cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9856439
title: CO2_Dataset_SaltMarshes_WaquoitBay_May-October_2013.xlsx

description: The dataset reports net daytime uptake fluxes of carbon dioxide (NEE<sub>CO2,uptake</sub>) and concurrent environment variables (photosynthetically active radiation, soil temperature, and porewater salinity) measured from four Spartina alterniflora-dominated coastal salt marshes located on the shore of the North Atlantic Ocean at Cape Cod, Massachusetts, USA. The data were obtained for different days during the extended growing season (May-October_ of 2013 across the salt marshes. In addition, the corresponding atmospheric pressure data was obtained from nearby NOAA NERRS monitoring station located at Carriage House, MA.
DOI: 10.6084/m9.figshare.9856271
title: Bill et al., Hierarchical motion structure, Data MOT

description: Data of the MOT experiment in "Hierarchical structure is employed by humans during visual motion perception" by Bill, Pailian, Gershman, Drugowitsch.
DOI: 10.6084/m9.figshare.9856274
title: Bill et al., Hierarchical motion structure, Data Prediction

description: Data of the prediction experiment in "Hierarchical structure is employed by humans during visual motion perception" by Bill, Pailian, Gershman, Drugowitsch.<br>
DOI: 10.6084/m9.figshare.9856274.v1
title: Bill et al., Hierarchical motion structure, Data Prediction

description: Data of the prediction experiment in "Hierarchical structure is employed by humans during visual motion perception" by Bill, Pailian, Gershman, Drugowitsch.<br>
DOI: 10.6084/m9.figshare.9856271.v1
title: Bill et al., Hierarchical motion structure, Data MOT

description: Data of the MOT experiment in "Hierarchical structure is employed by humans during visual motion perception" by Bill, Pailian, Gershman, Drugowitsch.
DOI: 10.6084/m9.figshare.9856094
title: Homeologs from the pregrass duplication sorted by subgenome

description: A list of approximately 1,200 homeologous (ohnologous) pairs of genes conserved in rice and sorghum which were created in the most recent whole genome duplication prior to the diversification of the grasses, as well as syntenic orthologs of these genes in maize (RefGen v3 and RefGen v4), sorghum (v3), Setaria italica (v2.1 and v2.2), Setaria viridis (v1), Oropetium (v1) and Brachypodium distachyon (v2.1). <br>Gene pairs are sorted into subgenomes A and B based on genomic blocks. Each pair of retained homeologous regions the number of syntenically conserved orthologous genes between rice and sorghum was determined. If the difference in the number of syntenic orthologous genes between the two duplicate regions was statistically significant (p &lt; 0.05; chi-squared test) the more gene rich copy of the region and the individual genes within it was assigned to the A subgenome and the less gene rich copy of the region and the individual genes within it was assigned to the B subgenome. <br><br>Methods for identifying and assigning syntenic genes across the other grass species included in this analysis followed the procedure outlined in:<br>Zhang Y, Ngu DW, Carvalho D, Liang Z, Qiu Y, Roston RL, Schnable JC. (2017) “Differentially regulated orthologs in sorghum and the subgenomes of maize.” The Plant Cell doi: 10.1105/tpc.17.00354 bioRxiv preprint doi: 10.1101/120303<br><br>
DOI: 10.6084/m9.figshare.9856094.v1
title: Homeologs from the pregrass duplication sorted by subgenome

description: A list of approximately 1,200 homeologous (ohnologous) pairs of genes conserved in rice and sorghum which were created in the most recent whole genome duplication prior to the diversification of the grasses, as well as syntenic orthologs of these genes in maize (RefGen v3 and RefGen v4), sorghum (v3), Setaria italica (v2.1 and v2.2), Setaria viridis (v1), Oropetium (v1) and Brachypodium distachyon (v2.1). <br>Gene pairs are sorted into subgenomes A and B based on genomic blocks. Each pair of retained homeologous regions the number of syntenically conserved orthologous genes between rice and sorghum was determined. If the difference in the number of syntenic orthologous genes between the two duplicate regions was statistically significant (p &lt; 0.05; chi-squared test) the more gene rich copy of the region and the individual genes within it was assigned to the A subgenome and the less gene rich copy of the region and the individual genes within it was assigned to the B subgenome. <br><br>Methods for identifying and assigning syntenic genes across the other grass species included in this analysis followed the procedure outlined in:<br>Zhang Y, Ngu DW, Carvalho D, Liang Z, Qiu Y, Roston RL, Schnable JC. (2017) “Differentially regulated orthologs in sorghum and the subgenomes of maize.” The Plant Cell doi: 10.1105/tpc.17.00354 bioRxiv preprint doi: 10.1101/120303<br><br>
DOI: 10.6084/m9.figshare.9855845.v1
title: Adaptive Minimal Confidence Region Rule for Multivariate Initialization Bias Truncation in Discrete-event Simulations

description: Initialization bias truncation is critically important for system performance assessment and warm-up length estimation in discrete-event simulations. Most of the existing methods are for univariate signals, while multivariate truncation has been rarely studied. To fill such gap, this paper proposes an efficient method, called adaptive minimal confidence region rule (AMCR) for multivariate initialization bias truncation. It determines the truncation point by minimizing the modified confidence volume with a tuning parameter for the mean estimate. An elbow method is developed for adaptive selection of the tuning parameter. Theoretical properties of the AMCR rule for both data with and without autocorrelations have been derived for justification and practical guidance. The effectiveness and superiority of the AMCR rule over other existing approaches have been demonstrated through thorough numerical studies and real application. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.9853502
title: Basic characterization data

description: XRD, asdorption, pore-size distribution, NMR<br>
DOI: 10.6084/m9.figshare.9853505
title: In situ data

description: In situ XRD for hydrolysis and calcination steps<br>
DOI: 10.6084/m9.figshare.9853505.v1
title: In situ data

description: In situ XRD for hydrolysis and calcination steps<br>
DOI: 10.6084/m9.figshare.9853124
title: Bedside Teaching Evaluation Data

description: Dataset obtained by student evaluation
DOI: 10.6084/m9.figshare.9853124.v1
title: Beside Teaching Evaluation Data

description: Dataset obtained by student evaluation
DOI: 10.6084/m9.figshare.9852974
title: Dinosaur Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Dinosaurs
DOI: 10.6084/m9.figshare.9852980
title: Pseudosuchian Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Pseudosuchians
DOI: 10.6084/m9.figshare.9852974.v1
title: Dinosaur Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Dinosaurs
DOI: 10.6084/m9.figshare.9852971
title: Theropod Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Theropods
DOI: 10.6084/m9.figshare.9852980.v1
title: Pseudosuchian Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Pseudosuchians
DOI: 10.6084/m9.figshare.9852869
title: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser

description: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser
DOI: 10.6084/m9.figshare.9852971.v1
title: Theropod Tree from The evolution and role of the hyposphene-hypantrum articulation in Archosauria: phylogeny, size and/or mechanics?

description: Nexus File for Character State Mapping in Theropods
DOI: 10.6084/m9.figshare.9852869.v3
title: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser

description: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser
DOI: 10.6084/m9.figshare.9852869.v2
title: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser

description: RNA-seq of U2AF1-KD HFF cells track host for UCSC genome browser
DOI: 10.6084/m9.figshare.9851240
title: Dataset manuscript "Characterizing the microbiomes of Antarctic sponges: a functional metagenomic approach"

description: Data set from manuscript "Characterizing the microbiomes of Antarctic sponges: a functional metagenomic approach"<br>Data set description:<br>-Contigs &gt;200 bp. generated from the metagenomic analysis of the Antarctic sponge microbiomes from <i>Leucetta antarctica</i>, <i>Myxilla</i> sp. and SW planktonic metagenome (0.2-3um)<br>
DOI: 10.6084/m9.figshare.9850775
title: Data for: Topographic controls on soil carbon accumulation in a humid subtropical mountain forest

description: The data in the file were information of topographic traits, plant and soil properties for 35 sites in a humid subtropicalmountain forest. The variables included MAT, slope degree, UAA, basal area of trees, annual litterfall, root biomass,thickness of forest floor, soil physico-chemical properties (soil density, rock content, pH, soil texture and soil Fe/Aloxides).
DOI: 10.6084/m9.figshare.9850532
title: Development of highly polymorphic genomic microsatellite markers and their application to gene flow in a natural population of <i>Abies firma</i>

description: The momi fir (<i>Abies firma</i>) has been targeted as a species for genetic resource conservation because of the recent decline in its natural populations. Additional molecular marker resources are needed to examine gene flow to understand the genetic dynamics of each population. We developed 15 genomic microsatellite (SSR) markers for <i>A. firma</i> and applied them to separate biparentage assignments of dispersed seeds in a natural population by assaying embryos and megagametophytes. The 15 markers were polymorphic, with the expected heterozygosity averaging greater than 0.74. Separate biparentage analysis, using the seven selected effective markers, was successful to assign paternal and maternal trees separately and thus estimate the paternal and maternal immigrant gene flow from nearby populations. The newly developed genomic SSR markers in the present study, by constructing a marker set together with previously developed markers, will provide higher discriminatory power for parentage analysis and should be useful for estimating gene flow for ongoing conservation genetics studies of <i>A. firma</i>.
DOI: 10.6084/m9.figshare.9850532.v1
title: Development of highly polymorphic genomic microsatellite markers and their application to gene flow in a natural population of <i>Abies firma</i>

description: The momi fir (<i>Abies firma</i>) has been targeted as a species for genetic resource conservation because of the recent decline in its natural populations. Additional molecular marker resources are needed to examine gene flow to understand the genetic dynamics of each population. We developed 15 genomic microsatellite (SSR) markers for <i>A. firma</i> and applied them to separate biparentage assignments of dispersed seeds in a natural population by assaying embryos and megagametophytes. The 15 markers were polymorphic, with the expected heterozygosity averaging greater than 0.74. Separate biparentage analysis, using the seven selected effective markers, was successful to assign paternal and maternal trees separately and thus estimate the paternal and maternal immigrant gene flow from nearby populations. The newly developed genomic SSR markers in the present study, by constructing a marker set together with previously developed markers, will provide higher discriminatory power for parentage analysis and should be useful for estimating gene flow for ongoing conservation genetics studies of <i>A. firma</i>.
DOI: 10.6084/m9.figshare.9850571.v1
title: Metadata record for: The Forest Observation System, building a global reference dataset for remote sensing of forest biomass

description: This dataset contains key characteristics about the data described in the Data Descriptor The Forest Observation System, building a global reference dataset for remote sensing of forest biomass. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:A revised version 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.
DOI: 10.6084/m9.figshare.9850157
title: Validity and reliability of GRS-S in sample of teachers and parents – a Czech Contribution

description: One of the goals of this study was to evaluate the factor structure of the Czech translation of the Gifted Rating Scales-school form (GRS-S; Pfeiffer & Jarosewich, 2003) and to investigate differences in factor structure between teachers (<i>n</i> = 137) and parents (<i>n</i> = 277, of which 256 were mothers). To this end, ten alternative models were tested, each twice – with either continuous or ordinal responses. Three models were found to exhibit acceptable fit and interpretability – the original six-factor model, a bi-factor model with six specific factors, and a bi-factor model with six uncorrelated specific factors and three correlated general factors. The factor structure was comparable for both parent and teacher raters. High correlations between the factors suggest that teacher ratings might be subject to a halo effect, resulting in difficulty to differentiate between the subscale’s purported areas of interest. Further, the concurrent validity of the GRS-S with tests of intelligence (WJ IE II COG or CFT 20-R) and mathematical achievement (TIM<sup>3-5</sup>) was evaluated. Ratings on the GRS-S made by teachers show a closer relationship with both criteria than ratings made by parents, although in both cases the relationship with intelligence test scores is closer. Finally, test-retest reliability over a period of multiple months (median 93 days) of the GRS-S was estimated on a sub-sample of teachers (<i>n</i> = 88) and was concluded to be quite high for all GRS-S subscales (<i>r</i> = .84 - .87).
DOI: 10.6084/m9.figshare.9850157.v1
title: Validity and reliability of GRS-S in sample of teachers and parents – a Czech Contribution

description: One of the goals of this study was to evaluate the factor structure of the Czech translation of the Gifted Rating Scales-school form (GRS-S; Pfeiffer & Jarosewich, 2003) and to investigate differences in factor structure between teachers (<i>n</i> = 137) and parents (<i>n</i> = 277, of which 256 were mothers). To this end, ten alternative models were tested, each twice – with either continuous or ordinal responses. Three models were found to exhibit acceptable fit and interpretability – the original six-factor model, a bi-factor model with six specific factors, and a bi-factor model with six uncorrelated specific factors and three correlated general factors. The factor structure was comparable for both parent and teacher raters. High correlations between the factors suggest that teacher ratings might be subject to a halo effect, resulting in difficulty to differentiate between the subscale’s purported areas of interest. Further, the concurrent validity of the GRS-S with tests of intelligence (WJ IE II COG or CFT 20-R) and mathematical achievement (TIM<sup>3-5</sup>) was evaluated. Ratings on the GRS-S made by teachers show a closer relationship with both criteria than ratings made by parents, although in both cases the relationship with intelligence test scores is closer. Finally, test-retest reliability over a period of multiple months (median 93 days) of the GRS-S was estimated on a sub-sample of teachers (<i>n</i> = 88) and was concluded to be quite high for all GRS-S subscales (<i>r</i> = .84 - .87).
DOI: 10.6084/m9.figshare.9849956
title: Bacterial Sequence Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Bacterial Sequence Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849968
title: Metadata for bacterial sequences in Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Metadata for bacterial sequences in Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849956.v1
title: Bacterial Sequence Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Bacterial Sequence Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849917
title: Raw Inhibition Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Raw Inhibition Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849938
title: Chytrid Relatedness Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Chytrid Relatedness Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849938.v1
title: Chytrid Relatedness Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Chytrid Relatedness Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849968.v1
title: Metadata for bacterial sequences in Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Metadata for bacterial sequences in Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849845
title: Reproducible Analysis Workflow for Harrison et al (2019) Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Reproducible analysis workflow for Harrison et al (2019) Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849560
title: Comparison of leaf transcriptome in response to Rhizoctonia solani infection between resistance and susceptible rice cultivars

description: supplementary tables<br>
DOI: 10.6084/m9.figshare.9849917.v1
title: Raw Inhibition Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Raw Inhibition Data for Harrison et al 2019 Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849560.v1
title: Comparison of leaf transcriptome in response to Rhizoctonia solani infection between resistance and susceptible rice cultivars

description: supplementary tables<br>
DOI: 10.6084/m9.figshare.9849845.v1
title: Reproducible Analysis Workflow for Harrison et al (2019) Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen

description: Reproducible analysis workflow for Harrison et al (2019) Designing Probiotic Therapies with Broad-Spectrum Activity Against a Wildlife Pathogen
DOI: 10.6084/m9.figshare.9849539
title: Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales

description: Original data for the study Wang S, Meade A, Lam H-M, Luo H. 2020. Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales. mSystems 5:e00438-20.<b></b>
DOI: 10.6084/m9.figshare.9849539.v1
title: Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales

description: Original data and codes for the study Wang S, Meade A, Lam H-M, Luo H. 2020. Evolutionary timeline and genomicplasticity underlying the lifestyle diversity in<br>Rhizobiales. mSystems 5:e00438-20.<br><b></b>
DOI: 10.6084/m9.figshare.9849539.v3
title: Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales

description: Original data for the study Wang S, Meade A, Lam H-M, Luo H. 2020. Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales. mSystems 5:e00438-20.<b></b>
DOI: 10.6084/m9.figshare.9849539.v2
title: Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales

description: Original data and codes for the study Wang S, Meade A, Lam H-M, Luo H. 2020. Evolutionary timeline and genomic plasticity underlying the lifestyle diversity in Rhizobiales. mSystems 5:e00438-20.<b></b>
DOI: 10.6084/m9.figshare.9848690
title: Benthic Filtering by Upogebiid Shrimp

description: This dataset gives additional data to support the results in a paper (seike et al.)<br>
DOI: 10.6084/m9.figshare.9848690.v2
title: Benthic Filtering by Upogebiid Shrimp

description: This dataset gives additional data to support the results in a paper (seike et al.)<br>
DOI: 10.6084/m9.figshare.9848690.v1
title: Data for Seike et al.xlsx

description: This dataset gives additional data to support the results in a paper (seike et al.)<br>
DOI: 10.6084/m9.figshare.9848513
title: CF Multi-centre metadata.xlsx

description: Supporting metadata from a cystic fibrosis multi-centre study. The study was a cross-sectional / observational study of the bacterial lung microbiota across 299 CF patients. <br>Data included here: Sample ID; location; age at time of sampling; sex; CFTR genotypes; clinical status; comorbidities; lung function measure; recent antibiotics (within two weeks of sampling)
DOI: 10.6084/m9.figshare.9848510
title: Spectral decomposition and illustration-inspired visualisation of highly disturbed cerebrovascular blood flow dynamics

description: Informed by high-resolution computational fluid dynamics (CFD) simulations, we present a strategy using a temporal filtering approach to examine the three-dimensional structures of velocity fluctuations filtered based on the global spectral content. Research suggests the presence of transient, turbulent-like flow instabilities at a range of frequencies from 10 Hz up to 1 kHz, some of which are associated with clinical reports of aneurysm vibration or <i>‘bruits’</i>, and which may promote aneurysm growth or rupture. To isolate and visualise these instabilities with respect to their frequency, the filtering technique presented in this work is applied to the flow simulations of three middle cerebral artery (MCA) aneurysms and three internal carotid artery (ICA) siphons. Vortex cores associated with the different frequency bands are then visualised together to highlight their spatiotemporal interactions. Inspired by visual styles of illustration, we present a rendering strategy depicted with outlines, silhouettes and two-tone cel-shading to prevent occlusion and emphasise the resulting flow structures of importance while the other details are given less weight to de-emphasise their presence in the background of the image plane. Reinforcing previous studies in the literature, the current work also confirmed the presence of flow fluctuations to the order of up to 1 kHz when modelled adequately using high-resolution CFD simulations.