cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5758767
title: Archaeological data tables from North Horr I and II (excavated in 1974, archived in the National Museums of Kenya)

description: This is the complete (transcribed) catalogue of artifacts collected from the surface and excavated from the sites of North Horr I and North Horr II in 1974 by David Phillipson. The data are published with his consent. <br>The collection was re-discovered and digitized in 2014 by David Wright as part of a digitization pilot project at the National Museums of Kenya, funded by the 'Overseas Training Expenses for Humanities' through the College of Humanities Seoul National University (SNU). Archival research on the North Horr collection was conducted with permission from the Office of the President of the Republic of Kenya (permit MO¬HEST 13/001/30C 220) and in collaboration with the National Museums of Kenya Department of Earth Sciences. John Munyiri, in particular, was of invaluable assistance in the project. Richard Purves provided enormous assistance to complete the project's objectives as well.
DOI: 10.6084/m9.figshare.5758767.v1
title: Archaeological data tables from North Horr I and II (excavated in 1974, archived in the National Museums of Kenya)

description: This is the complete (transcribed) catalogue of artifacts collected from the surface and excavated from the sites of North Horr I and North Horr II in 1974 by David Phillipson. The data are published with his consent. <br>The collection was re-discovered and digitized in 2014 by David Wright as part of a digitization pilot project at the National Museums of Kenya, funded by the 'Overseas Training Expenses for Humanities' through the College of Humanities Seoul National University (SNU). Archival research on the North Horr collection was conducted with permission from the Office of the President of the Republic of Kenya (permit MO¬HEST 13/001/30C 220) and in collaboration with the National Museums of Kenya Department of Earth Sciences. John Munyiri, in particular, was of invaluable assistance in the project. Richard Purves provided enormous assistance to complete the project's objectives as well.
DOI: 10.6084/m9.figshare.5758737
title: Integrative taxonomy approach for analysing evolutionary history of the tribe Euseiini Chant & McMurtry (Acari: Phytoseiidae)

description: Phylogenetic relationships within the mite Family Phytoseiidae are little known. The presently accepted classification is based on the opinion of specialists, but not on cladistics analysis. The present paper focuses on the tribe Euseiini, containing 271 species, three subtribes and 10 genera. It aims to determine phylogenetic relationships between these taxa and test their monophyly. Molecular analysis combining six markers has been carried out for taxa we succeeded in collecting. Morphological, biogeographic and ecological data have been analysed to determine how these factors can explain the evolutionary relationships emphasized on the phylogenetic tree. Those analyses have been carried out for the taxa available for the molecular study, but also for all species of the tribe. The tribe Euseiini and the two subtribes considered are monophyletic (at least considering the available taxa), supporting the present hypothesis on Phytoseiidae classification. However, the genus <i>Iphiseius</i> seems to not be valid and its unique species is included in the genus <i>Euseius</i>. Clades that were observed within the genus <i>Euseius</i> do not match with recent work on species groups within this genus. It seems that some morphological features such as an insemination apparatus shape and seta length on the dorsal shield constitute some elements explaining the clusters within the genus <i>Euseius</i>. Biogeographic and ecological data analysis led us to hypothesize a west Gondwanian origin of the tribe Euseiini (Africa and Neotropical areas) on Rosids plants (especially of the Orders Malpiphiales and Fabales: subclass Fabidae). Further analyses are still required to (i) take into account more taxa (especially rare ones and species from the Ethiopian part), (ii) to consider more accurate morphological features through more powerful microscopic apparatus, and (iii) to associate a phylogenetic and evolutionary scenario to life traits (pollen feeders).
DOI: 10.6084/m9.figshare.5758737.v1
title: Integrative taxonomy approach for analysing evolutionary history of the tribe Euseiini Chant & McMurtry (Acari: Phytoseiidae)

description: Phylogenetic relationships within the mite Family Phytoseiidae are little known. The presently accepted classification is based on the opinion of specialists, but not on cladistics analysis. The present paper focuses on the tribe Euseiini, containing 271 species, three subtribes and 10 genera. It aims to determine phylogenetic relationships between these taxa and test their monophyly. Molecular analysis combining six markers has been carried out for taxa we succeeded in collecting. Morphological, biogeographic and ecological data have been analysed to determine how these factors can explain the evolutionary relationships emphasized on the phylogenetic tree. Those analyses have been carried out for the taxa available for the molecular study, but also for all species of the tribe. The tribe Euseiini and the two subtribes considered are monophyletic (at least considering the available taxa), supporting the present hypothesis on Phytoseiidae classification. However, the genus <i>Iphiseius</i> seems to not be valid and its unique species is included in the genus <i>Euseius</i>. Clades that were observed within the genus <i>Euseius</i> do not match with recent work on species groups within this genus. It seems that some morphological features such as an insemination apparatus shape and seta length on the dorsal shield constitute some elements explaining the clusters within the genus <i>Euseius</i>. Biogeographic and ecological data analysis led us to hypothesize a west Gondwanian origin of the tribe Euseiini (Africa and Neotropical areas) on Rosids plants (especially of the Orders Malpiphiales and Fabales: subclass Fabidae). Further analyses are still required to (i) take into account more taxa (especially rare ones and species from the Ethiopian part), (ii) to consider more accurate morphological features through more powerful microscopic apparatus, and (iii) to associate a phylogenetic and evolutionary scenario to life traits (pollen feeders).
DOI: 10.6084/m9.figshare.5758734
title: An integrative assessment of the taxonomic status of putative hybrid leopard frogs (Anura: Ranidae) from the Chortís Highlands of Central America, with description of a new species

description: Integrative taxonomy seeks to approach the complex topic of species diagnosis using independent, complementary lines of evidence. Despite their ubiquity throughout North and Central America, taxonomy of the American leopard frogs (Anura: Ranidae: <i>Rana</i>: subgenus <i>Pantherana</i>) remains largely unresolved, and this is arguably nowhere truer than in the Central American country of Honduras, where there are two nominal species, the taxonomy of which remains unresolved. Leopard frogs from several mountainous areas along the continental divide in Honduras have previously been considered putative hybrids between <i>Rana brownorum</i> and <i>R.</i> cf. <i>forreri</i>, as opposed to two alternate hypotheses: one that they represent a high-altitude eco-morph of a single widespread species that included both lowland forms, or a second that there is an undescribed highland species distinct from either of the recognized lowland forms. We examine this set of hypotheses using three independent lines of evidence. First, we used species distribution modelling to examine potential geographic isolation of the highland form and the two putative parental lowland species, and found strong ecological separation between the highland and lowland forms. Second, mitochondrial and nuclear DNA supports the distinction of the highland form from both putative parental species, with mtDNA data refuting the hypothesis that representatives of either species may represent a matrilineal founder. Morphologically, the highland form is significantly smaller than, and otherwise readily differentiated from, both <i>R. brownorum</i> and <i>R.</i> cf. <i>forreri</i>, as well as all other <i>Rana</i> found in Honduras and adjacent areas. As a result, we formally describe the highland leopard frog as a new species. http://zoobank.org/urn:lsid:zoobank.org:pub:BE53F587-3618-4433-9651-E495808E5474
DOI: 10.6084/m9.figshare.5758734.v1
title: An integrative assessment of the taxonomic status of putative hybrid leopard frogs (Anura: Ranidae) from the Chortís Highlands of Central America, with description of a new species

description: Integrative taxonomy seeks to approach the complex topic of species diagnosis using independent, complementary lines of evidence. Despite their ubiquity throughout North and Central America, taxonomy of the American leopard frogs (Anura: Ranidae: <i>Rana</i>: subgenus <i>Pantherana</i>) remains largely unresolved, and this is arguably nowhere truer than in the Central American country of Honduras, where there are two nominal species, the taxonomy of which remains unresolved. Leopard frogs from several mountainous areas along the continental divide in Honduras have previously been considered putative hybrids between <i>Rana brownorum</i> and <i>R.</i> cf. <i>forreri</i>, as opposed to two alternate hypotheses: one that they represent a high-altitude eco-morph of a single widespread species that included both lowland forms, or a second that there is an undescribed highland species distinct from either of the recognized lowland forms. We examine this set of hypotheses using three independent lines of evidence. First, we used species distribution modelling to examine potential geographic isolation of the highland form and the two putative parental lowland species, and found strong ecological separation between the highland and lowland forms. Second, mitochondrial and nuclear DNA supports the distinction of the highland form from both putative parental species, with mtDNA data refuting the hypothesis that representatives of either species may represent a matrilineal founder. Morphologically, the highland form is significantly smaller than, and otherwise readily differentiated from, both <i>R. brownorum</i> and <i>R.</i> cf. <i>forreri</i>, as well as all other <i>Rana</i> found in Honduras and adjacent areas. As a result, we formally describe the highland leopard frog as a new species. http://zoobank.org/urn:lsid:zoobank.org:pub:BE53F587-3618-4433-9651-E495808E5474
DOI: 10.6084/m9.figshare.5758668
title: Clinician preferences

description: Data used for analysis
DOI: 10.6084/m9.figshare.5758662
title: Combined cohort

description: Combined cohort data for manuscript
DOI: 10.6084/m9.figshare.5758662.v1
title: Combined cohort

description: Combined cohort data for manuscript
DOI: 10.6084/m9.figshare.5758644.v1
title: Naive Bayes Skin Sensitization Model

description: KNIME workflow for prediction of human skin sensitization using a Naive Bayes model developed with human, animal, and non-animal data sources.
DOI: 10.6084/m9.figshare.5758572
title: Testing for Slope Heterogeneity Bias in Panel Data Models

description: Standard econometric methods can overlook individual heterogeneity in empirical work, generating inconsistent parameter estimates in panel data models. We propose the use of methods that allow researchers to easily identify, quantify, and address estimation issues arising from individual slope heterogeneity. We first characterize the bias in the standard fixed effects estimator when the true econometric model allows for heterogeneous slope coefficients. We then introduce a new test to check whether the fixed effects estimation is subject to heterogeneity bias. The procedure tests the population moment conditions required for fixed effects to consistently estimate the relevant parameters in the model. We establish the limiting distribution of the test and show that it is very simple to implement in practice. Examining firm investment models to showcase our approach, we show that heterogeneity bias-robust methods identify cash flow as a more important driver of investment than previously reported. Our study demonstrates analytically, via simulations, and empirically the importance of carefully accounting for individual specific slope heterogeneity in drawing conclusions about economic behavior.
DOI: 10.6084/m9.figshare.5758572.v1
title: Testing for Slope Heterogeneity Bias in Panel Data Models<sup>*</sup>

description: Standard econometric methods can overlook individual heterogeneity in empirical work, generating inconsistent parameter estimates in panel data models. We propose the use of methods that allow researchers to easily identify, quantify, and address estimation issues arising from individual slope heterogeneity. We first characterize the bias in the standard fixed effects estimator when the true econometric model allows for heterogeneous slope coefficients. We then introduce a new test to check whether the fixed effects estimation is subject to heterogeneity bias. The procedure tests the population moment conditions required for fixed effects to consistently estimate the relevant parameters in the model. We establish the limiting distribution of the test, and show that it is very simple to implement in practice. Examining firm investment models to showcase our approach, we show that heterogeneity bias-robust methods identify cash flow as a more important driver of investment than previously reported. Our study demonstrates analytically, via simulations, and empirically the importance of carefully accounting for individual specific slope heterogeneity in drawing conclusions about economic behavior.
DOI: 10.6084/m9.figshare.5758572.v3
title: Testing for Slope Heterogeneity Bias in Panel Data Models

description: Standard econometric methods can overlook individual heterogeneity in empirical work, generating inconsistent parameter estimates in panel data models. We propose the use of methods that allow researchers to easily identify, quantify, and address estimation issues arising from individual slope heterogeneity. We first characterize the bias in the standard fixed effects estimator when the true econometric model allows for heterogeneous slope coefficients. We then introduce a new test to check whether the fixed effects estimation is subject to heterogeneity bias. The procedure tests the population moment conditions required for fixed effects to consistently estimate the relevant parameters in the model. We establish the limiting distribution of the test and show that it is very simple to implement in practice. Examining firm investment models to showcase our approach, we show that heterogeneity bias-robust methods identify cash flow as a more important driver of investment than previously reported. Our study demonstrates analytically, via simulations, and empirically the importance of carefully accounting for individual specific slope heterogeneity in drawing conclusions about economic behavior.
DOI: 10.6084/m9.figshare.5758572.v2
title: Testing for Slope Heterogeneity Bias in Panel Data Models

description: Standard econometric methods can overlook individual heterogeneity in empirical work, generating inconsistent parameter estimates in panel data models. We propose the use of methods that allow researchers to easily identify, quantify, and address estimation issues arising from individual slope heterogeneity. We first characterize the bias in the standard fixed effects estimator when the true econometric model allows for heterogeneous slope coefficients. We then introduce a new test to check whether the fixed effects estimation is subject to heterogeneity bias. The procedure tests the population moment conditions required for fixed effects to consistently estimate the relevant parameters in the model. We establish the limiting distribution of the test and show that it is very simple to implement in practice. Examining firm investment models to showcase our approach, we show that heterogeneity bias-robust methods identify cash flow as a more important driver of investment than previously reported. Our study demonstrates analytically, via simulations, and empirically the importance of carefully accounting for individual specific slope heterogeneity in drawing conclusions about economic behavior.
DOI: 10.6084/m9.figshare.5758542
title: Persistence Terrace for Topological Inference of Point Cloud Data

description: Topological data analysis (TDA) is a rapidly developing collection of methods for studying the shape of point cloud and other data types. One popular approach, designed to be robust to noise and outliers, is to first use a smoothing function to convert the point cloud into a manifold and then apply persistent homology to a Morse filtration. A significant challenge is that this smoothing process involves the choice of a parameter and persistent homology is highly sensitive to that choice; moreover, important scale information is lost. We propose a novel topological summary plot, called a persistence terrace, that incorporates a wide range of smoothing parameters and is robust, multi-scale, and parameter-free. This plot allows one to isolate distinct topological signals that may have merged for any fixed value of the smoothing parameter, and it also allows one to infer the size and point density of the topological features. We illustrate our method in some simple settings where noise is a serious issue for existing frameworks and then we apply it to a real dataset by counting muscle fibers in a cross-sectional image. Supplementary material for this article is available online.
DOI: 10.6084/m9.figshare.5758542.v1
title: Persistence Terrace for Topological Inference of Point Cloud Data

description: Topological data analysis (TDA) is a rapidly developing collection of methods for studying the shape of point cloud and other data types. One popular approach, designed to be robust to noise and outliers, is to first use a smoothing function to convert the point cloud into a manifold and then apply persistent homology to a Morse filtration. A significant challenge is that this smoothing process involves the choice of a parameter and persistent homology is highly sensitive to that choice; moreover, important scale information is lost. We propose a novel topological summary plot, called a persistence terrace, that incorporates a wide range of smoothing parameters and is robust, multi-scale, and parameter-free. This plot allows one to isolate distinct topological signals that may have merged for any fixed value of the smoothing parameter, and it also allows one to infer the size and point density of the topological features. We illustrate our method in some simple settings where noise is a serious issue for existing frameworks and then we apply it to a real dataset by counting muscle fibers in a cross-sectional image. Supplementary material for this article is available online.
DOI: 10.6084/m9.figshare.5758539
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v1
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v2
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v3
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v4
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v6
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758539.v5
title: Simulation Datasets for Evaluation

description: Simulation datasets used for performance evaluation in SViCT (Structural Variant detrction in Circulating Tumor DNA).
DOI: 10.6084/m9.figshare.5758452
title: Comparable nutrient uptake across diel cycles from three distinct algal communities

description: Three algal communities cultured from inocula sourced from geographically distinct locations within the continental United States were maintained under identical sequencing-batch growth conditions in photobioreactors and sampled over 82 days. Communities were sequenced via both V4 and V8-V9 18S rRNA gene sequencing. Mothur and R were used to analyze sequencing data and to describe and compare community dynamics within and between communities. This project includes both mothur and R script files used to analyze the data.
DOI: 10.6084/m9.figshare.5758452.v1
title: Comparable nutrient uptake across diel cycles from three distinct algal communities

description: Three algal communities cultured from inocula sourced from geographically distinct locations within the continental United States were maintained under identical sequencing-batch growth conditions in photobioreactors and sampled over 82 days. Communities were sequenced via both V4 and V8-V9 18S rRNA gene sequencing. Mothur and R were used to analyze sequencing data and to describe and compare community dynamics within and between communities. This project includes both mothur and R script files used to analyze the data.
DOI: 10.6084/m9.figshare.5756523
title: Jean-Claude Bradley Double Plus Good Dataset - ONSMP029

description: 2706 highly curated double+ validated (range: 0.1-5 C) unique compounds (7413 total measurements from Jean-Claude Bradley's Open Melting Point Data filtered with compounds that had at least one chiral center, possessed cis/trans isomerism, were inorganic or a salt removed. ONSChallenge wiki reference - <strong>ONSMP029</strong>
DOI: 10.6084/m9.figshare.5756520
title: dataset_minimal.zip

description: A samples IDS dataset
DOI: 10.6084/m9.figshare.5756514
title: American Geophysical Union Annual Meeting Tweets 2017

description: Archive of ~32k tweets posted between November 4, 2017 and January 4, 2017 with the hashtag #AGU17. Retrieved using TAGS v6.1.7 (http://tags.hawksey.info)
DOI: 10.6084/m9.figshare.5756448
title: Data of subjective wave motion score vs objective assessment

description: Subjective motion score was assessed for a series of ram ejaculates and compared to objective assessment by optical flow method and beads motion. The data are organised in two separated excel sheets for optical flow and beads motion.<br>
DOI: 10.6084/m9.figshare.5756448.v1
title: Data of subjective wave motion score vs objective assessment

description: Subjective motion score was assessed for a series of ram ejaculates and compared to objective assessment by optical flow method and beads motion. The data are organised in two separated excel sheets for optical flow and beads motion.<br>