cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6392537
title: Automated MIAPPE Compliance Validation

description: <b>Objective</b>This poster describes the preliminary results of a study of the use of semantic web technologies to tackle both the representation and validation of conformity of Plant Phenotyping Experiment datasets with the MIAPPE standard.<br><b>Motivation</b> Plant phenotyping research generates large datasets that are often not reusable due to the lack of standardization in their descriptors. The Minimal Information about a Plant Phenotyping Experiment (MIAPPE) is a Minimum Information (MI) standard for plant phenotyping, that has been introduced to mitigate this issue. To effect, MIAPPE provides a closed set of metadata descriptors which a plant phenotyping dataset must conform to, in order to be classified as MIAPPE-compliant.<br><br>As researchers begin to use MIAPPE descriptors to annotate their datasets, it will be necessary to assert the compliance of these datasets with the MIAPPE standard in an automated manner, so that they can be inserted into MIAPPE repositories or feedback can be provided to enable researchers to adjust their data annotation to ensure acceptance by such repositories. <br><b>Proposed Approach</b>1. Analyse the current state of both MIAPPE and a published plant phenotyping dataset, and attempt to represent them both under a common data model using semantic web technologies. 2. Attempt to verify the conformation of the metadata descriptors of the plant phenotyping dataset with the MIAPPE specification. 3. Provide documentation of the results of the verification in the form of a report, detailing the extent of compliance of the plant phenotyping dataset with the MIAPPE specification.<b><br></b><b>Current Status</b>Our proposed approach is represented in the BPMN business process attached. At present our effort has focused on the Dataset Representation part of our business process. So far, we’ve been able to successfully pre-process and structure a plant phenotyping dataset, and are in the process of creating the mappings to our selected domain ontology (Plant Phenotyping Experiment Ontology).<br><b>Future Ideas</b>Use similarity matching algorithms to aid in the mapping creation. Explore the possible usage of machine-learning techniques both in the mapping creation as well as the Dataset Validation<br><br><br>
DOI: 10.6084/m9.figshare.6392537.v3
title: Automated MIAPPE Compliance Validation

description: <b>Objective</b>This poster describes the preliminary results of a study of the use of semantic web technologies to tackle both the representation and validation of conformity of Plant Phenotyping Experiment datasets with the MIAPPE standard.<br><b>Motivation</b> Plant phenotyping research generates large datasets that are often not reusable due to the lack of standardization in their descriptors. The Minimal Information about a Plant Phenotyping Experiment (MIAPPE) is a Minimum Information (MI) standard for plant phenotyping, that has been introduced to mitigate this issue. To effect, MIAPPE provides a closed set of metadata descriptors which a plant phenotyping dataset must conform to, in order to be classified as MIAPPE-compliant.<br><br>As researchers begin to use MIAPPE descriptors to annotate their datasets, it will be necessary to assert the compliance of these datasets with the MIAPPE standard in an automated manner, so that they can be inserted into MIAPPE repositories or feedback can be provided to enable researchers to adjust their data annotation to ensure acceptance by such repositories. <br><b>Proposed Approach</b>1. Analyse the current state of both MIAPPE and a published plant phenotyping dataset, and attempt to represent them both under a common data model using semantic web technologies. 2. Attempt to verify the conformation of the metadata descriptors of the plant phenotyping dataset with the MIAPPE specification. 3. Provide documentation of the results of the verification in the form of a report, detailing the extent of compliance of the plant phenotyping dataset with the MIAPPE specification.<b><br></b><b>Current Status</b>Our proposed approach is represented in the BPMN business process attached. At present our effort has focused on the Dataset Representation part of our business process. So far, we’ve been able to successfully pre-process and structure a plant phenotyping dataset, and are in the process of creating the mappings to our selected domain ontology (Plant Phenotyping Experiment Ontology).<br><b>Future Ideas</b>Use similarity matching algorithms to aid in the mapping creation. Explore the possible usage of machine-learning techniques both in the mapping creation as well as the Dataset Validation<br><br><br>
DOI: 10.6084/m9.figshare.6392525
title: WO3.cif from Electronic structure, elasticity, Debye temperature and anisotropy of cubic WO<sub>3</sub> from first-principles

description: The electron structure, elastic constant, Debye temperature and anisotropy of elastic wave velocity for cubic WO<sub>3</sub> are studied using CASTEP based on density-functional theory. The optimized structure is consistent with previous work and the band gap is obtained by computing the electronic structure; the top of the valence band is not at the same point as the bottom of the conduction band, which is an indirect band-gap oxide. Electronic properties are studied from the calculation of band structure, densities of states and charge densities. The bulk and shear moduli, Young's modulus, hardness and Poisson's ratio for WO<sub>3</sub> are studied by the elastic constants. We calculated acoustic wave velocities in different directions and estimated the Debye temperature from the acoustic velocity. The anisotropy of WO<sub>3</sub> was analysed from the point of view of a pure wave and quasi wave.
DOI: 10.6084/m9.figshare.6392447.v1
title: Two new macraucheniids (Mammalia: Litopterna) from the late middle Miocene (Laventan South American Land Mammal Age) of Quebrada Honda, Bolivia

description: We describe two new macraucheniid litopterns from the late middle Miocene (ca. 13 Ma) Quebrada Honda Fauna of southern Bolivia. The holotype of ‘<i>Theosodon</i>’ <i>arozquetai</i>, sp. nov., is a partial cranium preserving RI2–M3 and LP1–M3, elements of the hind limb, and two metapodials. An upper cheek tooth series is also referred to this species. The holotype of <i>Llullataruca shockeyi</i>, gen. et sp. nov., is a mandible preserving nearly the entire lower dentition. A dentary, several upper teeth, and a variety of postcranial elements are also referred to this species. Two specimens from the slightly older locality of Cerdas, Bolivia, are assigned to <i>L.</i> cf. <i>shockeyi</i>. A phylogenetic analysis recovers ‘<i>T.</i>’ <i>arozquetai</i> as sister to <i>Theosodon</i> spp., and we provisionally refer it to that genus pending its revision. <i>Llullataruca shockeyi</i> forms a polytomy with three late Oligocene–early Miocene ‘cramaucheniines’ and the later-diverging macraucheniids. The body mass of ‘<i>T.</i>’ <i>arozquetai</i> is estimated at 80.8–116.2 kg, slightly smaller than early Miocene <i>T. garretorum</i>. <i>Llullataruca shockeyi</i> is among the smallest known macraucheniids based on dental dimensions and is estimated at 35.3–54.6 kg. <i>Theosodon' arozquetai</i> and <i>L. shockeyi</i> are the first well-characterized macraucheniids from the middle Miocene, and the latter species demonstrates that relatively early-diverging lineages persisted at least 7 million years longer in tropical latitudes than they did in Patagonia. http://zoobank.org/urn:lsid:zoobank.org:pub:D26BB67B-D8E1-4D36-9552-4391874CF69C SUPPLEMENTAL DATA—Supplemental materials are available for this article for free at www.tandfonline.com/UJVP Citation for this article: McGrath, A. J., F. Anaya, and D. A. Croft. 2018. Two new macraucheniids (Mammalia: Litopterna) from the late middle Miocene (Laventan South American Land Mammal Age) of Quebrada Honda, Bolivia. Journal of Vertebrate Paleontology. DOI: 10.1080/02724634.2018.1461632.
DOI: 10.6084/m9.figshare.6392372
title: Plant Data for Figshare

description: text file<br>
DOI: 10.6084/m9.figshare.6392372.v1
title: Plant Data for Figshare

description: text file<br>
DOI: 10.6084/m9.figshare.6392345
title: Supplemental Material Table S1.xlsx

description: Values and references of selected traits for the species included in the comparative analysis of the genus Catharus<br>
DOI: 10.6084/m9.figshare.6392345.v1
title: Supplemental Material Table S1.xlsx

description: Values and references of selected traits for the species included in the comparative analysis of the genus Catharus<br>
DOI: 10.6084/m9.figshare.6392339
title: code_and_data_Mouse.tar.gz

description: Mouse data and binaries<br>
DOI: 10.6084/m9.figshare.6392339.v1
title: code_and_data_Mouse.tar.gz

description: Mouse data and binaries<br>
DOI: 10.6084/m9.figshare.6392222
title: R script from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: Analysis script for R statistical software
DOI: 10.6084/m9.figshare.6392222.v1
title: R script from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: Analysis script for R statistical software
DOI: 10.6084/m9.figshare.6392216
title: Matrix for phenotypic rates from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392213
title: Data file from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: CSV data file for simulation results
DOI: 10.6084/m9.figshare.6392216.v1
title: Matrix for phenotypic rates from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392213.v1
title: Data file from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: CSV data file for simulation results
DOI: 10.6084/m9.figshare.6392210
title: Occurence and temporal data from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392210.v1
title: Occurence and temporal data from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392204
title: MATLAB scripts from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: Simulation script for MATLAB
DOI: 10.6084/m9.figshare.6392204.v1
title: MATLAB scripts from Social contact patterns can buffer costs of forgetting in the evolution of cooperation

description: Simulation script for MATLAB
DOI: 10.6084/m9.figshare.6392201
title: Script to calculate phylogenetic diversity4 from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392201.v1
title: Script to calculate phylogenetic diversity4 from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392195
title: Raw matrix from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392195.v1
title: Raw matrix from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392192
title: MPTs from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392192.v1
title: MPTs from The rise of the ruling reptiles and ecosystem recovery from the Permian-Triassic mass extinction

description: One of the key faunal transitions in Earth history occurred after the Permo-Triassic mass extinction (<i>ca</i> 252.2 Ma), when the previously obscure archosauromorphs (which include crocodylians, dinosaurs and birds) become the dominant terrestrial vertebrates. Here, we place all known middle Permian–early Late Triassic archosauromorph species into an explicit phylogenetic context, and quantify biodiversity change through this interval. Our results indicate the following sequence of diversification: a morphologically conservative and globally distributed post-extinction ‘disaster fauna’; a major but cryptic and poorly sampled phylogenetic diversification with significantly elevated evolutionary rates; and a marked increase in species counts, abundance, and disparity contemporaneous with global ecosystem stabilization some 5 million years after the extinction. This multiphase event transformed global ecosystems, with far-reaching consequences for Mesozoic and modern faunas.
DOI: 10.6084/m9.figshare.6392078
title: PHEME dataset for Rumour Detection and Veracity Classification

description: This dataset contains a collection of Twitter rumours and non-rumours posted during breaking news. <br> The data is structured as follows. Each event has a directory, with two subfolders, rumours and non-rumours. These two folders have folders named with a tweet ID. The tweet itself can be found on the 'source-tweet' directory of the tweet in question, and the directory 'reactions' has the set of tweets responding to that source tweet. Also each folder contains ‘annotation.json’ which contains information about veracity of the rumour and ‘structure.json’, which contains information about structure of the conversation. <br> This dataset is an extension of the PHEME dataset of rumours and non-rumours (https://figshare.com/articles/PHEME_dataset_of_rumours_and_non-rumours/4010619), it contains rumours related to 9 events and each of the rumours is annotated with its veracity value, either True, False or Unverified. <br> This dataset was used in the paper 'All-in-one: Multi-task Learning for Rumour Verification'. For more details, please refer to the paper. <br> Code using this dataset can be found on github (https://github.com/kochkinaelena/Multitask4Veracity). <br> License: The annotations are provided under a CC-BY license, while Twitter retains the ownership and rights of the content of the tweets.
DOI: 10.6084/m9.figshare.6392069
title: code_and_data_Zebrafish.tar.gz

description: Zebrafish data and binaries<br>
DOI: 10.6084/m9.figshare.6391820
title: Evolutionary parallelisms of pectoral and pelvic network-anatomy from fins to limbs

description: Data and source for publication <i>"Evolutionary parallelisms of pectoral and pelvic network-anatomy from fins to limbs"</i> by Esteve-Altava et al.
DOI: 10.6084/m9.figshare.6391820.v1
title: Evolutionary parallelisms of pectoral and pelvic network-anatomy from fins to limbs

description: Data and source for publication <i>"Evolutionary parallelisms of pectoral and pelvic network-anatomy from fins to limbs"</i> by Esteve-Altava et al.