cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6651305
title: Additional file 2: of Impact of nutrition and rotavirus infection on the infant gut microbiota in a humanized pig model

description: Figure S2. Comparison of the microbiota alpha diversity of HIFM pig samples based on the diets (deficient or sufficient) and HRV status (pre- and post- HRV challenge). Diversity in the feces (A & B), intestines (C & D), and systemic tissues (E & F) samples are shown irrespective of time points, intestinal locations, or tissues type. Alpha diversity was analyzed based on the rarefaction curve of the phylogenetic diversity and Choa1: richness. Bars represent the standard deviations. No significant differences were detected between diets for either the phylogenetic diversity or richness (Pâ &gt;â 0.05). General composition of the HIFM pig samples microbiota using a principal coordinated analysis (PCoA). Samples were clustered based on the diet or HRV status for the feces (G & H), intestines (I & J), and systemic organs (K & L). (ZIP 362 kb)
DOI: 10.6084/m9.figshare.6651305.v1
title: Additional file 2: of Impact of nutrition and rotavirus infection on the infant gut microbiota in a humanized pig model

description: Figure S2. Comparison of the microbiota alpha diversity of HIFM pig samples based on the diets (deficient or sufficient) and HRV status (pre- and post- HRV challenge). Diversity in the feces (A & B), intestines (C & D), and systemic tissues (E & F) samples are shown irrespective of time points, intestinal locations, or tissues type. Alpha diversity was analyzed based on the rarefaction curve of the phylogenetic diversity and Choa1: richness. Bars represent the standard deviations. No significant differences were detected between diets for either the phylogenetic diversity or richness (Pâ &gt;â 0.05). General composition of the HIFM pig samples microbiota using a principal coordinated analysis (PCoA). Samples were clustered based on the diet or HRV status for the feces (G & H), intestines (I & J), and systemic organs (K & L). (ZIP 362 kb)
DOI: 10.6084/m9.figshare.6651290
title: Additional file 6: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Tables S13-S20. The seminal fluid peptides identified from each rhesus macaque individual that underwent MS/MS using the MSDaPl program. ST13 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 1. ST14 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 2. ST15 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 3. ST16 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 4. ST17 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 5. ST18 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 6. ST19 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 7. ST20 A parsimonious list of SFPs inferred from MSDaPl for rhesus macaque 8. (XLSX 227 kb)
DOI: 10.6084/m9.figshare.6651278
title: Additional file 7: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Extracted Data from Included Studies. All genotype data extracted from the manuscripts or collected from study authors is provided. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6651278.v1
title: Additional file 7: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Extracted Data from Included Studies. All genotype data extracted from the manuscripts or collected from study authors is provided. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6651275
title: Additional file 5: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Tables S5-S12. The seminal fluid peptides identified from each human individual that underwent MS/MS using the MSDaPl program. ST5 A parsimonious list of SFPs inferred from MSDaPl for human 1. ST6 A parsimonious list of SFPs inferred from MSDaPl for human 2. ST7 A parsimonious list of SFPs inferred from MSDaPl for human 3. ST8 A parsimonious list of SFPs inferred from MSDaPl for human 4. ST9 A parsimonious list of SFPs inferred from MSDaPl for human 5. ST10 A parsimonious list of SFPs inferred from MSDaPl for human 6. ST11 A parsimonious list of SFPs inferred from MSDaPl for human 7. ST12 A parsimonious list of SFPs inferred from MSDaPl for human 8. (XLS 744 kb)
DOI: 10.6084/m9.figshare.6651275.v1
title: Additional file 5: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Tables S5-S12. The seminal fluid peptides identified from each human individual that underwent MS/MS using the MSDaPl program. ST5 A parsimonious list of SFPs inferred from MSDaPl for human 1. ST6 A parsimonious list of SFPs inferred from MSDaPl for human 2. ST7 A parsimonious list of SFPs inferred from MSDaPl for human 3. ST8 A parsimonious list of SFPs inferred from MSDaPl for human 4. ST9 A parsimonious list of SFPs inferred from MSDaPl for human 5. ST10 A parsimonious list of SFPs inferred from MSDaPl for human 6. ST11 A parsimonious list of SFPs inferred from MSDaPl for human 7. ST12 A parsimonious list of SFPs inferred from MSDaPl for human 8. (XLS 744 kb)
DOI: 10.6084/m9.figshare.6651266
title: Additional file 6: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Quality Scores. The quality of each study was evaluated with the Newcastle-Ottawa Quality Assessment Scale for Case-Control Studies, which assesses each studyâ s selection, comparability, and exposure ascertainment approach. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.6651266.v1
title: Additional file 6: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Quality Scores. The quality of each study was evaluated with the Newcastle-Ottawa Quality Assessment Scale for Case-Control Studies, which assesses each studyâ s selection, comparability, and exposure ascertainment approach. (XLSX 16 kb)
DOI: 10.4225/03/5b2c9f6acd8e0
title: Menelik head mesh format (ACIS SAT v.26)

description: The Menelik head mesh model in ASIC SAT version 26 file format. The file format is the native format of CST Studio and it has higher precision point representation compared to STL. The Menelik model was tested for FEM meshability using this file format in CST Studio 2017. It is recommended to use this file in CST Studio for mesh based simulation.
DOI: 10.6084/m9.figshare.6651260
title: Additional file 4: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Table S3-S4. The relative isotope abundances (RIA) mean values quantified by the Topograph program, and used for further data analysis and abundance comparison among species. ST3 Relative isotope abundances (RIA) mean values quantified by Topograph in human and rhesus macaque peptides. ST4 Relative isotope abundances (RIA) mean values quantified by Topograph in human, rhesus macaque, drill, vervet, and cynomolgus macaque peptides. (XLS 4434 kb)
DOI: 10.6084/m9.figshare.6651260.v1
title: Additional file 4: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Table S3-S4. The relative isotope abundances (RIA) mean values quantified by the Topograph program, and used for further data analysis and abundance comparison among species. ST3 Relative isotope abundances (RIA) mean values quantified by Topograph in human and rhesus macaque peptides. ST4 Relative isotope abundances (RIA) mean values quantified by Topograph in human, rhesus macaque, drill, vervet, and cynomolgus macaque peptides. (XLS 4434 kb)
DOI: 10.6084/m9.figshare.6651245
title: Additional file 5: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: HLA Associations with WNV Disease Severity. All examined targets from the analyzed publications are listed, with significant associations shown in bold. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6651245.v1
title: Additional file 5: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: HLA Associations with WNV Disease Severity. All examined targets from the analyzed publications are listed, with significant associations shown in bold. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.6651242
title: Additional file 3: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Table S2. The overall results from the Gene Ontology analysis. ST2 Gene Ontology (GO) Analysis results. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.6651242.v1
title: Additional file 3: of Quantitative evolutionary proteomics of seminal fluid from primates with different mating systems

description: Table S2. The overall results from the Gene Ontology analysis. ST2 Gene Ontology (GO) Analysis results. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.6651212
title: Additional file 3: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Included Papers. All publications included in this review are listed, with study details on authors, year of publication, country, sample size, case and control group definitions, and genotyping method. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6651212.v1
title: Additional file 3: of Identification of genetic variants associated with dengue or West Nile virus disease: a systematic review and meta-analysis

description: Included Papers. All publications included in this review are listed, with study details on authors, year of publication, country, sample size, case and control group definitions, and genotyping method. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6651062
title: Data from: Two’s company, three’s a crowd: co-occurring pollinators and parasite species in Breynia oblongifolia (Phyllantheae)

description: Observations of pollen and egg deposition of two species of Epicephala on Breynia oblongifolia
DOI: 10.6084/m9.figshare.6651062.v2
title: Data from: Two’s company, three’s a crowd: co-occurring pollinators and parasite species in Breynia oblongifolia (Phyllantheae)

description: Observations of pollen and egg deposition of two species of Epicephala on Breynia oblongifolia
DOI: 10.6084/m9.figshare.6651062.v1
title: Epicephala Night Observations Breynia oblongifolia.csv

description: Observations of pollen and egg deposition of two species of Epicephala on Breynia oblongifolia from November 2017 until
DOI: 10.4225/03/5b2c683663395
title: Raw data_Biogeosciences 2018.xlsx

description: Raw data for Biogeosciences, 15, 1-13, 2018
DOI: 10.6084/m9.figshare.6650930
title: Matlab programming file for Zubal Head Phantom Frequency-Dispersive Properties Assignment from Finite-element analysis of microwave scattering from a three-dimensional human head model for brain stroke detection

description: This Matlab programmed file assigns frequency-dispersive dielectric properties to Zubal head model tissues using segmentation ids list, our tissue mapping scheme and the mixed-model approach. Finally, the voxel assignement tissues' property files are exported for use in electromagnetic simulation environment.
DOI: 10.6084/m9.figshare.6650930.v1
title: Matlab programming file for Zubal Head Phantom Frequency-Dispersive Properties Assignment from Finite-element analysis of microwave scattering from a three-dimensional human head model for brain stroke detection

description: This Matlab programmed file assigns frequency-dispersive dielectric properties to Zubal head model tissues using segmentation ids list, our tissue mapping scheme and the mixed-model approach. Finally, the voxel assignement tissues' property files are exported for use in electromagnetic simulation environment.
DOI: 10.6084/m9.figshare.6650924
title: Zubal Head Phantom Tissue Mapping Scheme and Model Assignment from Finite-element analysis of microwave scattering from a three-dimensional human head model for brain stroke detection

description: This file provides the details of Zubal head model tissue's segmentation id, group mapping and assignment of frequency-dispersive dielectric properties models
DOI: 10.6084/m9.figshare.6650924.v1
title: Zubal Head Phantom Tissue Mapping Scheme and Model Assignment from Finite-element analysis of microwave scattering from a three-dimensional human head model for brain stroke detection

description: This file provides the details of Zubal head model tissue's segmentation id, group mapping and assignment of frequency-dispersive dielectric properties models
DOI: 10.6084/m9.figshare.6650921
title: Dataset for: Modeling the random effects covariance matrix for longitudinal data with covariates measurement error

description: Longitudinal data occur frequently in practice such as medical studies and life sciences. Generalized linear mixed models (GLMMs) are commonly used to analyze such data. It is typically assumed that the random effects covariance matrix is constant across the subject (and among subjects) in these models. In many situations, however, this correlation structure may differ among subjects and ignore this heterogeneity can cause the biased estimate of model parameters. Recently, Lee et al. (2012) developed a heterogeneous random effects covariance matrix for GLMMs for error-free covariates. Covariates measured with an error also happen frequently in the longitudinal data set-up (e.g., blood pressure, cholesterol level). Ignoring this issue in the data may produce bias in model parameters estimate and lead to wrong conclusions. In this paper, we propose an approach to properly model the random effects covariance matrix based on covariates in the class of GLMMs where we also have covariates measured with error. The resulting parameters from the decomposition of random effects covariance matrix have a sensible interpretation and can easily be modeled without the concern of positive definiteness of the resulting estimator. Performance of the proposed approach is evaluated through simulation studies which show that the proposed method performs very well in terms of bias, mean squared error, and coverage rate. An application of the proposed method is also provided using a longitudinal data from Manitoba Follow-up study.
DOI: 10.6084/m9.figshare.6650921.v1
title: Dataset for: Modeling the random effects covariance matrix for longitudinal data with covariates measurement error

description: Longitudinal data occur frequently in practice such as medical studies and life sciences. Generalized linear mixed models (GLMMs) are commonly used to analyze such data. It is typically assumed that the random effects covariance matrix is constant across the subject (and among subjects) in these models. In many situations, however, this correlation structure may differ among subjects and ignore this heterogeneity can cause the biased estimate of model parameters. Recently, Lee et al. (2012) developed a heterogeneous random effects covariance matrix for GLMMs for error-free covariates. Covariates measured with an error also happen frequently in the longitudinal data set-up (e.g., blood pressure, cholesterol level). Ignoring this issue in the data may produce bias in model parameters estimate and lead to wrong conclusions. In this paper, we propose an approach to properly model the random effects covariance matrix based on covariates in the class of GLMMs where we also have covariates measured with error. The resulting parameters from the decomposition of random effects covariance matrix have a sensible interpretation and can easily be modeled without the concern of positive definiteness of the resulting estimator. Performance of the proposed approach is evaluated through simulation studies which show that the proposed method performs very well in terms of bias, mean squared error, and coverage rate. An application of the proposed method is also provided using a longitudinal data from Manitoba Follow-up study.
DOI: 10.4225/03/5b2c6223e63d4
title: Menelik head voxel model (DICOM (MR) format)

description: The Menelik head voxel model in DICOM(MR) format.<br>Filename: Menelik-DICOM(MR).dcmFile Privileges: READ WRITE <br>Image Dimensions (X, Y, Z): 396 x 514 x 442Series Length: 1Voxel Dimensions (X, Y, Z): 0.5 x 0.5 x 0.5 MillimetersSize of Series Point: 0 Seconds<br>Byte Type: 2-Byte Unsigned IntegerByte Order: Little EndianCompression: None<br>Data Orientation: Columns (X+), Rows (Y-), Slices (Z+)<br>Image ID: MENELIKDICOMSC01 MENELIK DICOM SC<br><br>
DOI: 10.4225/03/5b2c63270939c
title: Menelik head voxel model (DES file format)

description: The Menelik head voxel model in DES file format<br>Header Filename: Menelik-DES.desImage Filename: Menelik-DES.imaFile Privileges: READ WRITE File Size: 85.8 Mb<br>Image Dimensions (X, Y, Z): 396 x 514 x 442Series Length: 1Voxel Dimensions (X, Y, Z): 0.5 x 0.5 x 0.5 MillimetersSize of Series Point: 0 (Unit Unknown)<br>Byte Type: 1-Byte Unsigned IntegerCompression: None<br>Data Orientation: Columns (X+), Rows (Y-), Slices (Z+)<br>
DOI: 10.4225/03/5b2c63a5428ae
title: Menelik head voxel model (in NIFTI format)

description: The Menelik head voxel model in NIFTI format.Dimension: 396x514x442 (xyz)Voxel size: 0.5 0.5 0.5 (mm)Byte type: 1-Byte unsigned integerCompression: GZIPData Orientaion: Column(X+), Rows(Y-), Slices(Z+)File Format: NIFTI<br>
DOI: 10.4225/03/5b2c64a59c8d2
title: Menelik head voxel model (with CST Studio and SEMCAD X header files)

description: The folder contains the Menelik voxel model (Menelik_Raw.raw) , which is an 8 bits unsigned integer binary file. The dimension of the matrix is 396x514x442 (x,y,z), with spacing of 0.5 mm in each direction.<br>The folder also contains voxel header files for CST Studio- CST-voxel.vox contains header information- CST-Material.txt contains the electromagnetic materials properties of the anatomical structures defined at 100 MHz (the values can be changed later after importing voxel data in CST Studio).<br>"SEMCAD X Color Names.txt" file contains the RGB color code and tissue names to use along with "Menelik_Raw.raw" when importing to SEMCAD X.<br>
DOI: 10.6084/m9.figshare.6649031
title: Data.xls

description: The outcome of interspecific competition is affected by numerous abiotic and biotic factors. Here we demonstrate an aspect of interspecific competition: the genotype of a conspecific neighbour determines the outcome of interspecific competition through phenotypic plasticity in a perennial plant,<i> Plantago asiatica</i>. We investigated effects of the genotype of neighbour sibling or non-sibling <i>P. asiatica </i>plants on competition with <i>Trifolium repens</i> plants when <i>Plantago</i> plants were separated above or below ground from <i>T. repens</i>, separated below ground from each other or not separated. Seed production of <i>P. asiatica</i> individuals was negatively correlated with biomass of <i>Trifolium repens</i>. Sibling but not non-sibling pairs of <i>P. asiatica </i>plants increased leaf placement in the direction of <i>T. repens</i> plants, which was negatively correlated with biomass of <i>T. repens </i>and positively correlated with seed production of<i> P. asiatica</i>. Seed production of <i>P. asiatica</i> plants competing with <i>T. repens</i> was greater in individuals paired with siblings than in those paired with non-. siblings These results support the hypothesis that the genetic spatial structure within a species influences outcomes of interspecific competition through genetic-structure-dependent plasticity.<b></b>
DOI: 10.6084/m9.figshare.6649031.v1
title: Data.xls

description: The outcome of interspecific competition is affected by numerous abiotic and biotic factors. Here we demonstrate an aspect of interspecific competition: the genotype of a conspecific neighbour determines the outcome of interspecific competition through phenotypic plasticity in a perennial plant,<i> Plantago asiatica</i>. We investigated effects of the genotype of neighbour sibling or non-sibling <i>P. asiatica </i>plants on competition with <i>Trifolium repens</i> plants when <i>Plantago</i> plants were separated above or below ground from <i>T. repens</i>, separated below ground from each other or not separated. Seed production of <i>P. asiatica</i> individuals was negatively correlated with biomass of <i>Trifolium repens</i>. Sibling but not non-sibling pairs of <i>P. asiatica </i>plants increased leaf placement in the direction of <i>T. repens</i> plants, which was negatively correlated with biomass of <i>T. repens </i>and positively correlated with seed production of<i> P. asiatica</i>. Seed production of <i>P. asiatica</i> plants competing with <i>T. repens</i> was greater in individuals paired with siblings than in those paired with non-. siblings These results support the hypothesis that the genetic spatial structure within a species influences outcomes of interspecific competition through genetic-structure-dependent plasticity.<b></b>
DOI: 10.5281/zenodo.4007163
title: Chembl antiviral ranked by cosine similarity to SARS-CoV-2 in KG-COVID-19 knowledge graph

description: Chembl antiviral ranked by cosine similarity to SARS-CoV-2 in KG-COVID-19 knowledge graph
DOI: 10.5281/zenodo.4007162
title: Chembl antiviral ranked by cosine similarity to SARS-CoV-2 in KG-COVID-19 knowledge graph

description: Chembl antiviral ranked by cosine similarity to SARS-CoV-2 in KG-COVID-19 knowledge graph
DOI: 10.6084/m9.figshare.6648536
title: Luteibacter mycovicinus growth and characterization

description: One file (DBL43Growth.jpg) contains a picture demonstrating the ability of <i>Luteibacter mycovicinus </i>9143 to form colonies across different media types, and under different conditions. Also shown are representative results from motility assays with this strain in different media types. Each panel shown the type of media and number of days of growth, as well as differences within the media type where noted.<br>Also included is a PDF containing data and methods of analyses carried out by the DSMZ. These include genomic hybridization of the type strain of <i>Luteibacter mycovicinus </i>(strain 9143, which is labelled DBL433 in our collection) to the type strain of <i>Luteibacter rhizovicinus </i>LJ96 (labelled DBL1164 in our collection). Also included in these results are characterization of respiratory quinones, cellular fatty acids, and polar lipids.
DOI: 10.6084/m9.figshare.6648536.v1
title: Luteibacter mycovicinus growth and characterization

description: One file (DBL43Growth.jpg) contains a picture demonstrating the ability of <i>Luteibacter mycovicinus </i>9143 to form colonies across different media types, and under different conditions. Also shown are representative results from motility assays with this strain in different media types. Each panel shown the type of media and number of days of growth, as well as differences within the media type where noted.<br>Also included is a PDF containing data and methods of analyses carried out by the DSMZ. These include genomic hybridization of the type strain of <i>Luteibacter mycovicinus </i>(strain 9143, which is labelled DBL433 in our collection) to the type strain of <i>Luteibacter rhizovicinus </i>LJ96 (labelled DBL1164 in our collection). Also included in these results are characterization of respiratory quinones, cellular fatty acids, and polar lipids.
DOI: 10.6084/m9.figshare.6647240
title: Theoretical ribosomal protein mass fingerprint of Proteus mirabilis

description: This is a dataset containing the theoretical molecular mass of various ribosomal proteins in the large and small ribosome subunit of <i>Proteus mirabilis.</i><br><br>
DOI: 10.6084/m9.figshare.6647240.v1
title: Theoretical ribosomal protein mass fingerprint of Proteus mirabilis

description: This is a dataset containing the theoretical molecular mass of various ribosomal proteins in the large and small ribosome subunit of <i>Proteus mirabilis.</i><br><br>