cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5245570
title: Data and code from 'Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species'

description: Data and code for analyses in Glynou et al., Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species.<br>Contains:- README.pdf: Description of contents.<br>- MiSeq_process.sh : Bash script with the bioinformatic pipeline used for process and annotation of Illumina MiSeq reads (R1 reads only). Demultiplexed sequence data is deposited in the NCBI Sequence Read Archive under accession SRP106137.<br>- Phylogenetic_analyses : Bash script and data for phylogenetic analyses of all OTUs obtained after the MiSeq reads processing.<br><br>- All_OTU_phylogenies.zip : Maximum-likelihood phylogenetic trees (Newick format) and associated sequence annotations used for OTU classifications.<br>- R_code.zip : R commands and data sets for statistical analyses.
DOI: 10.6084/m9.figshare.5245585.v2
title: Supplementary Table 4

description: Differentially expressed genes from PCD ovarian cancer analysis, with log fold change, p values and adjusted p values.<br>
DOI: 10.6084/m9.figshare.5245570.v1
title: Data and code from 'Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species'

description: Data and code for analyses in Glynou et al., Facultative root-colonizing fungi dominate endophytic assemblages in roots of non-mycorrhizal Microthlaspi species.<br>Contains:- README.pdf: Description of contents.<br>- MiSeq_process.sh : Bash script with the bioinformatic pipeline used for process and annotation of Illumina MiSeq reads (R1 reads only). Demultiplexed sequence data is deposited in the NCBI Sequence Read Archive under accession SRP106137.<br>- Phylogenetic_analyses : Bash script and data for phylogenetic analyses of all OTUs obtained after the MiSeq reads processing.<br><br>- All_OTU_phylogenies.zip : Maximum-likelihood phylogenetic trees (Newick format) and associated sequence annotations used for OTU classifications.<br>- R_code.zip : R commands and data sets for statistical analyses.
DOI: 10.6084/m9.figshare.5245585.v1
title: Supplementary table 3

description: Differentially expressed genes from PCD ovarian cancer analysis, with log fold change, p values and adjusted p values.<br>
DOI: 10.6084/m9.figshare.5245534
title: Cost-effectiveness of G5 Mobile continuous glucose monitoring device compared to self-monitoring of blood glucose alone for people with type 1 diabetes from the Canadian societal perspective

description: <b>Aims:</b> To evaluate the cost-effectiveness of real-time continuous glucose monitoring (CGM) compared to self-monitoring of blood glucose (SMBG) alone in people with type 1 diabetes (T1DM) using multiple daily injections (MDI) from the Canadian societal perspective. <b>Methods:</b> The IMS CORE Diabetes Model (v.9.0) was used to assess the long-term (50 years) cost-effectiveness of real-time CGM (G5 Mobile CGM System; Dexcom, Inc., San Diego, CA) compared with SMBG alone for a cohort of adults with poorly-controlled T1DM. Treatment effects and baseline characteristics of patients were derived from the DIAMOND randomized controlled clinical trial; all other assumptions and costs were sourced from published research. The accuracy and clinical effectiveness of G5 Mobile CGM is the same as the G4 Platinum CGM used in the DIAMOND randomized clinical trial. Base case assumptions included (a) baseline HbA1c of 8.6%, (b) change in HbA1c of –1.0% for CGM users vs –0.4% for SMBG users, and (c) disutilities of –0.0142 for non-severe hypoglycemic events (NSHEs) and severe hypoglycemic events (SHEs) not requiring medical intervention, and –0.047 for SHEs requiring medical resources. Treatment costs and outcomes were discounted at 1.5% per year. <b>Results:</b> The incremental cost-effectiveness ratio for the base case G5 Mobile CGM vs SMBG was $33,789 CAD/quality-adjusted life-year (QALY). Sensitivity analyses showed that base case results were most sensitive to changes in percentage reduction in hypoglycemic events and disutilities associated with hypoglycemic events. The base case results were minimally impacted by changes in baseline HbA1c level, incorporation of indirect costs, changes in the discount rate, and baseline utility of patients. <b>Conclusions:</b> The results of this analysis demonstrate that G5 Mobile CGM is cost-effective within the population of adults with T1DM using MDI, assuming a Canadian willingness-to-pay threshold of $50,000 CAD per QALY.
DOI: 10.6084/m9.figshare.5245534.v2
title: Cost-effectiveness of G5 Mobile continuous glucose monitoring device compared to self-monitoring of blood glucose alone for people with type 1 diabetes from the Canadian societal perspective

description: <b>Aims:</b> To evaluate the cost-effectiveness of real-time continuous glucose monitoring (CGM) compared to self-monitoring of blood glucose (SMBG) alone in people with type 1 diabetes (T1DM) using multiple daily injections (MDI) from the Canadian societal perspective. <b>Methods:</b> The IMS CORE Diabetes Model (v.9.0) was used to assess the long-term (50 years) cost-effectiveness of real-time CGM (G5 Mobile CGM System; Dexcom, Inc., San Diego, CA) compared with SMBG alone for a cohort of adults with poorly-controlled T1DM. Treatment effects and baseline characteristics of patients were derived from the DIAMOND randomized controlled clinical trial; all other assumptions and costs were sourced from published research. The accuracy and clinical effectiveness of G5 Mobile CGM is the same as the G4 Platinum CGM used in the DIAMOND randomized clinical trial. Base case assumptions included (a) baseline HbA1c of 8.6%, (b) change in HbA1c of –1.0% for CGM users vs –0.4% for SMBG users, and (c) disutilities of –0.0142 for non-severe hypoglycemic events (NSHEs) and severe hypoglycemic events (SHEs) not requiring medical intervention, and –0.047 for SHEs requiring medical resources. Treatment costs and outcomes were discounted at 1.5% per year. <b>Results:</b> The incremental cost-effectiveness ratio for the base case G5 Mobile CGM vs SMBG was $33,789 CAD/quality-adjusted life-year (QALY). Sensitivity analyses showed that base case results were most sensitive to changes in percentage reduction in hypoglycemic events and disutilities associated with hypoglycemic events. The base case results were minimally impacted by changes in baseline HbA1c level, incorporation of indirect costs, changes in the discount rate, and baseline utility of patients. <b>Conclusions:</b> The results of this analysis demonstrate that G5 Mobile CGM is cost-effective within the population of adults with T1DM using MDI, assuming a Canadian willingness-to-pay threshold of $50,000 CAD per QALY.
DOI: 10.6084/m9.figshare.5245534.v1
title: Cost Effectiveness of G5 Mobile Continuous Glucose Monitoring (CGM) device Compared with Self-Monitoring of Blood Glucose (SMBG) alone for people with Type 1 diabetes from the Canadian societal Perspective

description: <b>Aims:</b> To evaluate the cost-effectiveness of real-time continuous glucose monitoring (CGM) compared to self-monitoring of blood glucose (SMBG) alone in people with type 1 diabetes (T1DM) using multiple daily injections (MDI) from the Canadian societal perspective. <b>Methods:</b> The IMS CORE Diabetes Model (v.9.0) was used to assess the long-term (50 years) cost-effectiveness of real-time CGM (G5 Mobile CGM System; Dexcom, Inc., San Diego, CA) compared with SMBG alone for a cohort of adults with poorly-controlled T1DM. Treatment effects and baseline characteristics of patients were derived from the DIAMOND randomized controlled clinical trial; all other assumptions and costs were sourced from published research. The accuracy and clinical effectiveness of G5 Mobile CGM is the same as the G4 Platinum CGM used in the DIAMOND randomized clinical trial. Base case assumptions included (a) baseline HbA1c of 8.6%, (b) change in HbA1c of -1.0% for CGM users versus -0.4% for SMBG users, and (c) disutilities of -0.0142 for non-severe hypoglycemic events (NSHEs) and severe hypoglycemic events (SHEs) not requiring medical intervention and -0.047 for SHEs requiring medical resources. Treatment costs and outcomes were discounted at 1.5% per year. <b>Results:</b> The incremental cost-effectiveness ratio for the base case G5 Mobile CGM versus SMBG was $33,789 CAD/quality-adjusted life-year (QALY). Sensitivity analyses showed that base case results were most sensitive to changes in percent reduction in hypoglycemic events and disutilities associated with hypoglycemic events. The base case results were minimally impacted by changes in baseline HbA1c level, incorporation of indirect costs, changes in the discount rate, and baseline utility of patients. <b>Conclusions:</b> The results of this analysis demonstrate that G5 Mobile CGM is cost effective within the population of adults with T1DM using MDI, assuming a Canadian willingness-to-pay threshold of $50,000 CAD per QALY.
DOI: 10.6084/m9.figshare.5245465
title: Late Cretaceous basalts and rhyolites from Shimaoshan Group in eastern Fujian Province, SE China: age, petrogenesis, and tectonic implications

description: Southeastern China is characterized by an extensive Late Mesozoic (Yanshanian) tectono-magmatic-metallogenic event. Although Late Cretaceous volcanism gradually weakened during the epilogue of the Yanshanian event, its petrogenesis and geodynamic processes remain unclear. In this study, we present new zircon U–Pb–Hf isotopic, whole-rock elemental, and Sr–Nd isotopic compositions data, for volcanic rocks from the Zhaixia Formation of the Shimaoshan Group in Fujian Province. The lower member of the Zhaixia Formation consists of basalts and rhyolites, and the upper member is only rhyolites. These volcanic rocks erupted in the early stage of Late Cretaceous, with basalts erupting earlier (ca. 99–98 Ma) than rhyolites (ca. 98–94 Ma). These basalts record high-K calc-alkaline to shoshonitic, light rare earth element (LREE)- and LILE-enrichment, high field strength element (HFSE)depletion with negligible Eu anomalies, and uniform whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) (–3 to –6) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) (–3.3 to –14.1) values. The overlying rhyolites record peraluminous and high-K calc-alkaline characteristics, LREE- and LILE-enrichment with negative Eu anomalies, and Nb–Ta depletion. The whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) values of these rhyolites both increase from the lower member (<i>ε</i><sub>Nd</sub>(<i>t</i>), –1.5 to –4.7; <i>ε</i><sub>Hf</sub>(<i>t</i>), –5.1 to –16.1) to the upper member (<i>ε</i><sub>Nd</sub>(<i>t</i>), –0.5 to 0.1; <i>ε</i><sub>Hf</sub>(<i>t</i>), –0.3 to –4.3). The features imply that these basalts were derived from the partial melting of the enriched lithospheric mantle and the overlying rhyolites from the melting of the crustal components, respectively. Data from the rhyolites in the upper member indicate that more juvenile, Nd–Hf isotopically depleted materials were injected into their source. During the Late Cretaceous, the new, fast rollback of the subducting slab triggered lithospheric extension and asthenospheric upwelling beneath the coastal regions, which induced the melting of lithospheric mantle and crustal components. As continued, the new round of basaltic underplating provided necessary heat to cause partial melting of the deep crust, including the younger, juvenile, and isotopically depleted crustal components.
DOI: 10.6084/m9.figshare.5245465.v1
title: Late Cretaceous basalts and rhyolites from Shimaoshan Group in eastern Fujian Province, SE China: age, petrogenesis, and tectonic implications

description: Southeastern China is characterized by an extensive Late Mesozoic (Yanshanian) tectono-magmatic-metallogenic event. Although Late Cretaceous volcanism gradually weakened during the epilogue of the Yanshanian event, its petrogenesis and geodynamic processes remain unclear. In this study, we present new zircon U–Pb–Hf isotopic, whole-rock elemental, and Sr–Nd isotopic compositions data, for volcanic rocks from the Zhaixia Formation of the Shimaoshan Group in Fujian Province. The lower member of the Zhaixia Formation consists of basalts and rhyolites, and the upper member is only rhyolites. These volcanic rocks erupted in the early stage of Late Cretaceous, with basalts erupting earlier (ca. 99–98 Ma) than rhyolites (ca. 98–94 Ma). These basalts record high-K calc-alkaline to shoshonitic, light rare earth element (LREE)- and LILE-enrichment, high field strength element (HFSE)depletion with negligible Eu anomalies, and uniform whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) (–3 to –6) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) (–3.3 to –14.1) values. The overlying rhyolites record peraluminous and high-K calc-alkaline characteristics, LREE- and LILE-enrichment with negative Eu anomalies, and Nb–Ta depletion. The whole-rock <i>ε</i><sub>Nd</sub>(<i>t</i>) and zircon <i>ε</i><sub>Hf</sub>(<i>t</i>) values of these rhyolites both increase from the lower member (<i>ε</i><sub>Nd</sub>(<i>t</i>), –1.5 to –4.7; <i>ε</i><sub>Hf</sub>(<i>t</i>), –5.1 to –16.1) to the upper member (<i>ε</i><sub>Nd</sub>(<i>t</i>), –0.5 to 0.1; <i>ε</i><sub>Hf</sub>(<i>t</i>), –0.3 to –4.3). The features imply that these basalts were derived from the partial melting of the enriched lithospheric mantle and the overlying rhyolites from the melting of the crustal components, respectively. Data from the rhyolites in the upper member indicate that more juvenile, Nd–Hf isotopically depleted materials were injected into their source. During the Late Cretaceous, the new, fast rollback of the subducting slab triggered lithospheric extension and asthenospheric upwelling beneath the coastal regions, which induced the melting of lithospheric mantle and crustal components. As continued, the new round of basaltic underplating provided necessary heat to cause partial melting of the deep crust, including the younger, juvenile, and isotopically depleted crustal components.
DOI: 10.6084/m9.figshare.5245402
title: App-study protocol - supplementary material for RCT

description: Supplementary material for the study protocol <br>"Can an App Supporting Psoriasis Patients Improve Adherence to Topical Treatment? A single-blind randomized controlled trial" <br>Additional file 1: Filled SPIRIT 2013 checklist and World Health Organization (WHO) Trial Registration Data Set. <br>Additional file 2: Danish version of advertisement material <br>Additional file 3: Licenses to use the copyright instruments Bluetooth, DLQI, and LS-PGA. Data collection forms for DLQI and LS-PGA <br>Additional file 4: Danish version of the informed consent form and the information statement for participants <br>Additional file 5: Danish version of information about the technical solutions, study medication, and diary provided to participants in intervention and non-intervention Group <br>Additional file 6: General information. Name and addresses of study site, affiliated laboratory, business partners, and public authorities providing assistance for the study <br>Additional file 7: Guidelines for publication <br>Additional file 8: Screening and reporting of adverse events (AEs) <br> <br><br>
DOI: 10.6084/m9.figshare.5245390
title: Staphylococcus epidermidis from orthopedic device-related infections

description: A comparative genomics study of <i>Staphylococcus epidermidis </i>from orthopedic device-related infections correlated with patient outcome
DOI: 10.6084/m9.figshare.5245390.v2
title: Staphylococcus epidermidis from orthopedic device-related infections

description: A comparative genomics study of <i>Staphylococcus epidermidis </i>from orthopedic device-related infections correlated with patient outcome
DOI: 10.6084/m9.figshare.5245390.v1
title: Staphylococcus epidermidis from orthopedic device-related infections

description: A comparative genomics study of <i>Staphylococcus epidermidis </i>from orthopedic device-related infections correlated with patient outcome
DOI: 10.6084/m9.figshare.5245279
title: Supplementary Material for: Androgen Regulates Dimorphic F-Actin Assemblies in the Genital Organogenesis

description: Impaired androgen activity induces defective sexual differentiation of the male reproductive tract, including hypospadias, an abnormal formation of the penile urethra. Androgen signaling in the urethral mesenchyme cells (UMCs) plays essential roles in driving dimorphic urethral development. However, cellular events for sexual differentiation remain virtually unknown. In this study, histological analyses, fluorescent staining, and transmission electron microscopy (TEM) were performed to reveal the cellular dimorphisms of UMCs. F-actin dynamics and migratory behaviors of UMCs were further analyzed by time-lapse imaging. We observed a prominent accumulation of F-actin with poorly assembled extracellular matrix (ECM) in female UMCs. In contrast, thin fibrils of F-actin co-aligning with the ECM through membrane receptors were identified in male UMCs. Processes for dimorphic F-actin assemblies were temporally identified during an androgen-regulated masculinization programming window and spatially distributed in several embryonic reproductive tissues. Stage-dependent modulation of the F-actin sexual patterns by androgen in UMCs was also demonstrated by time-lapse analysis. Moreover, androgen regulates coordinated migration of UMCs. These results suggest that androgen signaling regulates the assembly of F-actin from cytoplasmic accumulation to membranous fibrils. Such alteration appears to promote the ECM assembly and the mobility of UMCs, contributing to male type genital organogenesis.
DOI: 10.6084/m9.figshare.5245279.v1
title: Supplementary Material for: Androgen Regulates Dimorphic F-Actin Assemblies in the Genital Organogenesis

description: Impaired androgen activity induces defective sexual differentiation of the male reproductive tract, including hypospadias, an abnormal formation of the penile urethra. Androgen signaling in the urethral mesenchyme cells (UMCs) plays essential roles in driving dimorphic urethral development. However, cellular events for sexual differentiation remain virtually unknown. In this study, histological analyses, fluorescent staining, and transmission electron microscopy (TEM) were performed to reveal the cellular dimorphisms of UMCs. F-actin dynamics and migratory behaviors of UMCs were further analyzed by time-lapse imaging. We observed a prominent accumulation of F-actin with poorly assembled extracellular matrix (ECM) in female UMCs. In contrast, thin fibrils of F-actin co-aligning with the ECM through membrane receptors were identified in male UMCs. Processes for dimorphic F-actin assemblies were temporally identified during an androgen-regulated masculinization programming window and spatially distributed in several embryonic reproductive tissues. Stage-dependent modulation of the F-actin sexual patterns by androgen in UMCs was also demonstrated by time-lapse analysis. Moreover, androgen regulates coordinated migration of UMCs. These results suggest that androgen signaling regulates the assembly of F-actin from cytoplasmic accumulation to membranous fibrils. Such alteration appears to promote the ECM assembly and the mobility of UMCs, contributing to male type genital organogenesis.
DOI: 10.6084/m9.figshare.5245273
title: Supplementary Material for: Parkinsonian Patients with Striatal Cribriform State Present Rapidly Progressive Axial Parkinsonism

description: <i>Objective:</i> To define the significance of striatal cribriform state (SCS) observed in patients with primary progressive parkinsonism. <i>Methods:</i> We reviewed medical records and brain magnetic resonance imaging studies of 1,260 patients with primary progressive parkinsonism. We identified 23 patients with SCS and analyzed their clinical features. <i>Results</i>: All 23 patients had rapidly progressive parkinsonism predominated by postural instability and gait disturbance. Clinical features of 18 of the 23 patients were compatible with progressive supranuclear palsy (PSP); 2 patients were compatible with parkinsonian type multiple system atrophy; 2 patients were compatible with mixed clinical features of both; and 1 patient had PSP-like clinical features. <i>Conclusions:</i> Most parkinsonian patients with SCS present rapidly progressive parkinsonism predominated by postural instability and gait disturbance. SCS observed in patients with parkinsonism does not seem to be a coincidental finding associated with the generalized cerebrovascular process.
DOI: 10.6084/m9.figshare.5245261
title: EnergyPlus Input Data Files used to test renewable energy systems in five different climate regions of Portugal

description: This is a set of EnergyPlus v8.7.0 Input Data Files (IDFs) used to test several renewable energy production and storage systems in five different climate regions of Portugal.
DOI: 10.6084/m9.figshare.5245273.v1
title: Supplementary Material for: Parkinsonian Patients with Striatal Cribriform State Present Rapidly Progressive Axial Parkinsonism

description: <i>Objective:</i> To define the significance of striatal cribriform state (SCS) observed in patients with primary progressive parkinsonism. <i>Methods:</i> We reviewed medical records and brain magnetic resonance imaging studies of 1,260 patients with primary progressive parkinsonism. We identified 23 patients with SCS and analyzed their clinical features. <i>Results</i>: All 23 patients had rapidly progressive parkinsonism predominated by postural instability and gait disturbance. Clinical features of 18 of the 23 patients were compatible with progressive supranuclear palsy (PSP); 2 patients were compatible with parkinsonian type multiple system atrophy; 2 patients were compatible with mixed clinical features of both; and 1 patient had PSP-like clinical features. <i>Conclusions:</i> Most parkinsonian patients with SCS present rapidly progressive parkinsonism predominated by postural instability and gait disturbance. SCS observed in patients with parkinsonism does not seem to be a coincidental finding associated with the generalized cerebrovascular process.
DOI: 10.6084/m9.figshare.5245243
title: A Critical Examination of the Coherence-Based Genealogical Method in New Testament Textual Criticism

description: This study offers the first sustained examination of the Coherence-Based Genealogical Method (CBGM), a computerized method being used to edit the most widely-used editions of the Greek New Testament.<br>