided estimates of absolute density. Helicopter counts are a cost-effective method for monitoring ungulates in the steep non-forest habitats of New Zealand's Southern Alps.
DOI: 10.6084/m9.figshare.1210729
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210738.v2
title: Phenoscape Guide to Character Annotation

description: Archived versions (February 2, 2018 and October 21, 2014) of the Phenoscape project's Guide to Character Annotation. The updated version of the Guide is available on the Phenoscape wiki (http://phenoscape.org/wiki/Guide_to_Character_Annotation).
DOI: 10.6084/m9.figshare.1210727
title: Raw data for additional figure 4, Etherington and Monaghan

description: Raw data for additional figure 4, Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210727.v1
title: Raw data for additional figure 4, Etherington and Monaghan

description: Raw data for additional figure 4, Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210729.v1
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210725
title: Raw data for additional figure 5, Etherington and Monaghan

description: Raw data for additional figure 5, Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210729.v2
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210724
title: Supporting Data for Pilosof et al. 2015 PLoS One

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoS One.</strong> Please cite the paper when using data or code.
DOI: 10.6084/m9.figshare.1210725.v1
title: Raw data for additional figure 5, Etherington and Monaghan

description: Raw data for additional figure 5, Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210717
title: Table with individual- and population-level characteristics.

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoSOne.</strong> Please cite the paper when using it.
DOI: 10.6084/m9.figshare.1210718
title: Matrix depicting infection of individual rodent hosts by parasite species

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoSOne.</strong> Please cite the paper when using it.
DOI: 10.6084/m9.figshare.1210729.v3
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210718.v1
title: Matrix depicting infection of individual rodent hosts by parasite species

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoSOne.</strong> Please cite the paper when using it.
DOI: 10.6084/m9.figshare.1210729.v5
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210717.v1
title: Table with individual- and population-level characteristics.

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoSOne.</strong> Please cite the paper when using it.
DOI: 10.6084/m9.figshare.1210682
title: ProductStudyJasmine

description: Data for ProductStudy Jasmine (Thesis 2005)
DOI: 10.6084/m9.figshare.1210729.v4
title: Additional Figures from Etherington and Monaghan

description: Additional Figures from Etherington and Monaghan
DOI: 10.6084/m9.figshare.1210679
title: VEGF Elisa

description: VEGF produced by the metastesized MDA-MB-231 breast cancer cells and its both variants to the bone and brain under different glycemic conditions.
DOI: 10.6084/m9.figshare.1210680
title: RT PCR

description: Real time PCR quantification for cell to cell adhesion proteins and cell to Extra cellular Matrix proteins under different glycemic conditions in different breast cancer cell lines.
DOI: 10.6084/m9.figshare.1210724.v3
title: Supporting Data for Pilosof et al. 2014 PLoS One

description: This data set is from: <strong>Pilosof et. al (2014) Potential parasite transmission in multi-host networks based on parasite sharing. PLoSOne.</strong> Please cite the paper when using it.
DOI: 10.6084/m9.figshare.1210679.v1
title: VEGF Elisa

description: VEGF produced by the metastesized MDA-MB-231 breast cancer cells and its both variants to the bone and brain under different glycemic conditions.
DOI: 10.6084/m9.figshare.1210724.v5
title: Supporting Data for Pilosof et al. 2015 PLoS One

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoS One.</strong> Please cite the paper when using data or code.
DOI: 10.6084/m9.figshare.1210678
title: Proliferation Alamar blue assay

description: The proliferation of MDA-MB-231 cells was inhibited under hypoglucemic conditions.
DOI: 10.6084/m9.figshare.1210724.v4
title: Supporting Data for Pilosof et al. 2014 PLoS One

description: This data set is from: <strong>Pilosof et. al (2015) Potential parasite transmission in multi-host networks based on parasite sharing. PLoS One.</strong> Please cite the paper when using data or code.
DOI: 10.6084/m9.figshare.1210677
title: Western blot bands quantification

description: Different protein expression levels in MDA-MB-231 cells were quantified using Image J program.
DOI: 10.6084/m9.figshare.1210682.v1
title: Study2SeeingRed

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1210676
title: Colony formation Assay

description: The effect of hypoglycemia on the ability of MDA-MB-231 cells to form colonies.
DOI: 10.6084/m9.figshare.1210680.v1
title: Dr.

description: Real time PCR quantification for cell to cell adhesion proteins and cell to Extra cellular Matrix proteins under different glycemic conditions in different breast cancer cell lines.
DOI: 10.6084/m9.figshare.1210677.v1
title: Western blot bands quantification

description: Different protein expression levels in MDA-MB-231 cells were quantified using Image J program.
DOI: 10.6084/m9.figshare.1210682.v2
title: Study2SeeingRedData

description: Data for PLOSONE Manuscript "Seeing Red: Anger Increases How Much Republican Identification Predicts Partisan Attitudes and Perceived Polarization"
DOI: 10.6084/m9.figshare.1210682.v4
title: ProductStudyJasmine

description: Data for ProductStudy Jasmine (Thesis 2005)
DOI: 10.6084/m9.figshare.1209706
title: .

description: .
DOI: 10.6084/m9.figshare.1210682.v3
title: error

description: error
DOI: 10.6084/m9.figshare.1209706.v2
title: Remarks on More than a Year Investigating on Transmissible Emerging Infectious Diseases Associated with Bedbugs, 1900s - 2014s

description: Vector-Borne properties of Cimex spp.
DOI: 10.6084/m9.figshare.1209703
title: Variable Selection in General Frailty Models Using Penalized H-Likelihood

description: Variable selection methods using a penalized likelihood have been widely studied in various statistical models. However, in semiparametric frailty models, these methods have been relatively less studied because the marginal likelihood function involves analytically intractable integrals, particularly when modeling multicomponent or correlated frailties. In this article, we propose a simple but unified procedure via a penalized h-likelihood (HL) for variable selection of fixed effects in a general class of semiparametric frailty models, in which random effects may be shared, nested, or correlated. We consider three penalty functions (least absolute shrinkage and selection operator [LASSO], smoothly clipped absolute deviation [SCAD], and HL) in our variable selection procedure. We show that the proposed method can be easily implemented via a slight modification to existing HL estimation approaches. Simulation studies also show that the procedure using the SCAD or HL penalty performs well. The usefulness of the new method is illustrated using three practical datasets too. Supplementary materials for the article are available online.
DOI: 10.6084/m9.figshare.1209706.v3
title: .

description: Vector-Borne properties of Cimex spp.
DOI: 10.6084/m9.figshare.1209700
title: A “Density-Based” Algorithm for Cluster Analysis Using Species Sampling Gaussian Mixture Models

description: We propose a new model for cluster analysis in a Bayesian nonparametric framework. Our model combines two ingredients, species sampling mixture models of Gaussian distributions on one hand, and a deterministic clustering procedure (DBSCAN) on the other. Here, two observations from the underlying species sampling mixture model share the same cluster if the distance between the densities corresponding to their latent parameters is smaller than a threshold; this yields a random partition which is coarser than the one induced by the species sampling mixture. Since this procedure depends on the value of the threshold, we suggest a strategy to fix it. In addition, we discuss implementation and applications of the model; comparison with more standard clustering algorithms will be given as well. Supplementary materials for the article are available online.
DOI: 10.6084/m9.figshare.1209701
title: Biclustering Three-Dimensional Data Arrays With Plaid Models

description: Three-dimensional data arrays (collections of individual data matrices) are increasingly prevalent in modern data and pose unique challenges to pattern extraction and visualization. This article introduces a biclustering technique for exploration and pattern detection in such complex structured data. The proposed framework couples the popular plaid model together with tools from functional data analysis to guide the estimation of bicluster responses over the array. We present an efficient algorithm that first detects biclusters that exhibit strong deviations for some data matrices, and then estimates their responses over the entire data array. Altogether, the framework is useful to home in on and display underlying structure and its evolution over conditions/time. The methods are scalable to large datasets, and can accommodate a variety of dynamic patterns. The proposed techniques are illustrated on gene expression data and bilateral trade networks. Supplementary materials are available online.
DOI: 10.6084/m9.figshare.1209699
title: Sparse Biclustering of Transposable Data

description: We consider the task of simultaneously clustering the rows and columns of a large transposable data matrix. We assume that the matrix elements are normally distributed with a bicluster-specific mean term and a common variance, and perform biclustering by maximizing the corresponding log-likelihood. We apply an ℓ<sub>1</sub> penalty to the means of the biclusters to obtain sparse and interpretable biclusters. Our proposal amounts to a sparse, symmetrized version of <i>k</i>-means clustering. We show that <i>k</i>-means clustering of the rows and of the columns of a data matrix can be seen as special cases of our proposal, and that a relaxation of our proposal yields the singular value decomposition. In addition, we propose a framework for biclustering based on the matrix-variate normal distribution. The performances of our proposals are demonstrated in a simulation study and on a gene expression dataset. This article has supplementary material online.
DOI: 10.6084/m9.figshare.1209703.v1
title: Variable Selection in General Frailty Models Using Penalized H-Likelihood

description: Variable selection methods using a penalized likelihood have been widely studied in various statistical models. However, in semiparametric frailty models, these methods have been relatively less studied because the marginal likelihood function involves analytically intractable integrals, particularly when modeling multicomponent or correlated frailties. In this article, we propose a simple but unified procedure via a penalized h-likelihood (HL) for variable selection of fixed effects in a general class of semiparametric frailty models, in which random effects may be shared, nested, or correlated. We consider three penalty functions (least absolute shrinkage and selection operator [LASSO], smoothly clipped absolute deviation [SCAD], and HL) in our variable selection procedure. We show that the proposed method can be easily implemented via a slight modification to existing HL estimation approaches. Simulation studies also show that the procedure using the SCAD or HL penalty performs well. The usefulness of the new method is illustrated using three practical datasets too. Supplementary materials for the article are available online.
DOI: 10.6084/m9.figshare.1209703.v3
title: Variable Selection in General Frailty Models Using Penalized H-Likelihood

description: Variable selection methods using a penalized likelihood have been widely studied in various statistical models. However, in semiparametric frailty models, these methods have been relatively less studied because the marginal likelihood function involves analytically intractable integrals, particularly when modeling multicomponent or correlated frailties. In this article, we propose a simple but unified procedure via a penalized h-likelihood (HL) for variable selection of fixed effects in a general class of semiparametric frailty models, in which random effects may be shared, nested, or correlated. We consider three penalty functions (least absolute shrinkage and selection operator [LASSO], smoothly clipped absolute deviation [SCAD], and HL) in our variable selection procedure. We show that the proposed method can be easily implemented via a slight modification to existing HL estimation approaches. Simulation studies also show that the procedure using the SCAD or HL penalty performs well. The usefulness of the new method is illustrated using three practical datasets too. Supplementary materials for the article are available online.
DOI: 10.6084/m9.figshare.1209703.v2
title: Variable Selection in General Frailty Models Using Penalized H-Likelihood

description: Variable selection methods using a penalized likelihood have been widely studied in various statistical models. However, in semiparametric frailty models, these methods have been relatively less studied because the marginal likelihood function involves analytically intractable integrals, particularly when modeling multicomponent or correlated frailties. In this article, we propose a simple but unified procedure via a penalized h-likelihood (HL) for variable selection of fixed effects in a general class of semiparametric frailty models, in which random effects may be shared, nested, or correlated. We consider three penalty functions (least absolute shrinkage and selection operator [LASSO], smoothly clipped absolute deviation [SCAD], and HL) in our variable selection procedure. We show that the proposed method can be easily implemented via a slight modification to existing HL estimation approaches. Simulation studies also show that the procedure using the SCAD or HL penalty performs well. The usefulness of the new method is illustrated using three practical datasets too. Supplementary materials for the article are available online.
DOI: 10.6084/m9.figshare.1209701.v1
title: Biclustering Three-Dimensional Data Arrays With Plaid Models

description: Three-dimensional data arrays (collections of individual data matrices) are increasingly prevalent in modern data and pose unique challenges to pattern extraction and visualization. This article introduces a biclustering technique for exploration and pattern detection in such complex structured data. The proposed framework couples the popular plaid model together with tools from functional data analysis to guide the estimation of bicluster responses over the array. We present an efficient algorithm that first detects biclusters that exhibit strong deviations for some data matrices, and then estimates their responses over the entire data array. Altogether, the framework is useful to home in on and display underlying structure and its evolution over conditions/time. The methods are scalable to large datasets, and can accommodate a variety of dynamic patterns. The proposed techniques are illustrated on gene expression data and bilateral trade networks. Supplementary materials are available online.