cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1004988.v1
title: Gaussian Job Archive for C6H10O14P2(4-)

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1004987.v2
title: High frequency of character transformations is phylogenetically structured within the lichenized fungal family Graphidaceae (Ascomycota: Ostropales)

description: ABSTRACTGraphidaceae is a large family of over 2000 predominantly tropical, lichenized fungal species encompassing a remarkable range of morphological and chemical diversity. The majority of species belongs in subfamily Graphidoideae, which also exhibits the greatest amount of variation. Various phenotype characters have traditionally been used for classification at the genus and species levels, but their correlations with phylogenetic clades are poorly known. Using a multilocus approach, we reconstructed a phylogeny for 224 taxa, representing all main genera within subfamily Graphidoideae, and employed ancestral character reconstruction and character transformation analyses to understand the evolution of morphological, anatomical and chemical characters within this group. In addition, we examined the changes of habitat and photobiont types over the phylogeny. For this purpose, we focused on 10 characters, including thallus and ascoma features and chemistry. Since previous studies have shown that results may differ depending on the reconstruction method used, both Maximum-parsimony and Maximum-likelihood approaches were employed and multistate coding of characters was used. We reconstructed the ancestral states for 64 well-supported major clades in the family and found support for the ancestor of Graphidoideae being a tropical species with a trentepohlioid photobiont, apothecioid, solitary ascomata lacking both a columella and lateral paraphyses, and having non-amyloid ascospores. The frequency of transformations of morphological and chemical characters over the phylogeny of Graphidaceae was computed, resulting in a high frequency of reversible transformations for some characters, such as secondary chemistry, whereas other characters, such as photobiont, hymenial persistence or ascoma aggregation, exhibited low frequency of transformations. However, we found that even in the character with the highest number of transformations, secondary chemistry, the shifts were highly structured phylogenetically, suggesting that the evolution of the character, rather than the character state itself, can be used to predict phylogenetic relationships with certain accuracy.
DOI: 10.6084/m9.figshare.1004987.v1
title: High frequency of character transformations is phylogenetically structured within the lichenized fungal family Graphidaceae (Ascomycota: Ostropales)

description: ABSTRACTGraphidaceae is a large family of over 2000 predominantly tropical, lichenized fungal species encompassing a remarkable range of morphological and chemical diversity. The majority of species belongs in subfamily Graphidoideae, which also exhibits the greatest amount of variation. Various phenotype characters have traditionally been used for classification at the genus and species levels, but their correlations with phylogenetic clades are poorly known. Using a multilocus approach, we reconstructed a phylogeny for 224 taxa, representing all main genera within subfamily Graphidoideae, and employed ancestral character reconstruction and character transformation analyses to understand the evolution of morphological, anatomical and chemical characters within this group. In addition, we examined the changes of habitat and photobiont types over the phylogeny. For this purpose, we focused on 10 characters, including thallus and ascoma features and chemistry. Since previous studies have shown that results may differ depending on the reconstruction method used, both Maximum-parsimony and Maximum-likelihood approaches were employed and multistate coding of characters was used. We reconstructed the ancestral states for 64 well-supported major clades in the family and found support for the ancestor of Graphidoideae being a tropical species with a trentepohlioid photobiont, apothecioid, solitary ascomata lacking both a columella and lateral paraphyses, and having non-amyloid ascospores. The frequency of transformations of morphological and chemical characters over the phylogeny of Graphidaceae was computed, resulting in a high frequency of reversible transformations for some characters, such as secondary chemistry, whereas other characters, such as photobiont, hymenial persistence or ascoma aggregation, exhibited low frequency of transformations. However, we found that even in the character with the highest number of transformations, secondary chemistry, the shifts were highly structured phylogenetically, suggesting that the evolution of the character, rather than the character state itself, can be used to predict phylogenetic relationships with certain accuracy.
DOI: 10.6084/m9.figshare.1004986.v2
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004986.v3
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004986.v4
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004986.v5
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004986.v6
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004939
title: UK Higher Education Project Management Survey Data

description: This data set was derived from the UK Higher Education Project Management survey conducted in 2014 representing the sector's maturity during the academic year 2012-2013.
DOI: 10.6084/m9.figshare.1004937
title: Using Maple to calculate 2D Fourier transforms in polar coordinates

description: This project contains a toolbox to compute 2D Fourier transforms in polar coordinates using Maple. The files contained are (i) the Maple Source code (SCAToolbox V2.mw) (ii) instructions on how to install the toolbox and (iii)an MASc thesis that details the devleopment and evaluation of the toolbox and (iv) Maple Code (Testing_SCAToolbox.mw) demonstrating use of the toolbox.
DOI: 10.6084/m9.figshare.1004986.v7
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004937.v1
title: Using Maple to calculate 2D Fourier transforms in polar coordinate

description: This project contains a toolbox to compute 2D Fourier transforms in polar coordinates using Maple. The files contained are (i) the Maple Source code (ii) instructions on how to install the toolbox and (iii)an MASc thesis that details the devleopment and evaluation of the toolbox.
DOI: 10.6084/m9.figshare.1004986.v8
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004986.v10
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004937.v2
title: Using Maple to calculate 2D Fourier transforms in polar coordinate

description: This project contains a toolbox to compute 2D Fourier transforms in polar coordinates using Maple. The files contained are (i) the Maple Source code (SCAToolbox V2.mw) (ii) instructions on how to install the toolbox and (iii)an MASc thesis that details the devleopment and evaluation of the toolbox and (iv) Maple Code (Testing_SCAToolbox.mw) demonstrating use of the toolbox.
DOI: 10.6084/m9.figshare.1004986.v9
title: Global biostratigraphic comparison and correlation of an early Cisuralian palynoflora from Bolivia

description: This paper presents new data about Early Permian (Cisuralian) strata, palynostratigraphy and absolute dating from the Copacabana Formation in central Bolivia. Recent stratigraphic and palynologic data from marine and transitional rocks at Apillapampa refine the age of Cisuralian palynomorphs in South America. Twelve samples interbedded with five volcanic ashes (processed and productive) yielded 94 palynomorph species arranged in two informal palynoassemblages: the lower assemblage <i>Vittatina costabilis</i> corresponds to one sample near the base of the Copacabana Formation and the upper <i>Lueckisporites virkkiae</i> assemblage occurs in overlying marine and coal-bearing transitional intervals. Ages were also independently refined by a modern review of conodonts, fusulinids, along with those U–Pb radiometric ages (Isotope Dilution Thermal Ionization Mass Spectrometry [ID-TIMS] of zircon-bearing interbedded tuffs). These data suggest that the lower marine member of the Copacabana Formation at this location is Asselian and Sakmarian. <i>Lueckisporites virkkiae</i> is a key species of palynomorph utilised in South American and global Permian biostratigraphic reconstructions. Hence, a thorough global comparison of these palynofloras and correlations is addressed in this contribution, considering first appearances of mainly cosmopolitan diagnostic taxa. Correlations are established with many similar Permian palynofloras, some also constrained with radiometric data, in South America (Brazil, Uruguay and Argentina) and elsewhere.
DOI: 10.6084/m9.figshare.1004838
title: 1851 Assay Results

description: Taken from pubchem - results of HTS of 17000 compounds against 5 isozymes of Cytochrome P450.
DOI: 10.6084/m9.figshare.1004840
title: 1851 Assay Results

description: Full dataset to download. Complete assay results from pubchem assay 1851
DOI: 10.6084/m9.figshare.1004838.v1
title: 1851 Assay Results

description: Taken from pubchem - results of HTS of 17000 compounds against 5 isozymes of Cytochrome P450.
DOI: 10.6084/m9.figshare.1004840.v1
title: 1851 Assay Results

description: Full dataset to download. Complete assay results from pubchem assay 1851
DOI: 10.6084/m9.figshare.1004797
title: Nonlinear Fractional Polynomials for Estimating Long-Term Persistence of Induced Anti-HPV Antibodies: A Hierarchical Bayesian Approach

description: When the true relationship between a covariate and an outcome is nonlinear, one should use a nonlinear mean structure that can take this pattern into account. In this article, the fractional polynomial modeling framework, which assumes a prespecified set of powers, is extended to a nonlinear fractional polynomial framework (NLFP). Inferences are drawn in a Bayesian fashion. The proposed modeling paradigm is applied to predict the long-term persistence of vaccine-induced anti-HPV antibodies. In addition, the subject-specific posterior probability to be above a threshold value at a given time is calculated. The model is compared with a power-law model using the deviance information criterion (DIC). The newly proposed model is found to fit better than the power-law model. A sensitivity analysis was conducted, from which a relative independence of the results from the prior distribution of the power was observed. Supplementary materials for this article are available online.