cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6231716
title: Rux largely restores lungs in Iraq PM-exposed mice, Up-regulating regulatory T-cells (Tregs)

description: <b>Background</b> Military personnel post-deployment to Iraq and Afghanistan have noted new-onset respiratory illness. This study's primary objective was to further develop an animal model of Iraq Afghanistan War Lung Injury (IAW-LI) and to test a novel class of anti-injury drug called RuX. <b>Methods</b> Particulate Matter (PM) samples were obtained in Iraq then characterized by spectromicroscopy. C57BL/6 mice underwent orotracheal instillation with PM, followed by drinkable treatment with RuX. Lung histology, inspiratory capacity (FlexiVent), thymic/splenic regulatory T cell (Treg) number, and whole-lung genomics were analyzed. <b>Results</b> Tracheal instillation of Iraq PM led to lung septate thickening and lymphocytic inflammation. PM-exposed mice had suppression of thymic/splenic regulatory T-cells (Tregs). Drinking RuX after PM exposure attenuated the histologic lung injury response, improved lung inspiratory capacity, and increased Tregs. Pooled whole lung genomics suggest differences among gene expression of IL-15 among control, PM, and PM + RuX groups. <b>Conclusions</b> RuX, a ruthenium and alpha-lipoic acid complex, attenuates lung injury by improving histology and inspiratory capacity via upregulation of Tregs in Iraq PM-exposed C57BL/6. Plausible genomic effects may involve IL-15 whole lung gene expression.
DOI: 10.6084/m9.figshare.6231716.v1
title: Rux largely restores lungs in Iraq PM-exposed mice, Up-regulating regulatory T-cells (Tregs)

description: <b>Background</b> Military personnel post-deployment to Iraq and Afghanistan have noted new-onset respiratory illness. This study's primary objective was to further develop an animal model of Iraq Afghanistan War Lung Injury (IAW-LI) and to test a novel class of anti-injury drug called RuX. <b>Methods</b> Particulate Matter (PM) samples were obtained in Iraq then characterized by spectromicroscopy. C57BL/6 mice underwent orotracheal instillation with PM, followed by drinkable treatment with RuX. Lung histology, inspiratory capacity (FlexiVent), thymic/splenic regulatory T cell (Treg) number, and whole-lung genomics were analyzed. <b>Results</b> Tracheal instillation of Iraq PM led to lung septate thickening and lymphocytic inflammation. PM-exposed mice had suppression of thymic/splenic regulatory T-cells (Tregs). Drinking RuX after PM exposure attenuated the histologic lung injury response, improved lung inspiratory capacity, and increased Tregs. Pooled whole lung genomics suggest differences among gene expression of IL-15 among control, PM, and PM + RuX groups. <b>Conclusions</b> RuX, a ruthenium and alpha-lipoic acid complex, attenuates lung injury by improving histology and inspiratory capacity via upregulation of Tregs in Iraq PM-exposed C57BL/6. Plausible genomic effects may involve IL-15 whole lung gene expression.
DOI: 10.6084/m9.figshare.6231662
title: Codes for "Transforming Bell's Inequalities into State Classifiers with Machine Learning"

description: We provide codes in order to help readers reproduce main numerical results in our manuscript "Transforming Bell's Inequalities into State Classifiers with Machine Learning".<br>
DOI: 10.6084/m9.figshare.6231659
title: Korda Lake 17042018 TQ 04686 88691 pt 2

description: Korda Lake 17042018 TQ 04686 88691 pt 2
DOI: 10.6084/m9.figshare.6231659.v1
title: Korda Lake 17042018 TQ 04686 88691 pt 2

description: Korda Lake 17042018 TQ 04686 88691 pt 2
DOI: 10.6084/m9.figshare.6231560
title: Data for the energetic cost of parasitism in a wild population

description: Data for the analysis of The energetic cost of parasitism in a wild population. Files include separate datasets for each behaviour (Flight, diving and resting), time budgets and daily energy expenditure.
DOI: 10.6084/m9.figshare.6231443
title: Korda Lake 16042018 TQ 04686 88691 pt 2

description: Korda Lake 16042018 TQ 04686 88691 pt 2
DOI: 10.6084/m9.figshare.6231443.v1
title: Korda Lake 16042018 TQ 04686 88691 pt 2

description: Korda Lake 16042018 TQ 04686 88691 pt 2
DOI: 10.6084/m9.figshare.6231395
title: Data from "Cascading effects from plants to soil microorganisms explain how plant species richness and simulated climate change affect soil multifunctionality"

description: There are two spreadsheets with data. The spreadsheet "Data" contains the raw data. The spreadsheet "Metadata" contains the associated metadata, where a description of all the variables and units can be found. All the methodological details can be found in the article.<br>
DOI: 10.6084/m9.figshare.6231326
title: Wiki-MID Dataset (LOD + TSV)

description: Wiki-MID Dataset Wiki-MID is a LOD compliant multi-domain interests dataset to train and test Recommender Systems. Our English dataset includes an average of 90 multi-domain preferences per user on music, books, movies, celebrities, sport, politics and much more, for about half million Twitter users traced during six months in 2017. Preferences are either extracted from messages of users who use Spotify, Goodreads and other similar content sharing platforms, or induced from their "topical" friends, i.e., followees representing an interest rather than a social relation between peers. In addition, preferred items are matched with Wikipedia articles describing them. This unique feature of our dataset provides a mean to categorize preferred items, exploiting available semantic resources linked to Wikipedia such as the Wikipedia Category Graph, DBpedia, BabelNet and others. Data model: Our resource is designed on top of the Semantically-Interlinked Online Communities (SIOC) core ontology. The SIOC ontology favors the inclusion of data mined from social networks communities into the Linked Open Data (LOD) cloud.We represent Twitter users as instances of the SIOC <i>UserAccount</i> class.Topical users and message based user interests are then associated, through the usage of the Simple Knowledge Organization System Namespace Document (SKOS) predicate <i>relatedMatch</i>, to a corresponding Wikipedia page as a result of our automated mapping methodology.
DOI: 10.6084/m9.figshare.6231326.v1
title: Wiki-MID Dataset (LOD + TSV)

description: Wiki-MID Dataset Wiki-MID is a LOD compliant multi-domain interests dataset to train and test Recommender Systems. Our English dataset includes an average of 90 multi-domain preferences per user on music, books, movies, celebrities, sport, politics and much more, for about half million Twitter users traced during six months in 2017. Preferences are either extracted from messages of users who use Spotify, Goodreads and other similar content sharing platforms, or induced from their "topical" friends, i.e., followees representing an interest rather than a social relation between peers. In addition, preferred items are matched with Wikipedia articles describing them. This unique feature of our dataset provides a mean to categorize preferred items, exploiting available semantic resources linked to Wikipedia such as the Wikipedia Category Graph, DBpedia, BabelNet and others. Data model: Our resource is designed on top of the Semantically-Interlinked Online Communities (SIOC) core ontology. The SIOC ontology favors the inclusion of data mined from social networks communities into the Linked Open Data (LOD) cloud.We represent Twitter users as instances of the SIOC <i>UserAccount</i> class.Topical users and message based user interests are then associated, through the usage of the Simple Knowledge Organization System Namespace Document (SKOS) predicate <i>relatedMatch</i>, to a corresponding Wikipedia page as a result of our automated mapping methodology.
DOI: 10.6084/m9.figshare.6231296
title: ARM1 and PUB15 coding sequences for phylogenetic tree

description: Data matrix for the tree, analyzed with RAxML 8.2.7, GTRGAMMA model and 100 bootstrap replicates.<br>
DOI: 10.6084/m9.figshare.6231296.v1
title: ARM1 and PUB15 coding sequences for phylogenetic tree

description: Data matrix for the tree, analyzed with RAxML 8.2.7, GTRGAMMA model and 100 bootstrap replicates.<br>
DOI: 10.6084/m9.figshare.6231200.v2
title: The real world of blood glucose point-of-care testing (POCT) system running in China teaching hospital

description: <b>Background:</b> The blood glucose point-of-care testing (POCT) system is important in the decision-making process involving patients suspected of having hypoglycemia. To investigate the real world of the POCT system being used in teaching hospitals in China. <b>Methods:</b> The survey was conducted by Hisend Research Group from May 2015 to July 2015 in four teaching hospitals in China. The survey questions were referred to the ISO 15197:2013 standard requirements for the use of the POCT system in a hospital setting. <b>Results:</b> A total of 170 subjects were included from 4 hospitals, which included nursing staff, nurse unit managers, employees from the department of medical instruments, and staff members employed by the clinical laboratories in the Tianjin Metabolism Hospital, Nanjing First Hospital, First Affiliated Hospital of Dalian Medical University, and the First hospital affiliated with the Xi’an Transportation University. The average score for the four hospitals surveyed in this study was 66.6, which varied from 46.1 to 79.7. The main factors influencing the scores were the multiple choices of blood-glucose meters, and the quality control assessment. <b>Conclusion:</b>Our data indicates that the real world use of the POCT system in hospital settings in China needs more closer adherence to a quality management framework.
DOI: 10.6084/m9.figshare.6231197
title: STRRIDE-PLOS-DATAshare (FINAL).xlsx

description: This is data from a published paper evaluating the impact of weight loss combined with exercise training on cardiometabolic risk factors (e.g. insulin resistance, body composition, fitness, lipids). The final paper is published in Plos ONE (Title:Effects of aerobic training with and without weight loss on insulin sensitivity and lipids)<b></b>
DOI: 10.6084/m9.figshare.6231197.v1
title: STRRIDE-PLOS-DATAshare (FINAL).xlsx

description: This is data from a published paper evaluating the impact of weight loss combined with exercise training on cardiometabolic risk factors (e.g. insulin resistance, body composition, fitness, lipids). The final paper is published in Plos ONE (Title:Effects of aerobic training with and without weight loss on insulin sensitivity and lipids)<b></b>
DOI: 10.6084/m9.figshare.6231188
title: Comb patterning raw data from Japanese and Silver Studio textile designs

description: Excel dataset relating to the quantitative analysis of tone creating using techniques of monochrome pattern on Japanese textile printing stencils of the 18<sup>th</sup> and 19<sup>th</sup> centuries and the textile designs of the British design company of the Silver Studio from the 1890s and 1930s both held in the collection of the Museum of Domestic Design and Architecture.<br> This dataset contains raw data from the measurement of comb tone pattern identified by museum accession number and a table of summary statistics and graphs of these data.
DOI: 10.6084/m9.figshare.6231188.v1
title: Comb patterning raw data from Japanese and Silver Studio textile designs

description: Excel dataset relating to the quantitative analysis of tone creating using techniques of monochrome pattern on Japanese textile printing stencils of the 18<sup>th</sup> and 19<sup>th</sup> centuries and the textile designs of the British design company of the Silver Studio from the 1890s and 1930s both held in the collection of the Museum of Domestic Design and Architecture.<br> This dataset contains raw data from the measurement of comb tone pattern identified by museum accession number and a table of summary statistics and graphs of these data.
DOI: 10.6084/m9.figshare.6231179
title: Dot pattern raw data for Silver Studio textile designs

description: Excel dataset relating to the quantitative analysis of tone creating using techniques of monochrome pattern on the textile designs of the British design company of the Silver Studio from the 1890s and 1930s.<br>This dataset contains raw data related to dot patterning on the designs. The data was used to compare styles of dot patterning on the designs with that on katagami stencils which were used as inspiration for a number of the designs.<br>
DOI: 10.6084/m9.figshare.6231071
title: Quantitative analysis of spacing and element width for dotted patterning on Japanese and British C18th-20th textile designs

description: Dataset relating to the quantitative analysis of tone creating using techniques of monochrome pattern on Japanese textile printing stencils of the 18<sup>th</sup> and 19<sup>th</sup> centuries and the textile designs of the British design company of the Silver Studio from the 1890s and 1930s both held in the collection of the Museum of Domestic Design and Architecture.<br>This dataset contains statistical and graphical summaries of dotted patterning, which is common on katagami and the Silver Studio designs specifically the dot spacing to width ratios.<br>
DOI: 10.6084/m9.figshare.6231071.v1
title: Quantitative analysis of spacing and element width for dotted patterning on Japanese and British C18th-20th textile designs

description: Dataset relating to the quantitative analysis of tone creating using techniques of monochrome pattern on Japanese textile printing stencils of the 18<sup>th</sup> and 19<sup>th</sup> centuries and the textile designs of the British design company of the Silver Studio from the 1890s and 1930s both held in the collection of the Museum of Domestic Design and Architecture.<br>This dataset contains statistical and graphical summaries of dotted patterning, which is common on katagami and the Silver Studio designs specifically the dot spacing to width ratios.<br>
DOI: 10.6084/m9.figshare.6230876.v1
title: The SNP data of reference panel and target panel on chromosomes 6

description: The SNP data of reference panel and target panel on chromosomes 6.<br>
DOI: 10.6084/m9.figshare.6230876.v2
title: Comparison of genotype imputation strategies from SNP-chip to sequence with a combined reference panel

description: Materials <br>The SNP data of reference panel and target panel on chromosomes 6.<br>Supplementary material Table S1. Summary of WGS data per chicken from public datasets Table S2. Summary statistics of chromosome 6 per sequenced individual Table S3. The Hamming distances matrix among 289 chickens based on chromosome 6 Figure S1. A phylogenetic tree among 289 chickens based on chromosome 6
DOI: 10.6084/m9.figshare.6230876.v3
title: Comparison of genotype imputation strategies from SNP-chip to sequence with a combined reference panel

description: Materials <br>The SNP data of reference panel and target panel on chromosomes 6.<br>Supplementary material Table S1. Summary of WGS data per chicken from public datasets Table S2. Summary statistics of chromosome 6 per sequenced individual Table S3. The Hamming distances matrix among 289 chickens based on chromosome 6
DOI: 10.6084/m9.figshare.6230876.v4
title: Comparison of genotype imputation strategies from SNP-chip to sequence with a combined reference panel

description: Materials <br>The SNP data of reference panel and target panel on chromosomes 6.<br>Supplementary material Table S1. Summary of WGS data per chicken from public datasets Table S2. Summary statistics of chromosome 6 per sequenced individual Table S3. The Hamming distances matrix among 289 chickens based on chromosome 6Table S4. The computational consuming of Beagle 4.1 for different reference panel.<br>
DOI: 10.6084/m9.figshare.6230876.v6
title: Comparison of genotype imputation strategies from SNP-chip to sequence with a combined reference panel

description: Materials <br>The SNP data of reference panel and target panel on chromosomes 6.<br>Supplementary material Table S1. Summary of WGS data per chicken from public datasets Table S2. Summary statistics of chromosome 6 per sequenced individual Table S3. The Hamming distances matrix among 289 chickens based on chromosome 6Table S4. The computational consuming of Beagle 4.1 for different reference panel.<br>
DOI: 10.6084/m9.figshare.6230876.v5
title: Comparison of genotype imputation strategies from SNP-chip to sequence with a combined reference panel

description: Materials <br>The SNP data of reference panel and target panel on chromosomes 6.<br>Supplementary material Table S1. Summary of WGS data per chicken from public datasets Table S2. The Hamming distances matrix among 289 chickens based on chromosome 6 Table S3. Summary statistics of chromosome 6 per sequenced individualTable S4. The computational consuming of Beagle 4.1 for different reference panel.<br>
DOI: 10.6084/m9.figshare.6230807
title: Coefficients from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: FreeFem++ routine generating the effective densities, effective moduli, and related quantities for the main script
DOI: 10.6084/m9.figshare.6230807.v1
title: Coefficients from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: FreeFem++ routine generating the effective densities, effective moduli, and related quantities for the main script
DOI: 10.6084/m9.figshare.6230804
title: Dispersion relationship from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Matlab routine computing the exact dispersion relationship for the main script
DOI: 10.6084/m9.figshare.6230804.v1
title: Dispersion relationship from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Matlab routine computing the exact dispersion relationship for the main script
DOI: 10.6084/m9.figshare.6230801
title: Main from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Matlab code for computing and plotting (1) dispersion relationships and (2) modulation factors
DOI: 10.6084/m9.figshare.6230801.v1
title: Main from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Matlab code for computing and plotting (1) dispersion relationships and (2) modulation factors
DOI: 10.6084/m9.figshare.6230798
title: Data from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Txt file storing the the effective densities, shear modulus and other quantities for the main script
DOI: 10.6084/m9.figshare.6230798.v1
title: Data from On the dynamic homogenization of periodic media: Willis' approach versus two-scale paradigm

description: Txt file storing the the effective densities, shear modulus and other quantities for the main script
DOI: 10.6084/m9.figshare.6230591
title: MABC B-cell epitopes

description: Predicted B-cell epitopes of twelve MABC candidate proteins of the study. See paper for further details.
DOI: 10.6084/m9.figshare.6230591.v1
title: MABC B-cell epitopes

description: Predicted B-cell epitopes of twelve MABC candidate proteins of the study. See paper for further details.
DOI: 10.6084/m9.figshare.6230564
title: Dataset for: The presence of algae mitigates the toxicity of copper-based algaecides to a non-target organism

description: Copper-based algaecides are routinely applied to target noxious algal blooms in freshwaters. Standard toxicity testing data with copper suggest typical concentrations used to control algae can cause deleterious acute impacts to non-target organisms. These “clean” water experiments lack algae, which are specifically targeted in field applications of algaecides and contain competing ligands. This research measured the influence of algae on algaecide exposure and subsequent response of the non-target species Daphnia magna to copper sulfate and an ethanolamine-chelated copper algaecide (Captain®). Significant shifts (P&lt; 0.05) in Daphnia magna 48-h LC50 values were found when algae were present in exposures along with a copper salt or chelated copper formulation. Copper sulfate 48-h LC50 values shifted from 75.3 to 317.8 and 517.8 µg Cu/L whereas Captain increased from 353.8 to 414.2 and 588.5 µg Cu/L in no algae, 5 x 105 and 5 x 106 cells/mL algae treatments, respectively. Larger shifts were measured with copper sulfate exposures, although Captain was less toxic to Daphnia magna in all corresponding treatments. Captain was more effective at controlling Scenedesmus dimorphus at most concentrations, and control was inversely proportional to toxicity to D. magna. Overall, incorporating target competing ligands (i.e., algae) into standard toxicity testing is important for accurate risk assessment, and copper formulation can significantly alter algaecidal efficacy and risks to non-target organisms.
DOI: 10.6084/m9.figshare.6230564.v1
title: Dataset for: The presence of algae mitigates the toxicity of copper-based algaecides to a non-target organism

description: Copper-based algaecides are routinely applied to target noxious algal blooms in freshwaters. Standard toxicity testing data with copper suggest typical concentrations used to control algae can cause deleterious acute impacts to non-target organisms. These “clean” water experiments lack algae, which are specifically targeted in field applications of algaecides and contain competing ligands. This research measured the influence of algae on algaecide exposure and subsequent response of the non-target species Daphnia magna to copper sulfate and an ethanolamine-chelated copper algaecide (Captain®). Significant shifts (P&lt; 0.05) in Daphnia magna 48-h LC50 values were found when algae were present in exposures along with a copper salt or chelated copper formulation. Copper sulfate 48-h LC50 values shifted from 75.3 to 317.8 and 517.8 µg Cu/L whereas Captain increased from 353.8 to 414.2 and 588.5 µg Cu/L in no algae, 5 x 105 and 5 x 106 cells/mL algae treatments, respectively. Larger shifts were measured with copper sulfate exposures, although Captain was less toxic to Daphnia magna in all corresponding treatments. Captain was more effective at controlling Scenedesmus dimorphus at most concentrations, and control was inversely proportional to toxicity to D. magna. Overall, incorporating target competing ligands (i.e., algae) into standard toxicity testing is important for accurate risk assessment, and copper formulation can significantly alter algaecidal efficacy and risks to non-target organisms.
DOI: 10.6084/m9.figshare.6230555
title: MABC epitope MHC-II binding prediction

description: MHC-II binding prediction of twelve MABC candidate proteins using stabilization matrix alignment method (SMN align) from the Immune Epitope Database (IEDB, www.iedb.org). See paper for further details.
DOI: 10.6084/m9.figshare.6230540
title: MABC Genomic Sequences

description: Genomic Seqeunces of the clinical isolates of MABC used for the study. See paper for further details.
DOI: 10.6084/m9.figshare.6230540.v1
title: MABC Genomic Sequences

description: Genomic Seqeunces of the clinical isolates of MABC used for the study. See paper for further details.
DOI: 10.6084/m9.figshare.6230513
title: Chapter 2: Meta-analysis reference list

description: List of the publications used for the meta-analysis in Chapter 2
DOI: 10.6084/m9.figshare.6230513.v2
title: Chapter 2: Meta-analysis reference list

description: List of the publications used for the meta-analysis in Chapter 2
DOI: 10.6084/m9.figshare.6230465
title: Chapter 4: Connectivity matrices

description: Connectivity matrices for a theoretical modelling study comparing combinations of larval behaviour
DOI: 10.6084/m9.figshare.6230513.v1
title: Chapter 2: Meta-analysis reference list

description: List of the publications used for the meta-analysis in Chapter 2
DOI: 10.6084/m9.figshare.6230465.v1
title: Chapter 4: Connectivity matrices

description: Connectivity matrices for a theoretical modelling study comparing combinations of larval behaviour
DOI: 10.6084/m9.figshare.6230405
title: Chapter 5: Connectivity matrix

description: Mean connectivity matrix of black cod along NSW for the years 2004-2011