cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11298995
title: Drivers of distributional patterns and assemblage-turnover for dragonfly conservation in South Africa

description: These are the raw data files for determining areas of high species richness, endemism and assemblage-turnover of dragonflies in South Africa.
DOI: 10.6084/m9.figshare.11299040.v1
title: Genome-scale data reveal the role of hybridization in lichen-forming fungi Item

description: Advancements in molecular genetics have revealed that hybridization is common among plants, animals, and fungi, playing a role in evolutionary dynamics and speciation. While hybridization has been well-documented in pathogenic fungi, the effects of these processes on speciation in fungal lineages with different life histories and ecological niches are largely unexplored. Here we investigated the potential influence of hybridization on the emergence of morphologically and reproductively distinct asexual lichens. We focus on vagrant forms (growing obligately unattached to substrates) within a clade of rock-dwelling, sexually reproducing species in the Rhizoplaca melanophthalma (Lecanoraceae, Ascomycota) group. We used phylogenomic data from both mitochondrial and nuclear genomes to infer evolutionary relationships and potential patterns of introgression. We were inferred well-supported phylogenies from both the mitochondrial and nuclear datasets. We observed multiple instances of discordance between the mitochondrial and nuclear trees, including the clade comprising the asexual vagrant species R. arbuscula, R. haydenii, R. idahoensis, and a closely related rock-dwelling lineage. Despite well-supported phylogenies, we recovered strong evidence of reticulation using a network approach that incorporates both incomplete lineage sorting and hybridization. These data suggest that the rock-dwelling western North American subalpine endemic R. shushanii is potentially the result of a hybrid speciation event, and introgression may have also played a role in other taxa, including vagrant species R. arbuscula, R. haydenii and R. idahoensis. We discuss the potential roles of hybridization in terms of generating asexuality and novel morphological traits in lichens. Furthermore, our results highlight the need for additional study of reticulate phylogenies when investigating species boundaries and evolutionary history, even in cases with well-supported topologies inferred from genome-scale data.<br>
DOI: 10.6084/m9.figshare.11298941
title: Fry-colour phenotypes - potato

description: Fry-colour off-the-field (OTF) and after long term storage at 4.5 degree C (LTS).
DOI: 10.6084/m9.figshare.11298992.v1
title: GSM2390642_EPAS1_ChIPSeq data

description: epas chip seq
DOI: 10.6084/m9.figshare.11298941.v1
title: Fry-colour phenotypes - potato

description: Fry-colour off-the-field (OTF) and after long term storage at 4.5 degree C (LTS).
DOI: 10.6084/m9.figshare.11298995.v1
title: Drivers of distributional patterns and assemblage-turnover for dragonfly conservation in South Africa

description: These are the raw data files for determining areas of high species richness, endemism and assemblage-turnover of dragonflies in South Africa.
DOI: 10.6084/m9.figshare.11298584
title: Metadata record for: Predictive mapping of the global power system using open data

description: This dataset contains key characteristics about the data described in the Data Descriptor Predictive mapping of the global power system using open data. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11298584.v2
title: Metadata record for: Predictive mapping of the global power system using open data

description: This dataset contains key characteristics about the data described in the Data Descriptor Predictive mapping of the global power system using open data. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11298584.v1
title: Metadata record for: Predictive mapping of the global power system using open data

description: This dataset contains key characteristics about the data described in the Data Descriptor Predictive mapping of the global power system using open data. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.11298449
title: Table S2. Geochronology and geochemistry of the Tabaquito batholith (Frontal Cordillera, Argentina): geodynamic implications and temporal correlations in the SW Gondwana margin

description: Table S2
DOI: 10.6084/m9.figshare.11298464
title: Move to stay: genetic structure and demographic history of a wolf spider inhabiting coastal sand dunes of southern South America

description: Dispersal ability can enhance the probability of an organism surviving and reproducing, and affects the geographic structure of its genetic variability. <i>Allocosa senex</i> is a nocturnal sand-dwelling wolf spider strictly associated with oceanic, estuarine and freshwater sandy coast habitats of southern South America, including Uruguay, Brazil, and Argentina. Recent research has revealed the presence of diverse dispersal strategies, both aerial and aquatic. Here we investigated the genetic structure and demographic history of <i>A. senex</i> using sequences of the mitochondrial genome and genomic scanning using amplified fragment length polymorphisms (AFLPs). We hypothesized the presence of a weak population genetic structure in space because of high levels of gene flow. We analysed individuals from 21 localities from Uruguay, Argentina, and Brazil. We obtained 60 sequences for the <i>cox1</i> (17 haplotypes) and 445 AFLP polymorphic loci of 90 individuals. The results were in agreement with our hypothesis. They revealed an absence of spatially structured genetic diversity, neither among localities nor among basins, suggesting little isolation by distance in the group. The mitochondrial gene tree was dated and age estimates revealed a recent origin of <i>A. senex</i>, which was traced back to the Middle Pleistocene. Both the mitochondrial star-like topology and the departures from neutrality, further supported by the lack of AFLP population structure and isolation by distance, are in agreement with a recent population expansion. Demographic changes could be related to climatic oscillations and geological changes undergone by the study area during the Pleistocene.
DOI: 10.6084/m9.figshare.11298464.v1
title: Move to stay: genetic structure and demographic history of a wolf spider inhabiting coastal sand dunes of southern South America

description: Dispersal ability can enhance the probability of an organism surviving and reproducing, and affects the geographic structure of its genetic variability. <i>Allocosa senex</i> is a nocturnal sand-dwelling wolf spider strictly associated with oceanic, estuarine and freshwater sandy coast habitats of southern South America, including Uruguay, Brazil, and Argentina. Recent research has revealed the presence of diverse dispersal strategies, both aerial and aquatic. Here we investigated the genetic structure and demographic history of <i>A. senex</i> using sequences of the mitochondrial genome and genomic scanning using amplified fragment length polymorphisms (AFLPs). We hypothesized the presence of a weak population genetic structure in space because of high levels of gene flow. We analysed individuals from 21 localities from Uruguay, Argentina, and Brazil. We obtained 60 sequences for the <i>cox1</i> (17 haplotypes) and 445 AFLP polymorphic loci of 90 individuals. The results were in agreement with our hypothesis. They revealed an absence of spatially structured genetic diversity, neither among localities nor among basins, suggesting little isolation by distance in the group. The mitochondrial gene tree was dated and age estimates revealed a recent origin of <i>A. senex</i>, which was traced back to the Middle Pleistocene. Both the mitochondrial star-like topology and the departures from neutrality, further supported by the lack of AFLP population structure and isolation by distance, are in agreement with a recent population expansion. Demographic changes could be related to climatic oscillations and geological changes undergone by the study area during the Pleistocene.
DOI: 10.6084/m9.figshare.11298449.v1
title: Table S2. Geochronology and geochemistry of the Tabaquito batholith (Frontal Cordillera, Argentina): geodynamic implications and temporal correlations in the SW Gondwana margin

description: Table S2
DOI: 10.6084/m9.figshare.11298437
title: Table S1. Geochronology and geochemistry of the Tabaquito batholith (Frontal Cordillera, Argentina): geodynamic implications and temporal correlations in the SW Gondwana margin

description: Table S1
DOI: 10.6084/m9.figshare.11298407
title: Performance to similarity correlations

description: Correlations between prediction performance of random forest models trained on a set of systematic reviews and the average cosine similarity of the test review to the training reviews.
DOI: 10.6084/m9.figshare.11298407.v1
title: Performance to similarity correlations

description: Correlations between prediction performance of random forest models trained on a set of systematic reviews and the average cosine similarity of the test review to the training reviews.
DOI: 10.6084/m9.figshare.11298437.v1
title: Table S1. Geochronology and geochemistry of the Tabaquito batholith (Frontal Cordillera, Argentina): geodynamic implications and temporal correlations in the SW Gondwana margin

description: Table S1
DOI: 10.6084/m9.figshare.11298383
title: Fig. 5 fasta alignment used to calculate the NJ tree

description: Alignment data used for figure 5 in https://doi.org/10.1038/s42003-018-0094-7
DOI: 10.6084/m9.figshare.11298383.v1
title: Fig.5 fasta alignment used to calculate the NJ tree

description: Alignment data used for figure 5 in https://doi.org/10.1038/s42003-018-0094-7
DOI: 10.6084/m9.figshare.11298239
title: Fig. 5 NJ tree newick format

description: Raw NJ tree used for the Figure 5 in https://doi.org/10.1038/s42003-018-0094-7
DOI: 10.6084/m9.figshare.11298239.v1
title: Fig. 5 NJ tree newick format

description: Raw NJ tree used for the Figure 5 in https://doi.org/10.1038/s42003-018-0094-7
DOI: 10.6084/m9.figshare.11298218
title: Food supplementation affects gut microbiota and immunological resistance to parasites in a wild bird species

description: <b>Abstract</b>1. Supplemental feeding can increase the overall health of animals but also can have varying consequences for animals dealing with parasites. Furthermore, the mechanism mediating the effect of food supplementation on host-parasite interactions remains poorly understood.2. The goal of the study was to determine the effect of food supplementation on host defenses against parasitic nest flies and whether host gut microbiota, which can affect immunity, potentially mediates these relationships. In a fully crossed design, I experimentally manipulated the abundance of parasitic nest flies (<i>Protocalliphora sialia</i>) and food availability then characterized the gut microbiota, immune responses, and nest parasite abundance of nestling eastern bluebirds (<i>Sialia sialis</i>).3. Food supplemented birds had 75% fewer parasites than unsupplemented birds. Parasite abundance decreased throughout the breeding season for unsupplemented birds, but abundance did not change throughout the season for supplemented birds. Food supplementation increased overall fledging success. Parasitism had a sublethal effects on blood loss, but food supplementation mitigated these effects by increasing parasite resistance via the nestling IgY antibody response.4. Food supplementation increased the gut bacterial diversity in nestlings, which was negatively related to parasite abundance. Food supplementation also increased the relative abundance of <i>Clostridium</i>spp. in nestlings, which was positively related to their antibody response and negatively related to parasite abundance. 5. <i>Synthesis and applications</i>. Overall, these results suggest that food supplementation, especially early in the breeding season, increases resistance to parasitism during the early life stage of the host, which could be mediated by the effect of supplementation on the gut microbiota. Wildlife food supplementation is a common pastime for humans worldwide and therefore it is important to determine the consequences of this activity on animal health. Furthermore, supplemental feeding could induce resistance to detrimental parasites (e.g. invasive parasites) in hosts when management of the parasite is not immediately possible.
DOI: 10.6084/m9.figshare.11298188
title: Metadata record for: A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children

description: This dataset contains key characteristics about the data described in the Data Descriptor A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11298188.v2
title: Metadata record for: A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children

description: This dataset contains key characteristics about the data described in the Data Descriptor A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11298188.v1
title: Metadata record for: A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children

description: This dataset contains key characteristics about the data described in the Data Descriptor A longitudinal neuroimaging dataset on multisensory lexical processing in school-aged children. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.11298134
title: Diagnostic performance of aPS/PT antibodies in neuropsychiatric lupus and cardiovascular complications of systemic lupus erythematosus

description: <b>Background:</b> Systemic lupus erythematosus (SLE) is associated with a constellation of complications affecting multiple organs, including neuropsychiatric manifestations (NPSLE) and ischaemic events, leading to increased long-term morbidity. Antiphospholipid antibodies (aPL) are a major determinant of vascular inflammation and thromboembolic risk. The diagnostic role of anti-phosphatidylserine/prothrombin (aPS/PT) antibodies in this setting is incompletely defined. <b>Aim:</b> To verify whether aPS/PT add to diagnostics and disease stratification in patients with SLE with or without other aPL. <b>Methods:</b> 131 consecutive patients were studied, including 20 patients with SLE and secondary antiphospholipid syndrome (APS). aPS/PT IgG and IgM were assessed through ELISA and patients were stratified based on the presence of other aPL, on their clinical and laboratory features at time of blood sampling and on their clinical history. Synthetic indices of disease activity, chronic damage and cardiovascular risk were calculated at time of venipuncture. <b>Results:</b> Fifty-one (38.9%) patients with SLE had aPS/PT and 15 (11.5%) patients had aPS/PT as the only aPL (aPS/PT-only). aPS/PT-only patients had a significantly higher prevalence of NPSLE than quadruple aPL-negative patients (<i>p</i> = .007). Patients with aPS/PT were more likely to have a history of ischaemia, thrombocytopenia and Libman–Sacks’ endocarditis. The presence of aPS/PT also associated with previous accrual of at least one damage item (<i>p</i> = .043), but had limited predictive values for damage progression in the short term. <b>Conclusion:</b> aPS/PT antibodies provide non-redundant information that could contribute to risk assessment and stratification of patients with SLE.
DOI: 10.6084/m9.figshare.11298134.v2
title: Diagnostic performance of aPS/PT antibodies in neuropsychiatric lupus and cardiovascular complications of systemic lupus erythematosus

description: <b>Background:</b> Systemic lupus erythematosus (SLE) is associated with a constellation of complications affecting multiple organs, including neuropsychiatric manifestations (NPSLE) and ischaemic events, leading to increased long-term morbidity. Antiphospholipid antibodies (aPL) are a major determinant of vascular inflammation and thromboembolic risk. The diagnostic role of anti-phosphatidylserine/prothrombin (aPS/PT) antibodies in this setting is incompletely defined. <b>Aim:</b> To verify whether aPS/PT add to diagnostics and disease stratification in patients with SLE with or without other aPL. <b>Methods:</b> 131 consecutive patients were studied, including 20 patients with SLE and secondary antiphospholipid syndrome (APS). aPS/PT IgG and IgM were assessed through ELISA and patients were stratified based on the presence of other aPL, on their clinical and laboratory features at time of blood sampling and on their clinical history. Synthetic indices of disease activity, chronic damage and cardiovascular risk were calculated at time of venipuncture. <b>Results:</b> Fifty-one (38.9%) patients with SLE had aPS/PT and 15 (11.5%) patients had aPS/PT as the only aPL (aPS/PT-only). aPS/PT-only patients had a significantly higher prevalence of NPSLE than quadruple aPL-negative patients (<i>p</i> = .007). Patients with aPS/PT were more likely to have a history of ischaemia, thrombocytopenia and Libman–Sacks’ endocarditis. The presence of aPS/PT also associated with previous accrual of at least one damage item (<i>p</i> = .043), but had limited predictive values for damage progression in the short term. <b>Conclusion:</b> aPS/PT antibodies provide non-redundant information that could contribute to risk assessment and stratification of patients with SLE.
DOI: 10.6084/m9.figshare.11298134.v1
title: Diagnostic performance of aPS/PT antibodies in neuropsychiatric lupus and cardiovascular complications of SLE

description: <b>Background:</b> Systemic lupus erythematosus (SLE) is associated with a constellation of complications affecting multiple organs, including neuropsychiatric manifestations (NPSLE) and ischaemic events, leading to increased long-term morbidity. Antiphospholipid antibodies (aPL) are a major determinant of vascular inflammation and thromboembolic risk. The diagnostic role of anti-phosphatidylserine/prothrombin (aPS/PT) antibodies in this setting is incompletely defined. <b>Aim:</b> To verify whether aPS/PT add to diagnostics and disease stratification in patients with SLE with or without other aPL. <b>Methods:</b> 131 consecutive patients were studied, including 20 patients with SLE and secondary antiphospholipid syndrome (APS). aPS/PT IgG and IgM were assessed through ELISA and patients were stratified based on the presence of other aPL, on their clinical and laboratory features at time of blood sampling and on their clinical history. Synthetic indices of disease activity, chronic damage and cardiovascular risk were calculated at time of venipuncture. <b>Results:</b> Fifty-one (38.9%) patients with SLE had aPS/PT and 15 (11.5%) patients had aPS/PT as the only aPL (aPS/PT-only). aPS/PT-only patients had a significantly higher prevalence of NPSLE than quadruple aPL-negative patients (<i>p</i> = .007). Patients with aPS/PT were more likely to have a history of ischaemia, thrombocytopenia and Libman–Sacks’ endocarditis. The presence of aPS/PT also associated with previous accrual of at least one damage item (<i>p</i> = .043), but had limited predictive values for damage progression in the short term. <b>Conclusion:</b> aPS/PT antibodies provide non-redundant information that could contribute to risk assessment and stratification of patients with SLE.
DOI: 10.6084/m9.figshare.11298053
title: Synthetic data.zip

description: A simple synthetic dataset for use in training classification algorithms
DOI: 10.6084/m9.figshare.11298056
title: Manipulated synthetic dataset.zip

description: A simple synthetic dataset for use in training classification algorithms-this is the same as the other dataset with the following filters added in ImageJ to simulate scanner noise. Noise: Salt and Pepper; Gaussian Blur of radius 2.0 pixels; Shadow from south (base) of the image<br>
DOI: 10.6084/m9.figshare.11298053.v1
title: Synthetic data.zip

description: A simple synthetic dataset for use in training classification algorithms
DOI: 10.6084/m9.figshare.11297861
title: MECP2 Rettbase genetic variant data in RDF

description: MECP2 genetic variant data from Rettbase described using the Resource Description Framework (RDF) format following the HGVS standard.<br>This resource is FAIR and has been analyzed in combination with other MECP2 genetic variant data enabled by their interoperability.<br>The data was described in RDF following a genetic variant semantic data model (https://github.com/LUMC-BioSemantics/rett-variant) using a general-purpose FAIRifier tool (https://doi.org/10.1162/dint_a_00031) based on the OpenRefine data cleaning and wrangling tool (http://openrefine.org/).<br>The FAIR machine-readable metadata is available at:http://purl.org/biosemantics-lumc/rettbase/fdp<br>