cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25380/iastate.7746635.v1
title: Distributed shear apparatus experiments using semi-brittle analog Carbopol Ultrez 21

description: Journal of Geophysical Research - Solid EarthTitle: The impact of rheology on the transition from stick-slip to creep in a semi-brittle analog (Published)Authors: Thomas Birren and Jacqueline E. ReberAffiliation: Department of Geological and Atmospheric Sciences, Iowa State University, Ames, IA 50011<br>This data set contains distributed shear apparatus experiments using semi-brittle analog, Carbopol Ultrez 21 at concentrations of 1, 2, and 3 wt.%. Measurements of pulling force and displacement show the slip behavior of the material ranges from stick-slip to creep for concentrations from high to low. Additionally, we provide particle image velocimetry outputs from PIVlab (a Matlab application) containing vectorized data of flow in our experiments. Original top-looking-down, time-lapse photographs are included where fracture morphology can be easily observed.
DOI: 10.7284/119053
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1514 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7749281.v5
title: Impact of Community Smells on Bug Prediction

description: A bug prediction dataset contains code and community smells
DOI: 10.7284/119054
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1515 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119055
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1516 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746368
title: Existing Science on Human Factors and Ergonomics in the Design of Ambulances and EMS Equipment

description: <b>Background:</b> Emergency medical services (EMS) personnel face a disproportionally high risk for fatality and injury due to the nature of their work; and current ambulance and EMS equipment design standards do not adequately safeguard EMS personnel from sacrificing personal safety for patient care, a known human factors and ergonomic (HFE) design challenge. Despite the desire to include HFE interventions or considerations into a standard, the effectiveness of existing HFE interventions for EMS is unclear. <b>Objective:</b> Therefore, this study aimed to synthesize the peer-reviewed literature on the design features of patient compartments and EMS equipment that affect EMS personnel’s performance or well-being. <b>Methods:</b> A scoping review methodology was applied to systematically search and screen for relevant articles, and extract data. Three databases (EmBase, Scopus, and PubMed) were searched, and search results were screened for articles that pertained to the performance or well-being of EMS personnel when interacting with the patient compartment or its associated equipment. <b>Results and Discussion:</b> Of the 4,125 search results, 48 relevant articles were retained, and then sorted into one of 3 categories: general design, patient handling, and patient transport. It was concluded that, although research has progressed over the past 15 years, more research, development, and resources are needed. Newer generations of ambulances have not been shown to be safer during collisions and there is a knowledge gap in how occupants and contents of a patient compartment behave during a collision. Crash-tests have been performed with restrained occupants and supplies; however, that scenario is unrealistic in the field. While the existing literature provided initial ideas and innovations for improving the HFE of patient handling and patient transport, it is important for future research to convey findings in a manner that can be used to inform design standards.
DOI: 10.6084/m9.figshare.7749281.v6
title: Impact of Community Smells on Bug Prediction

description: A bug prediction dataset contains code and community smells
DOI: 10.7284/119056
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1517 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746368.v1
title: Existing Science on Human Factors and Ergonomics in the Design of Ambulances and EMS Equipment

description: <b>Background:</b> Emergency medical services (EMS) personnel face a disproportionally high risk for fatality and injury due to the nature of their work; and current ambulance and EMS equipment design standards do not adequately safeguard EMS personnel from sacrificing personal safety for patient care, a known human factors and ergonomic (HFE) design challenge. Despite the desire to include HFE interventions or considerations into a standard, the effectiveness of existing HFE interventions for EMS is unclear. <b>Objective:</b> Therefore, this study aimed to synthesize the peer-reviewed literature on the design features of patient compartments and EMS equipment that affect EMS personnel’s performance or well-being. <b>Methods:</b> A scoping review methodology was applied to systematically search and screen for relevant articles, and extract data. Three databases (EmBase, Scopus, and PubMed) were searched, and search results were screened for articles that pertained to the performance or well-being of EMS personnel when interacting with the patient compartment or its associated equipment. <b>Results and Discussion:</b> Of the 4,125 search results, 48 relevant articles were retained, and then sorted into one of 3 categories: general design, patient handling, and patient transport. It was concluded that, although research has progressed over the past 15 years, more research, development, and resources are needed. Newer generations of ambulances have not been shown to be safer during collisions and there is a knowledge gap in how occupants and contents of a patient compartment behave during a collision. Crash-tests have been performed with restrained occupants and supplies; however, that scenario is unrealistic in the field. While the existing literature provided initial ideas and innovations for improving the HFE of patient handling and patient transport, it is important for future research to convey findings in a manner that can be used to inform design standards.
DOI: 10.6084/m9.figshare.7746287
title: PPTC PDX DNA MAFs and other files

description: WES somatic and private variant MAF file and germline MAF file, mutations per model
DOI: 10.7284/119057
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1518 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746287.v1
title: PPTC PDX DNA MAFs

description: WES somatic and private variant MAF file and germline MAF file
DOI: 10.7284/119058
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1519 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746239
title: Analysis of mitochondrial and chloroplast genomes in two volvocine algae: <i>Eudorina elegans</i> and <i>Eudorina cylindrica</i> (Volvocaceae, Chlorophyta)

description: The colonial volvocine algae span the full range of organizational complexity, from four-celled species to multicellular species, and this group of algae is often used for the study of evolution. In recent years, many organelle genomes have been sequenced using the application of next generation sequencing technology; however, only a few organelle genomes have been reported in colonial volvocine algae. In this study, we determined the organelle genomes of <i>Eudorina elegans</i> and <i>Eudorina cylindrica</i> and analysed the organelle genome size, structure and gene content between these volvocine species. This provided useful information to help us understand the composition of colonial volvocine organelle genomes. Based on the chloroplast genome protein-coding genes, we conducted a phylogenomics analysis of the volvocine algae. The result revealed an unexpected phylogenetic relationship, namely, <i>E. elegans</i> is more closely related to <i>Pleodorina starrii</i> than to <i>E. cylindrica</i>. The substitution rate of volvocine algae was then calculated based on organelle genome protein-coding genes; our analysis suggested the possibility that the two <i>Eudorina</i> species may be under similar evolutionary pressure. Lastly, the synteny analysis of the mitochondrial genome showed that gene arrangements and contents are highly conserved in the family Volvocaceae, and the synteny analysis of the chloroplast genome indicated that the genus <i>Eudorina</i> may have experienced genomic changes.
DOI: 10.6084/m9.figshare.7746215
title: Arsenic PAH Immune Function.xlsx

description: Data is from a male Bangladeshi cohort exposed environmental arsenic and PAHs. Immune function testing (T cell mitogenesis and cytokine production) were measured in isolated peripheral blood mononuclear cells which had been cryopreserved.<br>
DOI: 10.7284/119059
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1520 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746236
title: Schuck & Niv fMRI data

description: FMRI nifiti data from Schuck & Niv 2019
DOI: 10.6084/m9.figshare.7746239.v1
title: Analysis of mitochondrial and chloroplast genomes in two volvocine algae: <i>Eudorina elegans</i> and <i>Eudorina cylindrica</i> (Volvocaceae, Chlorophyta)

description: The colonial volvocine algae span the full range of organizational complexity, from four-celled species to multicellular species, and this group of algae is often used for the study of evolution. In recent years, many organelle genomes have been sequenced using the application of next generation sequencing technology; however, only a few organelle genomes have been reported in colonial volvocine algae. In this study, we determined the organelle genomes of <i>Eudorina elegans</i> and <i>Eudorina cylindrica</i> and analysed the organelle genome size, structure and gene content between these volvocine species. This provided useful information to help us understand the composition of colonial volvocine organelle genomes. Based on the chloroplast genome protein-coding genes, we conducted a phylogenomics analysis of the volvocine algae. The result revealed an unexpected phylogenetic relationship, namely, <i>E. elegans</i> is more closely related to <i>Pleodorina starrii</i> than to <i>E. cylindrica</i>. The substitution rate of volvocine algae was then calculated based on organelle genome protein-coding genes; our analysis suggested the possibility that the two <i>Eudorina</i> species may be under similar evolutionary pressure. Lastly, the synteny analysis of the mitochondrial genome showed that gene arrangements and contents are highly conserved in the family Volvocaceae, and the synteny analysis of the chloroplast genome indicated that the genus <i>Eudorina</i> may have experienced genomic changes.
DOI: 10.6084/m9.figshare.7746287.v2
title: PPTC PDX DNA MAFs

description: WES somatic and private variant MAF file and germline MAF file
DOI: 10.6084/m9.figshare.7746236.v2
title: Schuck & Niv fMRI data

description: FMRI nifiti data from Schuck & Niv 2019
DOI: 10.6084/m9.figshare.7746287.v3
title: PPTC PDX DNA MAFs and other files

description: WES somatic and private variant MAF file and germline MAF file, mutations per model
DOI: 10.7284/119060
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1521 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746287.v5
title: PPTC PDX DNA MAFs and other files

description: WES somatic and private variant MAF file and germline MAF file, mutations per model
DOI: 10.7284/119061
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1522 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746287.v4
title: PPTC PDX DNA MAFs and other files

description: WES somatic and private variant MAF file and germline MAF file, mutations per model
DOI: 10.7284/119062
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1523 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119063
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1524 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7746074
title: Data and Code for "Population structure determines the tradeoff between fixation probability and fixation time"

description: Data and Code for "Population structure determines the tradeoff between fixation probability and fixation time" and the related Mathematica notebooks used for producing the plots.
DOI: 10.6084/m9.figshare.7746074.v1
title: Data and Code for "Population structure determines the tradeoff between fixation probability and fixation time"

description: Data and Code for "Population structure determines the tradeoff between fixation probability and fixation time" and the related Mathematica notebooks used for producing the plots.
DOI: 10.7284/119064
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1525 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119065
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1526 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119066
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1527 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119067
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1528 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/119068
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1529 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745969
title: U-RVDBv15.1

description: Reference Viral Databases (RVDB-prot and RVDB-prot-HMM) were developed by Thomas Bigot in Marc Eloit’s Pathogen Discovery group in collaboration with Center of Bioinformatics, Biostatistics and Integrative Biology (C3BI) at Institut Pasteur, for enhancing virus detection using next-generation sequencing (NGS) technologies. They are based on the reference Viral DataBase, courtesy of Arifa Khan’s group at CBER, FDA:https://hive.biochemistry.gwu.edu/rvdb/.They are updated after each new release of the nucleotidic database. The version number of the protein databases follows the one of the original nucleic database.
DOI: 10.7284/123371
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1530 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7745900
title: Supplementary Material for: A Design-Based Stereologic Method to Quantify the Tissue Changes Associated with a Novel Drug-Eluting Tracheobronchial Stent

description: <b><i>Background:</i></b> Granulation tissue is a common complication of airway stenting, but no published methods can quantify the volume and type of tissue that develops. <b><i>Objective:</i></b> To use design-based stereology to quantify changes in tissue volume and type associated with airway stenting. <b><i>Methods:</i></b> We compared drug-eluting stents (DES) filled with gendine to standard silicone stents in pigs in an assessor-blinded randomized trial. Tracheal stents were placed via rigid bronchoscopy. After 1 month, animals were euthanized and necropsies were performed. Antimicrobial effects of the DES were assessed in trachea tissue samples, on the DES surface, and with residual gel from the DES reservoir. Tracheal thickness was measured using orthogonal intercepts. Design-based stereology was used to quantify the volume density of tissues using a point-counting method. The volume of each tissue was normalized to cartilage volume, which is unaffected by stenting. <b><i>Results:</i></b> Pigs were randomized to DES (<i>n</i> = 36) or control stents (<i>n</i> = 9). The drug was successfully eluted from the DES, and the stent surface showed antibacterial activity. DES and controls did not differ in tissue microbiology, tracheal thickness, or granulation tissue volume. Compared to nonstented controls, stented airways demonstrated a 110% increase in soft-tissue volume (<i>p</i> = 0.005). Submucosal connective tissue (118%; <i>p</i> &lt; 0.0001), epithelium (70%; <i>p</i> &lt; 0.0001), submucosal glands (47%; <i>p</i> = 0.001), and smooth muscle (41%; <i>p</i> &lt; 0.0001) increased in volume. <b><i>Conclusion:</i></b> Stenting doubles the volume of soft tissue in the trachea. Design-based stereology can quantify the tissue changes associated with airway stenting.
DOI: 10.6084/m9.figshare.7745966
title: Late Pleistocene and Holocene terrestrial geomorphodynamics and soil formation in northeastern Germany: a review of geochronological data

description: This study is based on 616 geochronological ages from aeolian and colluvial sediments as well as paleosols, representing the largest database of geochronological data from northeastern Germany available to date. Cumulative probability density functions for radiocarbon data and kernel density estimates for luminescence data were created covering the last 15 ka. The data analysis aimed at the identification of changes and their drivers in geomorphodynamics and soil formation. The ages representing aeolian activity cluster in the Late Glacial, the Early Holocene, and the Late Holocene, where the first two clusters are assumed to result mostly from climatic impact with only a minor share of human impact triggering the mobilization of aeolian sediments. The third cluster is considered to result mainly from human impact. The Late Glacial to Early Holocene activity phase is interrupted by a phase of surface stability around 11.5–12.7 ka, which is indicated by the occurrence of initial soil formations of Finow and Usselo types. Colluvial sedimentation predominantly occurred during the last 7 ka and clearly accelerated since the last 1000 a. According to the ages of specific paleosol types, related soil-forming processes started already in the Late Glacial and were completed in the Holocene.
DOI: 10.6084/m9.figshare.7745966.v1
title: Late Pleistocene and Holocene terrestrial geomorphodynamics and soil formation in northeastern Germany: a review of geochronological data

description: This study is based on 616 geochronological ages from aeolian and colluvial sediments as well as paleosols, representing the largest database of geochronological data from northeastern Germany available to date. Cumulative probability density functions for radiocarbon data and kernel density estimates for luminescence data were created covering the last 15 ka. The data analysis aimed at the identification of changes and their drivers in geomorphodynamics and soil formation. The ages representing aeolian activity cluster in the Late Glacial, the Early Holocene, and the Late Holocene, where the first two clusters are assumed to result mostly from climatic impact with only a minor share of human impact triggering the mobilization of aeolian sediments. The third cluster is considered to result mainly from human impact. The Late Glacial to Early Holocene activity phase is interrupted by a phase of surface stability around 11.5–12.7 ka, which is indicated by the occurrence of initial soil formations of Finow and Usselo types. Colluvial sedimentation predominantly occurred during the last 7 ka and clearly accelerated since the last 1000 a. According to the ages of specific paleosol types, related soil-forming processes started already in the Late Glacial and were completed in the Holocene.
DOI: 10.6084/m9.figshare.7745969.v1
title: U-RVDBv15.1

description: Reference Viral Databases (RVDB-prot and RVDB-prot-HMM) were developed by Thomas Bigot in Marc Eloit’s Pathogen Discovery group in collaboration with Center of Bioinformatics, Biostatistics and Integrative Biology (C3BI) at Institut Pasteur, for enhancing virus detection using next-generation sequencing (NGS) technologies. They are based on the reference Viral DataBase, courtesy of Arifa Khan’s group at CBER, FDA:https://hive.biochemistry.gwu.edu/rvdb/.They are updated after each new release of the nucleotidic database. The version number of the protein databases follows the one of the original nucleic database.
DOI: 10.6084/m9.figshare.7745900.v1
title: Supplementary Material for: A Design-Based Stereologic Method to Quantify the Tissue Changes Associated with a Novel Drug-Eluting Tracheobronchial Stent

description: <b><i>Background:</i></b> Granulation tissue is a common complication of airway stenting, but no published methods can quantify the volume and type of tissue that develops. <b><i>Objective:</i></b> To use design-based stereology to quantify changes in tissue volume and type associated with airway stenting. <b><i>Methods:</i></b> We compared drug-eluting stents (DES) filled with gendine to standard silicone stents in pigs in an assessor-blinded randomized trial. Tracheal stents were placed via rigid bronchoscopy. After 1 month, animals were euthanized and necropsies were performed. Antimicrobial effects of the DES were assessed in trachea tissue samples, on the DES surface, and with residual gel from the DES reservoir. Tracheal thickness was measured using orthogonal intercepts. Design-based stereology was used to quantify the volume density of tissues using a point-counting method. The volume of each tissue was normalized to cartilage volume, which is unaffected by stenting. <b><i>Results:</i></b> Pigs were randomized to DES (<i>n</i> = 36) or control stents (<i>n</i> = 9). The drug was successfully eluted from the DES, and the stent surface showed antibacterial activity. DES and controls did not differ in tissue microbiology, tracheal thickness, or granulation tissue volume. Compared to nonstented controls, stented airways demonstrated a 110% increase in soft-tissue volume (<i>p</i> = 0.005). Submucosal connective tissue (118%; <i>p</i> &lt; 0.0001), epithelium (70%; <i>p</i> &lt; 0.0001), submucosal glands (47%; <i>p</i> = 0.001), and smooth muscle (41%; <i>p</i> &lt; 0.0001) increased in volume. <b><i>Conclusion:</i></b> Stenting doubles the volume of soft tissue in the trachea. Design-based stereology can quantify the tissue changes associated with airway stenting.