cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9880073
title: Dataset on occurrences of Lycopersicum species from Peru

description: This information corresponds to a cleaned-up set of presence data of tomato species and their wild relatives collected in Peru, obtained after searching in Solanaceae databases on websites such as Solanum source, Genesys and incorporating the database of the national collection of INIA-Peru. Occurrences were checked with GIS software so passport data corresponded to coordinate data; coordinate replicates were eliminated as well. This dataset was obtained in the process of gap analysis in order to identify priority sites for further collection within Peru. <br>
DOI: 10.6084/m9.figshare.9880076
title: Landscape-scale habitat response of African elephants shows strong selection for foraging opportunities in a human dominated ecosystem.

description: Data associated with: Bastille-Rousseau, G. et al. 2019. Data from: Landscape-scale habitat response of African elephants shows strong selection for foraging opportunities in a human dominated ecosystem. Ecography
DOI: 10.6084/m9.figshare.9880076.v1
title: Landscape-scale habitat response of African elephants shows strong selection for foraging opportunities in a human dominated ecosystem.

description: Data associated with: Bastille-Rousseau, G. et al. 2019. Data from: Landscape-scale habitat response of African elephants shows strong selection for foraging opportunities in a human dominated ecosystem. Ecography
DOI: 10.6084/m9.figshare.9880073.v1
title: Dataset on occurrences of Lycopersicum species from Peru

description: This information corresponds to a cleaned-up set of presence data of tomato species and their wild relatives collected in Peru, obtained after searching in Solanaceae databases on websites such as Solanum source, Genesys and incorporating the database of the national collection of INIA-Peru. Occurrences were checked with GIS software so passport data corresponded to coordinate data; coordinate replicates were eliminated as well. This dataset was obtained in the process of gap analysis in order to identify priority sites for further collection within Peru. <br>
DOI: 10.6084/m9.figshare.9880016
title: PCA shape constructs

description: For each facial segment (organized by level and cluster), this dataset contains the principal component analysis information for each vertex within that segment. In conjunction with the ExploringDataFeatures.m script, these principal component constructs can be used to project a given landmark shape into the principal component shape space.
DOI: 10.6084/m9.figshare.9880016.v1
title: PCA shape constructs

description: For each facial segment (organized by level and cluster), this dataset contains the principal component analysis information for each vertex within that segment. In conjunction with the given script, these principal component constructs can be used to project a given landmark shape into the principal component shape space.
DOI: 10.6084/m9.figshare.9879881.v1
title: The evolving impact of global, region-specific and country-specific uncertainty*

description: We develop a dynamic factor model with time-varying parameters and stochastic volatility, estimate it using a large panel of macroeconomic and financial data for 22 countries and decompose the variance of each variable in terms of contributions from uncertainty common to all countries (‘global uncertainty’), region-specific uncertainty and country-specific uncertainty. Among other findings, the estimates suggest that global uncertainty plays a primary role in explaining the volatility of inflation, interest rates and stock prices, although to a varying extent over time, while all uncertainty components are found to play a non-negligible role for real economic activity, credit and money for most countries.
DOI: 10.6084/m9.figshare.9879884.v1
title: Gaussian processes and Bayesian moment estimation*

description: Given a set of moment restrictions (MRs) that overidentify a parameter <i>θ</i>, we investigate a semiparametric Bayesian approach for inference on <i>θ</i> that does not restrict the data distribution <i>F</i> apart from the MRs. As main contribution, we construct a degenerate Gaussian process prior that, conditionally on <i>θ</i>, restricts the <i>F</i> generated by this prior to satisfy the MRs with probability one. Our prior works even in the more involved case where the number of MRs is larger than the dimension of <i>θ</i>. We demonstrate that the corresponding posterior for <i>θ</i> is computationally convenient. Moreover, we show that there exists a link between our procedure, the Generalized Empirical Likelihood with quadratic criterion and the limited information likelihood-based procedures. We provide a frequentist validation of our procedure by showing consistency and asymptotic normality of the posterior distribution of <i>θ</i>. The finite sample properties of our method are illustrated through Monte Carlo experiments and we provide an application to demand estimation in the airline market.
DOI: 10.6084/m9.figshare.9879857.v1
title: A framework for separating individual-level treatment effects from spillover effects

description: This paper suggests a causal framework for separating individual-level treatment effects and spillover effects such as general equilibrium, interference, or interaction effects related to treatment distribution. We relax the Stable Unit Treatment Value Assumption (SUTVA) assuming away treatment-dependent interaction between study participants and permit spillover effects within aggregates, e.g. regions. Based on our framework, we systematically categorize the individual-level and spillover effects considered in the previous literature and clarify the assumptions required for identification under different designs, for instance based on randomization or selection on observables. Furthermore, we propose a novel difference-in-differences approach and apply it to a policy intervention extending unemployment benefit durations in selected regions of Austria that arguably affected ineligibles in treated regions through general equilibrium effects in local labor markets.
DOI: 10.23645/epacomptox.9879731
title: Database of pharmacokinetic time-series data and parameters for 144 environmental chemicals

description: Time courses of compound concentrations in plasma are used in chemical safety analysis to evaluate the relationship between external administered doses and internal tissue exposures. This type of experimental data is rarely available for the thousands of non-pharmaceutical chemicals to which people may potentially be unknowingly exposed but is necessary to properly assess the risk of such exposures. In vitro assays and in silico models are often used to craft an understanding of a chemical’s pharmacokinetics; however, the certainty of the quantitative application of these estimates for chemical safety evaluations cannot be determined without in vivo data for external validation. To address this need, we present a public database of chemical time-series concentration data from 567 studies in humans or test animals for 144 environmentally-relevant chemicals and their metabolites (187 analytes total). All major administration routes are incorporated, with concentrations measured in blood/plasma, tissues, and excreta . We also include calculated pharmacokinetic parameters for some studies, and a bibliography of additional source documents to support future extraction of time-series. In addition to pharmacokinetic model calibration and validation, these data may be used for analyses of differential chemical distribution across chemicals, species, doses, or routes, and for meta-analyses on pharmacokinetic studies.
DOI: 10.6084/m9.figshare.9879725
title: Just oaks, a phylogenetic data collection

description: A collection of phylogenetic data on oaks and accompanying graphics.<br><br>The 7z-archives include NEXUS-formatted phylogenetic matrices (subfolder "analysis"; see ReadMe.txt for labelling conventions) and tabulated data (xlsx spreadsheet files)<br>CerrisEAsia.7z—chloroplast sequence data on East Asian members of sect. <i>Cerris </i>(subg. <i>Cerris</i>). The figures show a bird's eye view of the entire <i>trnH-psbA</i> alignment and the full Median network (fMNet) based on these data. For more information, see this Res.I.P. post <br><br><b>Note: </b>This is work in progress and may undergo frequent updates.<br><br>
DOI: 10.25380/iastate.9879716
title: Random Forest Analysis to Identify Invasive Carp from the Upper Mississippi River, Iowa

description: Data set and Random Forest R code used to predict fish egg identification based on morphological characteristics. This data and analysis was used in the following publication:<br>Camacho, C.A., C. J. Sullivan, M. J. Weber, and C. L. Pierce. 2019. Morphological Identification of Bighead Carp, Silver Carp, and Grass Carp Eggs Using Random Forests Machine Learning Classification<i>. North American Journal of Fisheries Management</i> 39: 1373 – 1384. DOI: https://doi.org/10.1002/nafm.10380 <br>
DOI: 10.25380/iastate.9879716.v1
title: Random Forest Analysis to Identify Invasive Carp from the Upper Mississippi River, Iowa

description: Data set and Random Forest R code used to predict fish egg identification based on morphological characteristics. This data and analysis was used in the following publication:<br>Camacho, C.A., C. J. Sullivan, M. J. Weber, and C. L. Pierce. 2019. Morphological Identification of Bighead Carp, Silver Carp, and Grass Carp Eggs Using Random Forests Machine Learning Classification<i>. North American Journal of Fisheries Management</i> 39: 1373 – 1384. DOI: https://doi.org/10.1002/nafm.10380 <br>
DOI: 10.6084/m9.figshare.9879725.v1
title: Just oaks, a phylogenetic data collection

description: A collection of phylogenetic data on oaks and accompanying graphics.<br><br>The 7z-archives include NEXUS-formatted phylogenetic matrices (subfolder "analysis"; see ReadMe.txt for labelling conventions) and tabulated data (xlsx spreadsheet files)<br>CerrisEAsia.7z—chloroplast sequence data on East Asian members of sect. <i>Cerris </i>(subg. <i>Cerris</i>). The figures show a bird's eye view of the entire <i>trnH-psbA</i> alignment and the full Median network (fMNet) based on these data. For more information, see this Res.I.P. post <br><br><b>Note: </b>This is work in progress and may undergo frequent updates.<br><br>
DOI: 10.6084/m9.figshare.9879635
title: Dataset 1 NLRX1 expression data used in Fig 1

description: Dataset 1 NLRX1 expression data used in Fig 1
DOI: 10.6084/m9.figshare.9879632
title: Dataset 2 in vivo CFU cytokine and general marker data in sham and upon 24h and 48h infection used in Fig 2, Fig 3 and Fig S1

description: Dataset 2 in vivo CFU cytokine and general marker data in sham and upon 24h and 48h infection used in Fig 2, Fig 3 and Fig S1
DOI: 10.6084/m9.figshare.9879629
title: Dataset 3 ex vivo cytokine data used in Fig 4

description: Dataset 3 ex vivo cytokine data used in Fig 4
DOI: 10.6084/m9.figshare.9879620
title: Dataset 4 ex vivo FACS output data on Leukocyte composition used in Fig 3

description: Dataset 4 ex vivo FACS output data on Leukocyte composition used in Fig 3
DOI: 10.6084/m9.figshare.9879629.v1
title: Dataset 3 ex vivo cytokine data used in Fig 4

description: Dataset 3 ex vivo cytokine data used in Fig 4
DOI: 10.5522/04/9879614
title: Lake Tanganyika eDNA Metabarcoding Study: Visual Survey Data

description: Visual survey community data for Lake Tanganyika's littoral fish species. Surveys represent underwater visual surveys undertaken at depths of 5 and 10 metres within the littoral habitat. Surveys were undertaken across 21 sites with ten surveys undertaken at each site. Surveys were undertaken within 2016 and 2017. For further information including survey design and site GPS locations see:<br>Doble C. J, Hipperson H, Salzburger W, Horsburgh G, Mwita C, Murrell D. J and Day J. J. (Accepted) Testing the performance of environmental DNA metabarcoding for surveying highly diverse tropical fish communities: A case study from Lake Tanganyika. Environmental DNA
DOI: 10.6084/m9.figshare.9879620.v1
title: Dataset 4 ex vivo FACS output data on Leukocyte composition used in Fig 3

description: Dataset 4 ex vivo FACS output data on Leukocyte composition used in Fig 3
DOI: 10.6084/m9.figshare.9879632.v1
title: Dataset 2 in vivo CFU cytokine and general marker data in sham and upon 24h and 48h infection used in Fig 2, Fig 3 and Fig S1

description: Dataset 2 in vivo CFU cytokine and general marker data in sham and upon 24h and 48h infection used in Fig 2, Fig 3 and Fig S1
DOI: 10.5522/04/9879614.v1
title: Lake Tanganyika eDNA Metabarcoding Study: Visual Survey Data

description: Visual survey community data for Lake Tanganyika's littoral fish species. Surveys represent underwater visual surveys undertaken at depths of 5 and 10 metres within the littoral habitat. Surveys were undertaken across 21 sites with ten surveys undertaken at each site. Surveys were undertaken within 2016 and 2017. For further information including survey design and site GPS locations see:<br>Doble C. J, Hipperson H, Salzburger W, Horsburgh G, Mwita C, Murrell D. J and Day J. J. (Accepted) Testing the performance of environmental DNA metabarcoding for surveying highly diverse tropical fish communities: A case study from Lake Tanganyika. Environmental DNA
DOI: 10.6084/m9.figshare.9879611
title: Dataset 5 ex vivo FACS output data on granuocyte and monocyte fagocytosis used in Fig 4

description: Dataset 5 ex vivo FACS output data on granuocyte and monocyte fagocytosis used in Fig 4
DOI: 10.6084/m9.figshare.9879611.v1
title: Dataset 5 ex vivo FACS output data on granuocyte and monocyte fagocytosis used in Fig 4

description: Dataset 5 ex vivo FACS output data on granuocyte and monocyte fagocytosis used in Fig 4
DOI: 10.6084/m9.figshare.9879596
title: Metadata record for: Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults

description: This dataset contains key characteristics about the data described in the Data Descriptor Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults. <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.9879596.v2
title: Metadata record for: Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults

description: This dataset contains key characteristics about the data described in the Data Descriptor Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults. <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.9879596.v1
title: Metadata record for: Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults

description: This dataset contains key characteristics about the data described in the Data Descriptor Upper limb activity of twenty myoelectric prosthesis users and twenty healthy anatomically intact adults. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.9879455
title: Dataset 6 in vivo CFU data 4,8,24,48h

description: Dataset 6 in vivo CFU data 4,8,24,48h
DOI: 10.6084/m9.figshare.9879473
title: refined input-output data for China's six megacities

description: a refined input-output table including China's six megacities, as well as water data.<br>
DOI: 10.6084/m9.figshare.9879455.v1
title: Dataset 6 in vivo CFU data 4,8,24,48h

description: Dataset 6 in vivo CFU data 4,8,24,48h
DOI: 10.6084/m9.figshare.9879473.v1
title: refined input-output data for China's six megacities

description: a refined input-output table including China's six megacities, as well as water data.<br>
DOI: 10.6084/m9.figshare.9879368
title: Supplementary Material for: Histologic Features of Secondary Syphilis

description: <b><i>Background:</i></b> Secondary syphilis is a sexually transmitted infection, which is referred to as “the great imitator” and has a wide spectrum of clinical manifestations. As a result, it is essential to identify potential secondary syphilis patients with ambiguous clinical manifestation through pathology. <b><i>Objective:</i></b> We sought to analyze the pathological features of secondary syphilis. <b><i>Methods:</i></b> We analyzed 59 biopsy specimens from 56 patients with secondary syphilis. Cases were classified according to the histological characteristics and clinical features. <b><i>Results:</i></b> Necrotic keratinocytes could be observed in 39 of 59 (66.1%) secondary specimens. Plasma cells (86.4%) were the most common finding overall. The presence of <i>Treponema pallidum</i> was detected mostly at the dermal-epidermal junction. There was no statistical significance between pathological features and age, HIV status, or RPR titer. <b><i>Conclusions:</i></b> Necrotic keratinocytes are one of the characteristics of secondary syphilis. The combination of plasma cells, irregular acanthosis, elongated rete ridges, and endothelial swelling should increase the likelihood of syphilis.
DOI: 10.6084/m9.figshare.9879341
title: test2

description: test2
DOI: 10.6084/m9.figshare.9879344
title: test

description: test
DOI: 10.6084/m9.figshare.9879368.v1
title: Supplementary Material for: Histologic Features of Secondary Syphilis

description: <b><i>Background:</i></b> Secondary syphilis is a sexually transmitted infection, which is referred to as “the great imitator” and has a wide spectrum of clinical manifestations. As a result, it is essential to identify potential secondary syphilis patients with ambiguous clinical manifestation through pathology. <b><i>Objective:</i></b> We sought to analyze the pathological features of secondary syphilis. <b><i>Methods:</i></b> We analyzed 59 biopsy specimens from 56 patients with secondary syphilis. Cases were classified according to the histological characteristics and clinical features. <b><i>Results:</i></b> Necrotic keratinocytes could be observed in 39 of 59 (66.1%) secondary specimens. Plasma cells (86.4%) were the most common finding overall. The presence of <i>Treponema pallidum</i> was detected mostly at the dermal-epidermal junction. There was no statistical significance between pathological features and age, HIV status, or RPR titer. <b><i>Conclusions:</i></b> Necrotic keratinocytes are one of the characteristics of secondary syphilis. The combination of plasma cells, irregular acanthosis, elongated rete ridges, and endothelial swelling should increase the likelihood of syphilis.
DOI: 10.6084/m9.figshare.9879326
title: Reference quantitative phase microscopy images of spherical objects

description: Reference quantitative phase microscopy images of spherical objects<br><br>These data serve as reference datasets for the analysis of spherical objects in quantitative phase imaging and are part of the tutorials one through three of the analysis software DryMass [1].<br><br><br>DHM_HL60_cells.zip:<br>Digital holograms of HL60 cells. Please refer to the readme.txt file inside the zip file for more information. The zip file also contains roi_slices.txt which holds the ROIs of all usable cells for analysis with DryMass.<br><br><br>QLSI_PAA_beads.zip:<br>Quantitative phase images of polyacrylamide beads. Please refer to the readme.txt file inside the zip file for more information.<br><br><br>QLSR_PAA_beads_modified.h5:<br>Modified bead images (from QLSI_PAA_beads.zip) to demonstrate background correction capabilities of DryMass. The data are stored in the hdf5-based qpimage [2] file format.<br><br><br>References:<br>[1] https://drymass.readthedocs.io<br>[2] https://qpimage.readthedocs.io<br><br><br>SHA256 sums:<br>7d14fb24c332431fd6d7afb522befa99261c0a91399287782b63a949c6c4afdb DHM_HL60_cells.zip<br>b54775b2de8be9cf5332fb6dc779f38d05bde045d58177a47cf716f2139ee8a5 QLSI_PAA_beads.zip<br>d9ed2bfd2850d441f68d81dee3c846c103b15e6e83252315963a07042d138511 QLSR_PAA_beads_modified.h5<br><br><br>license: CC0<br>These data are dedicated to the public domain. You can copy, modify, or distribute them without asking permission.<br><br>
DOI: 10.6084/m9.figshare.9879284
title: Circulating microRNAs in human obesity: a systematic review

description: <b>Context:</b> Differential expression profiles of microRNAs have been reported in human obesity suggesting a miRNAs role in the development of obesity and associated disorders. <b>Objective:</b> To review circulating microRNAs (c-miRNAs) dysregulated in human obesity and to predict their possible target genes. <b>Methods:</b> We performed a systematic review on PubMed database (PROSPERO, CRD42017077742) for original works on c-miRNAs and human obesity and recorded c-miRNAs with differential expression profiles. Potential target genes and metabolic pathways for dysregulated miRNAs with at least two independent reports were searched using bioinformatic tools. <b>Results:</b> Twenty-two c-miRNAs are overexpressed, nine underexpressed and two c-miRNAs dysregulated in both directions in people with obesity compared to lean controls. Bioinformatic analyses suggest these c-miRNAs target on genes associated with fatty acid metabolism and PI3k/Akt pathway. <b>Conclusion:</b> Literature records 33 c-miRNAs confirmedly dysregulated in human obesity. Their predicted target genes are involved in pathways that could explain the development of obesity and its comorbidities. Further research will clarify the role of these miRNAs on metabolic diseases and their usefulness for the prognosis, prevention and treatment of obesity.
DOI: 10.6084/m9.figshare.9879344.v1
title: System requirements and descriptions

description: System requirements and descriptions
DOI: 10.6084/m9.figshare.9879284.v1
title: Circulating microRNAs in human obesity: a systematic review

description: <b>Context:</b> Differential expression profiles of microRNAs have been reported in human obesity suggesting a miRNAs role in the development of obesity and associated disorders. <b>Objective:</b> To review circulating microRNAs (c-miRNAs) dysregulated in human obesity and to predict their possible target genes. <b>Methods:</b> We performed a systematic review on PubMed database (PROSPERO, CRD42017077742) for original works on c-miRNAs and human obesity and recorded c-miRNAs with differential expression profiles. Potential target genes and metabolic pathways for dysregulated miRNAs with at least two independent reports were searched using bioinformatic tools. <b>Results:</b> Twenty-two c-miRNAs are overexpressed, nine underexpressed and two c-miRNAs dysregulated in both directions in people with obesity compared to lean controls. Bioinformatic analyses suggest these c-miRNAs target on genes associated with fatty acid metabolism and PI3k/Akt pathway. <b>Conclusion:</b> Literature records 33 c-miRNAs confirmedly dysregulated in human obesity. Their predicted target genes are involved in pathways that could explain the development of obesity and its comorbidities. Further research will clarify the role of these miRNAs on metabolic diseases and their usefulness for the prognosis, prevention and treatment of obesity.
DOI: 10.6084/m9.figshare.9879344.v3
title: test

description: test