cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22274965.v1
title: Supplementary Material for: BASELINE PREDICTORS OFLONGITUDINAL COGNITIVE OUTCOMES IN PERSONS WITH MILD COGNITIVE IMPAIRMENT (MCI)

description: Introduction To explore longitudinal cognitive outcomes and to ascertain predictors of conversion to dementia in a hospital-based MCI cohort classified according to the neuropsychological phenotype at baseline Materials & Methods Subjects aged &gt;55 years who had a clinical diagnosis of MCI at initial visit between 2010-2018, with at least one formal neuropsychological assessment at baseline and follow up of a minimum of 2 years were included. The prospective study was completed based on evaluation at last follow up to gauge conversion to dementia, quantification of performance on activities of daily living and where available longitudinal neuropsychological test scores. Results Ninety-five patients with MCI met the inclusion criteria with a mean age of 68.4 ±6.4yrs at baseline and a mean duration of follow-up for 6.4 ±3.2 yrs. The cumulative conversion rate to dementia was 22.2% (21/95) and the annualized conversion rate (ACR) was 3.3 % per year of follow up. The majority of subjects who had converted had multidomain MCI (66%). Only white-matter changes on MRI brain revealed correlation with baseline neuropsychology tests. The multivariate logistic regression analysis revealed the utility of lower baseline list recognition (adjusted odds ratio-0.735[95% confidence interval-0.589-0.916]; p-0.006), lower immediate logical memory (0.885[0.790-0.990]; p-0.03) and high perseverative error scores on set-shifting (3.116[1.425-6.817]; p-0.004) as predictors of conversion. A model score of +2.615 could predict conversion with sensitivity of 72% and specificity of 98% over 6.4 years follow up. Conclusion There was a higher risk of conversion associated with multidomain MCI. Logistic regression-based estimations of dementia risk utilizing domain-based neuropsychology test scores in MCI have high specificity for diagnosis at baseline.
DOI: 10.6084/m9.figshare.10282691.v1
title: Detection of Mycoplasma genitalium using Direct PCR

description: Detection of <i>Mycoplasma genitalium </i>using direct PCR. The information shared shows the 352 swab samples used in this study.
DOI: 10.6084/m9.figshare.27755649.v1
title: Supplementary Material for: Facial Filler Injections– Questions Patients Ask and Where They Find Answers

description: Introduction: The most pressing questions patients ask about facial fillers and the sources to which patients are directed remain incompletely understood. 
Methods: The search engine optimization tool Ahrefs was utilized to extract Google metadata on searches performed in the United States. The most frequently asked questions were categorized by topic, while websites were categorized by authoring organization. JAMA benchmark criteria were used for website information quality assessment.
Results: A total of 300 questions for the term “fillers” were extracted. The majority of search queries (24.0%) and monthly search volume (39.3%) pertained to procedural costs. The mean JAMA score for private practice sources (1.1 ± 0.57) was significantly lower than that of corporate sources (2.6 ± 0.55, p= 0.0003) but not significantly lower than academic pages (1.6 ± 1.34, p=0.483). With respect to monthly search volume, queries concerning lip fillers have been increasingly asked at a rate that exceeds other injection sites. 
Conclusion: Online searches for facial fillers often involve the topic of cost, and frequently direct patients to websites that contain inadequate information on authorship, attribution, disclosure and currency. When compared to other anatomic sites, search queries involving lip fillers have increased over the last three years.
DOI: 10.6084/m9.figshare.26779465.v1
title: <b>Source data: </b><b>Lactic acid in the vaginal milieu modulates the </b><b><i>Candida-</i></b><b>host interaction</b>

description: <b>This is the source data of: </b><b>Lactic acid in the vaginal milieu modulates the </b><b><i>Candida-</i></b><b>host interaction</b>Diletta Rosati<sup>1,#,*</sup>, Marisa Valentine<sup>2,#</sup>, Mariolina Bruno<sup>1</sup>, Arnab Pradhan<sup>3</sup>, Axel Dietschmann<sup>4</sup>, Martin Jaeger<sup>1</sup>, Ian Leaves<sup>3</sup>, Frank L. van de Veerdonk<sup>1</sup>, Leo A.B. Joosten<sup>1,5</sup>, Sumita Roy<sup>3</sup>, Mark H. T. Stappers<sup>3</sup>, Neil A.R. Gow<sup>3</sup>, Bernhard Hube<sup>2</sup><sup>,</sup><sup>6</sup>, Alistair J.P. Brown<sup>3</sup>, Mark S. Gresnigt<sup>4,#*</sup>, Mihai G. Netea<sup>1,7,#</sup><sup>1</sup><sup> </sup>Department of Internal Medicine and Radboud Center for Infectious Diseases, Radboud University Medical Center, 6525 GA, Nijmegen, The Netherlands.<sup>2</sup><sup> </sup>Department of Microbial Pathogenicity Mechanisms, Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute, 07745, Jena, Germany.<sup>3</sup><sup> </sup>Medical Research Council Centre for Medical Mycology, University of Exeter, Geoffrey Pope Building, Stocker Road, Exeter, EX4 4QD, United Kingdom.<sup>4</sup><sup> </sup>Junior Research Group Adaptive Pathogenicity Strategies, Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute, 07745, Jena, Germany.<sup>5</sup><sup> </sup>Department of Medical Genetics, Iuliu Hatieganu University of Medicine and Pharmacy, 400001 Cluj-Napoca, Romania.<sup>6</sup><sup> </sup>Institute of Microbiology, Friedrich-Schiller-University, Jena, Germany.<sup>7</sup><sup> </sup>Department of Immunology and Metabolism, Life and Medical Sciences Institute (LIMES), University of Bonn, 53115, Bonn, Germany.<sup>#</sup><sup> </sup>These authors contributed equally to this work.<b>*Correspondence:</b><b>Diletta Rosati</b>Department of Internal Medicine, Radboud University Medical CenterGeert Grooteplein Zuid 8, 6525 GA, Nijmegen, The NetherlandsE-mail: diletta.rosati@radboudumc.nl<br><b>Mark Gresnigt</b>Junior Research Group Adaptive Pathogenicity Strategies, Leibniz Institute for Natural Product Research and Infection Biology, Adolf-Reichwein-Str. 23, 07749, Jena, Germany<br>E-Mail: mark.gresnigt@leibniz-hki.de<br>
DOI: 10.6084/m9.figshare.6973856.v1
title: Supplementary Material for: The Impact of Depressive Disorder Symptoms and Subtypes on 6-Year Incidence of Somatic Diseases

description: Medicine
DOI: 10.6084/m9.figshare.5861820.v1
title: Linkage disequilibrium and population structure in Fragaria chiloensis revealed by SSR markers transferred from commercial strawberry

description: ABSTRACT. The Chilean strawberry [Fragaria chiloensis (L.) Mill.] is the maternal progenitor of the commercial strawberry (Fragaria ( ananassa Duch.), which is characterized by fruits with high organoleptic quality and is well-suited to areas where drought and salinity represent a constraint on crop growth and productivity. We examined the patterns of linkage disequilibrium, genetic diversity and population structure among 54 accessions of F. chiloensis to understand the genetic basis of this species. We used a core microsatellite marker set (n = 95) from a consensus linkage map of strawberry. A transferability rate of 82.1% (78/95) was found, and 38 markers were selected for this study. The SSR primers produced a total of 259 alleles, which varied between 112 and 342 bp. Lower genetic diversity at the species level (HE = 0.17, Shannon’s index = 0.28) was found compared to previous studies of this species. No climatic region pattern for SSR diversity was observed. Structure analysis suggests that the accessions are grouped into three significantly differentiated clusters. Pairwise estimates of φST indicated a low degree of differentiation between the three genetic groups (φST = 0.023 to 0.06). These groups are in concordance with potential glacial refugia in the region, with many accessions being an admixture of them.
DOI: 10.4121/19673580.v1
title: Data and materials underlying the dissertation: "Species Literacy: The perception and cultural portrayal of animals"

description: This dataset underlies the dissertation of Michiel Hooykaas: "Species Literacy: The perception and cultural portrayal of animals". This thesis covers research on people’s knowledge about animal species, the way in which animals are represented in cultural products aimed at children, and ways to expand the role of biodiversity in laypeople’s lives. The research involved both quantitative methods (e.g. knowledge tests and content analyses) and qualitative methods (interviews).
DOI: 10.6084/m9.figshare.23807355.v1
title: Soil biogeochemical variables

description: Soil biogeochemistry data
DOI: 10.17028/rd.lboro.7461722.v1
title: Supplementary information files for article: 'The future scope of large-scale solar in the UK: site suitability and target analysis'

description: Supplementary information files for article: 'The future scope of large-scale solar in the UK: site suitability and target analysis'.<br>Abstract:This paper uses site suitability analysis to identify locations for solar farms in the UK to help meet climate change targets. A set of maps, each representing a given suitability criterion, is created with geographical information systems (GIS) software. These are combined to give a Boolean map of areas which are appropriate for large-scale solar farm installation. Several scenarios are investigated by varying the criteria, which include geographical (land use) factors, solar energy resource and electrical distribution network constraints. Some are dictated by the physical and technical requirements of large-scale solar construction, and some by government or distribution network operator (DNO) policy. It is found that any suitability map which does not heed planning permission and grid constraints will overstate potential solar farm area by up to 97%. This research finds sufficient suitable land to meet Future Energy Scenarios (UK National Grid outlines for the coming energy landscape).
DOI: 10.6084/m9.figshare.19214382.v1
title: Reassessment of the volumes of sediment sources and sinks on Venus: Supporting Datasets

description: This repository contains the supporting materials associated with Ganey et al. (2023), published in Planetary Science Journal (https://doi.org/10.3847/PSJ/aca521) - it includes: <br> [visible_parabolas.shp] – Shapefiles (and auxiliary files) for the radar-dark visible parabolas identified in Campbell et al. (1992) [doi: 10.1029/92JE01634]. [modeled_parabolas.shp] – Shapefiles (and auxiliary files) for the parabolas modeled after Basilevsky et al. (2004) [doi: 10.1029/2004JE002307]. [sed_fields.shp] – Shapefiles (and auxiliary files) for the known aeolian feature fields (dunes, microdunes and yardangs). They were first identified in Greeley et al. (1992) [doi: 10.1029/92JE00980] and Weitz et al. (1994) [doi: 10.1006/icar.1994.1181]. [Sum_Thickness.tif] – Global impact-generated sediment thickness (4.6 km per pixel). [Sum_Volume.tif] – Global impact-generated sediment volume (4.6 km per pixel). [Craters.xlsx] – List of craters used for this study with visible and modeled parabolas.
DOI: 10.6084/m9.figshare.25241716.v1
title: Spatial distribution files

description: This folder contains the HIV datasets, shapefiles and figures for the spatial distribution and determinants of HIV high burden in the Southern African sub-region.
DOI: 10.6084/m9.figshare.7768586.v1
title: Vegetation Disturbance Product Comparison

description: These data were produced for a standardized comparison of vegetation disturbance products across California for 2001 to 2010 using Google Earth Engine (Palomino and Kelly 2019. <i>Differing Sensitivities to Fire Disturbance Result in Large Differences Among Remotely Sensed Products of Vegetation Disturbance</i>). <br>The original data were gathered from various sources including Hansen Global Forest Change, North American Forest Dynamics, LANDFIRE, Monitoring Trends in Burn Severity (MTBS), and CALFIRE Fire and Resource Assessment Program (FRAP) database.
DOI: 10.6084/m9.figshare.9927986.v2
title: opt-SNE datasets

description: Data files referenced within the opt-SNE preprint (https://doi.org/10.1101/451690) are available for download belowFlow18parameter18 parameter fluorescent flow cytometry file from http://doi.wiley.com/10.1002/cyto.a.22983.flow18_annotated.fcs - an FCS file with all original channels. An extra channel is included that identifies cell types assigned by expert gating. The data are compensated and all fluorescent parameters scaled by the function asinh(x/150).flow18_for_optsne.csv - the data from above but converted to a CSV file that can be used as input to the open-source Multicore-opt-SNE package. Only channels used for opt-SNE analysis are included in the file. Note that the events are sorted by class ID, so if subsetting the file it is recommended to randomize the row order beforehand.tsne_results_flow18.csv - an example of opt-SNE results for the Flow18parameter dataset.Mass41parameter41 parameter mass cytometry dataset from https://doi.org/10.1126/science.1198704.mass41_annotated.fcs - an FCS file produced by concatenation of multiple files from the original dataset. An extra channel is included that identifies cell types assigned by expert gating. An additional extra channel identifies file of origin. All mass parameters are scaled by the function asinh(x/5).mass41_for_optsne.csv - the data from above but converted to a CSV file that can be used as input to the open-source Multicore-opt-SNE package. Only channels used for opt-SNE analysis are included in the file. Note that the events are sorted by class ID, so if subsetting the file it is recommended to randomize the row order beforehand.tsne_results_mass41.csv - an example of opt-SNE results for the Mass41parameter dataset.
DOI: 10.6084/m9.figshare.5127790.v1
title: Supplementary Material for: Tissue Transglutaminase, Not Lysyl Oxidase, Dominates Early Calcium-Dependent Remodeling of Fibroblast-Populated Collagen Lattices

description: Cell-populated collagen gels have provided significant insight into the cellular contractile mechanisms and cell-matrix interactions that are necessary for compacting and remodeling extant matrix. Nevertheless, little research has been devoted towards determining how cells entrench these deformations that contribute to establishing a preferred mechanical state. To this end, we examined the roles of two covalent matrix cross-linkers, i.e. tissue transglutaminase and lysyl oxidase, during global remodeling of the free-floating fibroblast-populated collagen lattice. Inhibition of tissue transglutaminase resulted in a reduced rate of compaction compared to controls during early remodeling (up to 2 days). In contrast, inhibition of lysyl oxidase did not alter the early compaction of these lattices, but it reduced the compaction after 2 days of culture. Acute inhibition of different contractile mechanisms suggested further that calcium-dependent contractility may have dominated during the initial remodeling of the collagen lattice before giving way to calcium-independent contractility at later times. In summary, these findings suggest that early remodeling of the free-floating collagen lattice is facilitated by calcium-dependent cell contraction while entrenchment is dominated by a tissue transglutaminase-mediated cross-linking of the extant matrix. As remodeling continues, however, lysyl oxidase increases its contribution, perhaps by consolidating de novo collagen fibrils into fibers to continue the remodeling while the cells transition to a more sustained, calcium-independent contractility. These results promise to influence future tissue engineering studies as well as computational simulations aimed at understanding matrix remodeling in complex in vivo situations.
DOI: 10.6084/m9.figshare.c.3602945_d1.v1
title: Additional file 5: of Correlation of an epigenetic mitotic clock with cancer risk

description: epiTOCcpgs.RData. An R object data file containing the 450Â k probe IDs of the 385 PCGT CpGs that make up epiTOC. (RDATA 1Â kb)
DOI: 10.6084/m9.figshare.21550707.v1
title: Supplementary Material for: Protocol-dependent morphological changes in human embryonic stem cell aggregates during differentiation towards early pancreatic fate

description: Cell therapy is one of the promising approaches used against type1 diabetes. Efficient generation of Human embryonic stem cell (hESC)-derived pancreatic progenitors (PPs) is of great importance. Since signaling pathways underlying human pancreas development is not yet fully understood, various differentiation protocols are conducted each considering variable duration, timing and concentrations of growth factors and small molecules. Therefore, we compared two PP differentiation protocols in static suspension culture. We tested modified protocols developed by Pagliuca et al. (protocol-1) and Royan researchers (protocol-2) until early PP stage. The morphological changes of hESC aggregates during differentiation, and also gene and protein expression after differentiation were evaluated. Different morphological structures were formed in each protocol. Quantitative gene expression analysis, flow cytometry and immunostaining revealed a high level of PDX1 expression on day 13 of Royan’s differentiation protocol compared to protocol-1. Our data showed that using protocol-2, cells were further differentiated until day16 showing higher efficiency of early PPs. Moreover, protocol-2 is able to produce hESCs-PPs in a static suspension culture. Since protocol-2 is inexpensive in terms of media, growth factors and chemicals, it can be used for massive production of PPs using static and dynamic suspension cultures.
DOI: 10.6084/m9.figshare.22811483.v1
title: Supplementary Material for: Pediatric Glioma Models Provide Insights into Tumor Development and Future Therapeutic Strategies

description: In depth study of pediatric gliomas has been hampered due to difficulties in accessing patient tissue and a lack of clinically-representative tumor models. Over the last decade, however, profiling of carefully curated cohorts of pediatric tumors has identified genetic drivers that molecularly segregate pediatric gliomas from adult gliomas. This information has inspired the development of a new set of powerful in vitro and in vivo tumor models that can aid in identifying pediatric-specific oncogenic mechanisms and tumor-microenvironment interactions. Single-cell analyses of both human tumors and these newly developed models has revealed that pediatric gliomas arise from spatiotemporally discrete neural progenitor populations in which developmental programs have become dysregulated. pHGGs also harbor distinct sets of co-segregating genetic and epigenetic alterations, often accompanied by unique features within the tumor microenvironment. The development of these novel tools and data resources has led to insights into the biology and heterogeneity of these tumors, including identification of distinctive sets of driver mutations, developmentally restricted cells of origin, recognizable patterns of tumor progression, characteristic immune environments, and tumor hijacking of normal microenvironmental and neural programs. As concerted efforts have broadened our understanding of these tumors, new therapeutic vulnerabilities have been identified, and for the first time promising new strategies are being evaluated in the preclinical and clinical settings. Even so, dedicated and sustained collaborative efforts are necessary to refine our knowledge and bring these new strategies into general clinical use. In this review, we will discuss the range of currently available glioma models, the way in which they have each contributed to recent developments in the field, their benefits and drawbacks for addressing specific research questions, and their future utility in advancing biological understanding and treatment of pediatric glioma.
DOI: 10.6084/m9.figshare.5241295.v1
title: Erratum: Towards a European Term for Complementary and Alternative Medicine (CAM): Complementary European Medicine (CEM)

description: Medicine
DOI: 10.6084/m9.figshare.23939449.v1
title: Evolved Late Mesozoic continental arc: Constraints of detrital zircons from the western East China Sea

description: The Late Mesozoic subduction of Izanagi slab beneath East Asia formed large-scale intraplate magmatism in SE South China and subduction mélanges outcropped in SW Japan to eastern Taiwan Island, but the accompanying arc remains uncertain. We conducted LA-ICP-MS U–Pb zircon dating and trace element analyses of proximal sandstones from the SW East China Sea to trace a Jurassic to Cretaceous magmatic arc. Newly acquired data reveal that arc magmatism mostly developed in episodes of 150–124 and 124–102 Ma, exhibiting characteristics of low-<i>T</i>, high Th/U, U/Yb, Sc/Yb, Th/Nb, and low Nb/Yb, Nb/Hf ratios. This magmatic arc, combined with the SE South China intraplate and residual subduction mélanges, spatially forms a Late Mesozoic trench–arc–intraplate architecture responding to the Izanagi subduction. Its identified tectonic scenarios mainly include slab strike-slip subduction (200–170 Ma), slab stagnation and intraplate foundering (170–150 Ma), slab rollback and arc-root removal (150–102 Ma), and arc migration (102–86 Ma). Both the western East China Sea and Cathaysia block share a unified Paleoproterozoic basement that formed at ca. 1.85 Ga, and the Cathaysia-based magmatic arc occurred then.
DOI: 10.6084/m9.figshare.13317857.v1
title: Data for Determining a Better 25(OH)D Index.sav

description: Dataset for Determining a Better 25(OH)D Index in Association with Bone Density and Muscle Mass<br>
DOI: 10.6084/m9.figshare.9816257.v1
title: Supplementary Material for: Association between Deep Gray Matter Changes and Neurocognitive Function in Mild Cognitive Impairment and Alzheimer’s Disease: A Tensor-Based Morphometric MRI Study

description: <b><i>Background:</i></b> Atrophy of the deep gray matter (DGM) has been associated with a risk of conversion from mild cognitive impairment (MCI) to Alzheimer’s disease (AD) and the degree of cognitive impairment. However, specific knowledge of the associations between degenerative DGM changes and neurocognitive functions remains limited. <b><i>Objective:</i></b> To examine degenerative DGM changes and evaluate their association with neurocognitive functions. <b><i>Method:</i></b> We examined DGM volume changes with tensor-based morphometry (TBM) and analyzed the relationships between DGM changes and neurocognitive functions in control (<i>n</i> = 58), MCI (<i>n</i> = 38), and AD (<i>n</i> = 58) groups with multiple linear regression analyses. <b><i>Results:</i></b> In all DGM areas, the AD group had the largest changes in TBM volume. The differences in TBM volume changes were larger between the control group and the AD group than between the other pairs of groups. In the AD group, volume changes of the right thalamus were significantly associated with episodic memory, learning, and semantic processing. Significant or trend-level associations were identified between bilateral caudate nucleus changes and episodic memory as well as semantic processing. In the control and MCI groups, very few significant associations emerged. <b><i>Conclusions:</i></b> Atrophy of the DGM structures, especially the thalamus and caudate nucleus, is related to cognitive impairment in AD. DGM atrophy is associated with tests reflecting both subcortical and cortical cognitive functions.
DOI: 10.6084/m9.figshare.16903084.v2
title: The Data of 38 Selected Urban Private Garden Cases in Suzhou

description: This dataset is about related data of 38 selected urban private gardens calculated by Depthmap according to the segment map of Suzhou based on <i>Gu Su Cheng Tu</i>(Map of Suzhou City) which was drawn in 1975.