cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh2906207.08fu
title: SH2906207.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906208.08fu
title: SH2906208.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.5281/zenodo.7067423
title: Measurement Report: Investigation of pH- and particle size-dependent chemical and optical properties of water-soluble organic carbon: implications for its sources and aging processes

description: The original dataset of the manuscript: "Measurement Report: Investigation of pH- and particle size-dependent chemical and optical properties of water-soluble organic carbon: implications for its sources and aging processes"
DOI: 10.5281/zenodo.7195826
title: Evaluation of PD-L1 expression in vulvar cancer

description: <strong>background & Aims: </strong>Vulvar cancer accounts for about 4% of all female genital malignancies. Squamous cell carcinoma is the most common histological type.PD-L1 is a membranous protein of nucleated cells. By binding to its PD-1 receptor, PD-L1 inactivates T lymphocytes. It plays a key role in the treatment of some cancers. Our aims were to study the expression profile of PD-L1 in vulvar cancer by immunohistochemistry and to correlate its expression with survival rates. <strong>Methods:</strong> A retrospective study was conducted in the Pathology Department of Saleh Azaiez Institute, involving 55 patients followed for vulvar cancer over a period of 13 years from January 2008 to December 2021. Clinicopathologic data were collected from medical records and pathology reports. Immunohistochemical analysis was performed using an automaton (Leica Biosystems™). <strong>Results:</strong> PD-L1 expression in vulvar squamous cell carcinoma was observed in 44% of cases. This expression was noted in 11% of cases at the level of lymphocytes whose dissection was negative in all cases with a maximum tumor size of 40 mm. PDL1 was expressed in tumor cells in 33% of cases where there was a positive inguinal dissection in 22% of cases and a maximum tumor size of 90 mm. <strong>Conclusions:</strong> The immune checkpoint inhibitor PD-1/PD-L1 seems to have an important prognostic effect on the development of some cancers (breast cancer, lymphoma). Indeed, the expression of PD-L1 in tumors is often considered a factor of poor prognosis due to its immunosuppressive activity in tumor tissues. Many studies have attempted to determine the prognostic factors of vulvar cancer in order to optimize therapeutic management. PD-L1 expression in vulvar squamous cell carcinoma has not been studied before, hence the interest of our study which suggested, as in the literature, a prognostic role for this protein.
DOI: 10.6073/pasta/3f2717e614e96d67bbe59918a75ee646
title: Meteorological data from the Discovery Tree at the Andrews Experimental Forest, 2015 to present

description: The upper-canopy of forests is known to experience a very different leaf wetness than the rest of the forest: it is often simultaneously brighter, hotter, windier, and drier. The upper canopy also contains most of the leaf area, and because it absorbs most of the solar radiation, it accounts for the great majority of carbon and water exchanges in most forests. Critically, this is also the zone where most climate variations and stress likely manifest. The upper canopy is also the region of the forest that is sampled by satellite imagery. Intensive canopy microclimate monitoring provides connections to satellite-based imagery at varying temporal and spatial scales in order to scale across the Andrews landscape and improves our understanding of forest function and its response to climate change. A 50 meter old growth tree, called the Discovery Tree, was instrumented with various sensors. A thermal infrared camera was installed in March 2014, which collects surface temperatures of the old-growth forest and the adjacent secondary-growth forest. Since then, the scope of information being acquired in real-time has increased to include temperature, leaf wetness, relative humidity, soil temperature, soil moisture, wind direction and speed. This suite of data serves as a glimpse into the canopy and soil processes we are unaware of when our feet are planted firmly on the ground. These measurements complement and leverage ongoing, long-term climate measurements collected in the sub-canopy and at the climate stations located across the Andrews forest, and potentially link with Lidar data on canopy structure and planned soil moisture measurements. Canopy thermal imaging and microclimate measurements have been established for ecophysiological applications such as monitoring the response of forest tree canopies to climate variations, including heat and drought stress.
DOI: 10.6073/pasta/3f91778c2f6ad46c3cc70b61f02532db
title: Textural soil data, Colombia, 0 - 100 cm

description: The textural soil data is a harmonized and structured data set with information related to soil particle-size fractions (PSF) such as clay, sand, and silt, as transformed data. The transformed data was obtained through additive log-ratio transformation because the PSF are compositional data. The textural soil data was fitted to five standard depths using the quadratic function with equal areas (spline). Standard depths were: 0 - 5 cm, 5 - 15 cm, 15 - 30 cm, 30 - 60 cm, and 60 - 100 cm. The original data was obtained from Sistema de Información de Suelos de Latinoamérica y el Caribe - SISLAC, a soil information system developed by the Food and Agriculture Organization of the United Nations.
DOI: 10.6073/pasta/d6c0bf5847aa40836b42dcc3e0ea874e
title: Textural soil maps, Colombia, 0 - 100 cm

description: These are the first texture maps of Colombia, obtained from national and global digital soil mapping products. The maps were developed at five standard depths (0-5, 5-15, 15-30, 30-60, and 60-100 cm) and standardized with Additive log-ratio (ALR) transformation. The maps were harmonized at 1 square km of spatial resolution. The data packages include the following set maps: texture maps obtained through the Ensemble Machine Learning (EML) algorithms called landmap and MACHISPLIN; texture maps obtained from SoilGrids platform; residual maps of the texture of the algorithms referenced above; and finally texture maps obtained through spatial ensemble technique.
DOI: 10.6084/m9.figshare.21426021
title: Supplementary Material for: Operational Definitions of Treatment Response and Remission in Obsessive-Compulsive Disorder Capture Meaningful Improvements in Everyday Life

description: <b><i>Introduction:</i></b> The operational definitions of treatment response, partial response, and remission in obsessive-compulsive disorder (OCD) are widely used in clinical trials and regular practice. However, the clinimetric sensitivity of these definitions, that is, whether they identify patients that experience meaningful changes in their everyday life, remains unexplored. <b><i>Objective:</i></b> The objective was to examine the clinimetric sensitivity of the operational definitions of treatment response, partial response, and remission in children and adults with OCD. <b><i>Methods:</i></b> Pre- and post-treatment data from five clinical trials and three cohort studies of children and adults with OCD (<i>n</i> = 1,528; 55.3% children, 61.1% female) were pooled. We compared (1) responders, partial responders, and non-responders and (2) remitters and non-remitters on self-reported OCD symptoms, clinician-rated general functioning, and self-reported quality of life. Remission was also evaluated against post-treatment diagnostic interviews. <b><i>Results:</i></b> Responders and remitters experienced large improvements across validators. Responders had greater improvements than partial responders and non-responders on self-reported OCD symptoms (Cohen’s <i>d</i> 0.65–1.13), clinician-rated functioning (Cohen’s <i>d</i> 0.53–1.03), and self-reported quality of life (Cohen’s <i>d</i> 0.63–0.73). Few meaningful differences emerged between partial responders and non-responders. Remitters had better outcomes across most validators than non-remitters. Remission criteria corresponded well with absence of post-treatment diagnosis (sensitivity/specificity: 93%/83%). Using both the Yale-Brown Obsessive-Compulsive Scale (Y-BOCS) and the Clinical Global Impression Scale yielded more conservative results and more robust changes across validators, compared to only using the Y-BOCS. <b><i>Conclusions:</i></b> The current definitions of treatment response and remission capture meaningful improvements in the everyday life of individuals with OCD, whereas the concept of partial response has dubious clinimetric sensitivity.
DOI: 10.6084/m9.figshare.21427947
title: Supplementary Material for: Comparison of Different Anti-<b><i>Demodex</i></b> Strategies: A Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> <i>Demodex</i> mites are related to some inflammatory diseases such as rosacea and blepharitis and could be harmful in patients with immunodeficiency or immunosuppression, especially notable in patients using biologic like dupilumab. In order to have an objective observation of different anti-<i>Demodex</i> strategies, we conducted this study, based on interventional clinical evidence with quantified <i>Demodex</i> mite data. <b><i>Methods:</i></b> We used the PubMed, Embase, ClinicalTrials.gov, Medline, and International Clinical Trials Registry Platform (ICTRP) as databases. To assess the risk of bias, the RoB2 and ROBINS-I tools were used. The certainty of evidence was assessed following the GRADE guideline. Furthermore, the effect sizes (ESs) of different strategies were compared in different time periods (0–1, 1–2, 2–3, &gt;3 months), as well as <i>Demodex</i> decrease rates. <b><i>Results:</i></b> 1,618 studies were identified in the databases, with 21 of which included in the final quantitative synthesis. Interventions in these studies included ivermectin, tea tree oil (TTO), permethrin, crotamiton, metronidazole, light therapies, combined therapies, and other therapies. During 0–1 month, the ES varied from 0.07 (cleanser) to 1.95 (systemic ivermectin-metronidazole). During 1–2 months, the ES varied from 0.88 (topical permethrin) to 4.40 (topical ivermectin). During 2–3 months, the ES varied from 0.79 (topical permethrin) to 8.37 (topical ivermectin). During the time of 3 months, the ES varied from 0.59 (topical permethrin) to 2.25 (intense pulsed light [IPL]). In terms of <i>Demodex</i> decrease rates, topical ivermectin, TTO, permethrin, IPL, and baby shampoo had achieved a nearly 100% decrease. The reported adverse events were mostly mild, without severe adverse events reported in any of the studies. <b><i>Conclusions:</i></b> We found ivermectin (topical and systemic), ivermectin-metronidazole (topical), and TTO (topical) are promising anti-<i>Demodex</i> interventions. In addition to traditional pharmacotherapy, light therapies, especially IPL and skin cleansing, could also be considered as effective methods to control <i>Demodex</i> mite infestation.
DOI: 10.6084/m9.figshare.21428109
title: Supplementary Material for: Body Composition Assessment by Dual-Energy X-Ray Absorptiometry: A Useful Tool for the Diagnosis of Lipedema

description: <b><i>Introduction:</i></b> Lipedema is a poorly known condition. Diagnosis is based almost exclusively on clinical criteria, which may be subjective and not always reliable. This study aimed to investigate regional body composition (BC) by dual-energy X-ray absorptiometry (DXA) in patients with lipedema and healthy controls and to determine cut-off values of fat mass (FM) indices to provide an additional tool for the diagnosis and staging of this condition. <b><i>Methods:</i></b> This study is a single-center case-control study performed at Lausanne University Hospital, Switzerland. Women with clinically diagnosed lipedema underwent regional BC assessment by DXA. The control group without clinical lipedema was matched for age and body mass index (BMI) at a ratio of 1:2 and underwent similar examination. Regional FM (legs, arms, legs and arms, trunk, android and gynoid FM) was measured in (kg) and divided by FM index (FMI) (kg/m<sup>2</sup>) and total FM (kg). The trunk/legs and android/gynoid ratios were calculated. For all indices of FM distribution showing a significant difference between cases and controls, we defined the receiver operating characteristic (ROC) curves, calculating the area under the curve (AUC), sensitivity, specificity, and Youden’s index. Types and stages of lipedema were compared in terms of FM indices. Correlation analyses between all FM distribution indices and lipedema stages were performed. <b><i>Results:</i></b> We included 222 women (74 with lipedema and 148 controls). Overall, the mean age was 41 years (standard deviation [SD] 11), and mean BMI was 30.9 kg/m<sup>2</sup> (SD 7.6). A statistically significant difference was observed for all DXA-derived indices of FM distribution between groups, except for arm FM indices. The ROC curve analysis of leg FM/total FM, as a potential indicator of lipedema, resulted in an AUC of 0.90 (95% confidence interval 0.86–0.94). According to Youden’s index, optimal cut-off value identifying lipedema was 0.384. Sensitivity and specificity were 0.95 and 0.73, respectively. We found no significant differences between lipedema types and stages in terms of FM indices, nor significant correlations between the latter and lipedema stages. <b><i>Discussion/Conclusion:</i></b> BC assessment by DXA, and particularly calculation of the leg FM/total FM index, is a simple tool that may help clinicians rule out lipedema in doubtful cases.
DOI: 10.15156/bio/sh2906209.08fu
title: SH2906209.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906210.08fu
title: SH2906210.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906211.08fu
title: SH2906211.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906212.08fu
title: SH2906212.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906213.08fu
title: SH2906213.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906214.08fu
title: SH2906214.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2906215.08fu
title: SH2906215.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.