cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25662090
title: Supplementary Material for: Shape-Sensing Robotic-Assisted Bronchoscopy in the Multiple Pulmonary Nodules Diagnosis During a Single Anesthetic Event

description: Introduction: The widespread use of Computed tomography (CT) as a screening tool for early lung cancer has increased detection of pulmonary lesions. It is common to encounter patients with more than one peripheral pulmonary nodule (PPN) of uncertain etiology. Shape-sensing robotic-assisted bronchoscopy (ssRAB) emerges as a potential alternative to biopsy multiple PPN, in addition to mediastinal staging in single anesthetic procedure. 

Methods: Retrospective review of 22 patients who underwent ssRAB for evaluation of two or more PPN, between November 2021 and April 2023 at Mayo Clinic Florida, US. 

Results: A total of 46 PPN were biopsied in 22 patients. All lesions were ≤ 2 cm with a maximum and minimum median lesion size of 1.40cm and 1.05cm, respectively. Diagnostic yield was 84.8% (n=39) and target reach was 91.3% (n=42). Most lesions were in the upper lobes, a solid pattern was found in 78.3% (n=36), bronchus sign was present in 82.6% of cases (n=38), 54.4% (n=25) were malignant nodules, and 30.4% (n=14) were benign. Fourteen patients had one malignant lesion out of two or more nodules sampled and ten patients had a malignant diagnosis for all sampled lesions. The complication rate was 9% (n=2) and pneumothorax rate was 4.5% (n=1). 

Conclusion: This study is, to our knowledge, the first to assess the use and safety of ssRAB for diagnosis of multiple PPN in a single anesthetic event. This procedure will mainly impact management decisions and subsequently shorten the time from diagnosis to treatment.
DOI: 10.6084/m9.figshare.25782324
title: Supplementary Material for: Motivation and confidence about physical activity in COPD patients: health benefits matter to patients.

description: Introduction: Physical activity (PA) has shown great benefits in patients with chronic obstructive pulmonary disease (COPD), however, their PA is below average. Motivational factors associated with PA in COPD have not been widely studied and could be a target for improving adherence to PA. The objective of our study was to identify and understand the different motivational and confidence factors related to low levels of PA in a COPD cohort.
Method: Observational, prospective, multicentre study of COPD patients. Sociodemographic data, respiratory symptoms, comorbidities, spirometry and exercise capacity were collected. PA was measured using the Dynaport accelerometer and patient motivation and confidence in PA were assessed by a questionnaire previously used in a COPD population in the United States. 
Results: Eighty-six COPD patients were included, 68.6% being male, with a mean (SD) age of 66.6 (8.5) years and a mean forced expiratory volume in the first second (%) of 50.9% (17.3%). The mean walking time was 82.8 (37.8) minutes/day. Questions related to health benefits and enjoying exercise were ranked highest in the motivation questionnaire and statistically significant differences were found in PA measures between patients with low and high motivation. A lack of confidence regarding hot weather and health-related issues significantly influenced PA levels. Advice from third parties, including healthcare providers, was not associated with higher PA levels. 
Conclusions: Improving the health of COPD patients is their main motivation to perform PA. Lack of confidence when it is hot or when they fear for their health is related to low levels of PA. Advice from third parties, including healthcare professionals, is not associated with higher PA. These results are relevant for developing strategies to increase the adherence of COPD patients to PA programmes.
DOI: 10.6084/m9.figshare.25877524
title: Supplementary Material for: Prediction of Cognitive Impairment Risk among Older Adults: A Machine-Learning Based Comparative Study and Model Development

description: Detecting cognitive decline early in the older adults is crucial for effective intervention. This study, part of the Ma'anshan Healthy Aging Cohort Study, examined 2,288 participants with normal cognitive function. Forty-two potential predictors, including demographics, chronic diseases, lifestyle factors, and baseline cognitive function, were selected. The dataset was divided into training, validation, and test sets (60%, 20%, and 20%, respectively). Recursive feature elimination (RFE) and six machine learning algorithms were used for model development. Model performance was assessed using area under the curve (AUC), specificity, sensitivity, and accuracy. SHapley Additive exPlanations (SHAP) was applied for interpretability, revealing the top ten influential features: baseline MMSE, education, economic status, social activities, PSQI, BMI, SBP, DBP, IADL, and age. The Naïve Bayes (NB) algorithm-based model achieved an AUC of 0.820 (95% CI 0.773-0.887) on the test set, outperforming other algorithms. This model can help primary healthcare staff in community settings identify individuals at higher risk of cognitive impairment within three years among older adults.
DOI: 10.6084/m9.figshare.25989109.v1
title: LGGmiRMetCNV_Source_data

description: This is the source data file for graphs generated for our manuscript "Integrative analysis of genomic and epigenomic regulation reveals microRNA regulatory network mediated tumor heterogeneity and immune evasion in lower grade glioma"
DOI: 10.15151/esrf-dc-1443749474
title: Structure formation and structure evolution during high moisture extrusion of soy proteins

description: There is growing societal awareness that the current agricultural production of animal proteins is ecologically not sustainable. The food industry is now exploring radical new avenues to provide consumers with plant-based meat alternatives. High-moisture extrusion has been adopted as a technology that allows for upscaling and serving a growing market. A limitation of the currently commercially used HME process is the lack of robustness against variations in ingredient and processing conditions. The main cause is a lack of insight into how multiscale protein structures evolve during shear processing. The dead-stop operation is a feasible and effective method to collect material from different extruder and cooling die zones. In this study, we use (U)SAXS to study the evolution of meat analogue structure by sampling material after a dead stop.
DOI: 10.15468/dl.sc478r
title: Occurrence Download

description: A dataset containing 210 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Festuca dolichophylla J.Presl",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 210 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007599-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p966vo0n
title: Spatial data of oil and gas pads and access roads on the Colorado Plateau, Utah, Colorado, and New Mexico

description: This data release contains spatial data on the location, number, size and extent of energy-related surface disturbances on the Colorado Plateau of Utah, Colorado, and New Mexico as of 2016. The database includes: 1) polygons of oil and gas pads generated from automated and manual classification of aerial imagery, and 2) polylines of roads derived from the U.S. Census Bureau TIGER/Line Shapefile, supplemented with additional oil and gas access roads digitized from aerial imagery. Pad polygons and road segments are attributed with a "spud year" date based on spud information from the nearest well point. Spudding is the process of beginning to drill a well in the oil and gas industry, and the spud year is a close approximation of when the access roads and pads were cleared for development. The spud year information can be used to develop a chronology of oil and gas surface disturbances across the study region. The remote sensing-based pad mapping captures bright soil of disturbed areas on active pads (not reclaimed areas or other features), and is likely an underestimate of the actual pad size in many areas. The remote sensing mapping methods may also capture areas of bright soils that are not part of a pad, especially in locations surrounded by very bright desert soils.
DOI: 10.5281/zenodo.10518818
title: Data and code for "Centimeter-scale nanomechanical resonators with low dissipation"

description: This dataset contains the data and the code supporting the publication "Centimeter-scale nanomechanical resonators with low dissipation".
DOI: 10.5281/zenodo.11118168
title: Distribution Map of Festuca dolichophylla (suplemental material-TS1)

description: The distribution map of Festuca dolichophylla relies on diverse data sources. Geographical coordinates (latitude and longitude) and country initials (countryCode) were extracted from Tropicos, the Gbif repository (up to May 2019), and the iDigBio database (up to July 2021). Additionally, data from other sources, including BMAP Peru (2023), Eduardo-Palomino (2022), Ccora et al. (2019), Arana et al. (2013), Castro (2019), Flores (2017), Gonzales (2017), and Martínez y Pérez (1999), were integrated. The Gbif data points are associated with gbifID numbers for reference. Please note that this compilation provides essential information for understanding the distribution of F. dolichophylla across various regions.

Software

Organized data by geographic coordinates was uploaded to ArcGIS Pro v. 3.2.0 for map production. Geospatial visualization and mapping were carried out using ArcGIS Pro, allowing us to create the distribution map of F. dolichophylla.

Methods



The dataset for the distribution map of Festuca dolichophylla was meticulously collected from various sources.





Data Collection:



Tropicos: Data were extracted from Tropicos until December 2023.

Gbif Repository: Data was sourced from the Gbif repository until May 2019.

iDigBio Database: Additional data points were retrieved from the iDigBio database up to July 2021.

Other Sources: We also incorporated data from various other sources, including BMAP Peru (2023), Eduardo-Palomino (2022), Ccora et al. (2019), Arana et al. (2013), Castro (2019), Flores (2017), Gonzales (2017), and Martínez y Pérez (1999).





Data Organization and Processing:



All collected data points were meticulously organized by coordinates.

We ensured consistency by cross-referencing and validating the data.

The dataset was then uploaded to ArcGIS Pro v. 3.2.0 for map production.

Geospatial visualization and mapping were carried out using ArcGIS Pro, allowing us to create the distribution map of F. dolichophylla.





Funding



Neotropical Grassland Conservancy, Award: Memorial grant 2020
DOI: 10.5281/zenodo.11314960
title: Data for "Slow Rupture in a Fluid-rich Fault Zone Initiated the 2024 Mw 7.5 Noto Earthquake"

description: Files for our 3D deformation maps, Back-Projection results, static slip model, and kinematic slip model for the 2024 Mw 7.5 Noto earthquake.
DOI: 10.5281/zenodo.6547151
title: MItosis DOmain Generalization Challenge 2022 (MICCAI MIDOG 2022), Training data set (PNG version)

description: This is the training dataset of the MItosis DOmain Generalization (MIDOG) challenge 2022, held in conjunction with MICCAI 2022. Please find the structured challenge description at 10.5281/zenodo.6362337. The training set consists of 405 tumor cases in total across six tumor types: Canine Lung Cancer (44 cases, scanned with 3DHistech Pannoramic Scan II) Human Breast Cancer (150 cases, scanned using three scanners, part of MIDOG2021 dataset) Canine Lymphoma (55 cases, scanned with 3DHistech Pannoramic Scan II) Human neuroendocrine tumor (55 cases, scanned with Hamamatsu NanoZoomer XR) Canine Cutaneous Mast Cell Tumor (50 cases, scanned with Aperio ScanScope CS2) Human melanoma (51 cases, scanned with Hamamatsu NanoZoomer XR) (no labels provided) From each WSI, a trained pathologist selected an area of 2mm² corresponding to approximately 10 high power fields, according to the grading scheme of Elston and Ellis. We cropped this area and provide it as PNG files in this data set due to restrictions in data set size on zenodo. Each file includes the resolution (in dots per inch, DPI) of the original scanned images. The training set contains 9501 mitotic figures (MF) and 11051 hard examples (non-mitotic figures). All annotations are provided in MS COCO JSON format and as SQLITE database (SlideRunner format).
DOI: 10.6084/m9.figshare.25303873
title: <b>Contrasting mechanisms of non-vascular and vascular plants on spatial turnover in multifunctionality in Antarctic continent</b>

description: 'B', 'L', 'M', 'V' indicate a categorical variable with four levels representing different vegetation types. 'te', 'ph', 'sw' indicate the heterogeneity of soil temperature, soil pH and soil water content; 'so', 'nn', 'pp', 'tk', 'nag', 'gc', 'np', 'xys', 'ba', 'fa', 'pc' indicate the heterogeneity of soil organic matter, soil nitrogen, phosphorus contents, potassium contents, N-acetyl-β-Glucosaminidase, β-Glucosidase, β-Xylosidase,  neutral phosphatase, bacterial copies, fungal copies and antagonistic indicator; 'tn', 'no', 'nh', 'tp', 'avp', 'ad', 'ap', 'ar' indicate the heterogeneity of soil total nitrogen, nitrate nitrogen, ammonia nitrogen, total phosphorus, available phosphorus, antagonistic density, antagonistic proportion and antagonistic intensity; 'fun' indicate β-multifunctionality; 'na', 'nd', 'mb' indicate the turnover of nutrient availability,  nutrient decomposition and microbial biomass; 'babb', 'fubb', 'prbb', 'mebb' indicate the the bacterial, fungal, protozoan and metazoan β-diversity according to the Sørensen distance; 'babb1', 'fubb1', 'prbb1', 'mebb1' indicate the the bacterial, fungal, protozoan and metazoan β-diversity according to the  Bray-Curtis distance.
DOI: 10.1594/pangaea.942188
title: Hydrographical time series data of Helgoland, Southern North Sea, 2016

description: The dataset contains temperature, salinity, oxygen saturation, chlorophyll a and turbidity data from the Helgoland MarGate underwater observatory from the year 2016 in a temporal resolution of 1 hour. The cabled observatory is located in 10m water depth and comprises single or multiple sensors for a specific parameter (see https://www.awi.de/en/science/biosciences/shelf-sea-system-ecology/main-research-focus/cosyna/underwater-node-helgoland.html). For a detailed description of the data see associated metadatafile metadata_heluwobs_2016_hydrography.pdf
DOI: 10.5281/zenodo.10531245
title: Youth preDM/DM dataset and Case Studies

description: We processed NHANES survey data for studying youth preDM/DM. We built the data portal POND to explore and visualize the dataset. The files in 'POND_youth_preDMDM_dataset.zip' are updated with more proper filenames and format.
DOI: 10.5281/zenodo.10802847
title: OI 630.0 nm post-sunset emission enhancement as an effect of tidal activity over low-latitudes [Dataset]
DOI: 10.5281/zenodo.10815373
title: NOAA PSL thermodynamic profiles retrieved from a combination of active and passive remote sensors and numerical weather prediction models with the optimal estimation physical retrieval TROPoe at Platteville, CO, USA

description: This dataset contains retrieved profiles of thermodynamic variables obtained using the Tropospheric Remotely Observed Profiling via Optimal Estimation (TROPoe) physical retrieval from various combinations of input data collected by passive and active remote sensing instruments, in-situ surface platforms, and numerical weather prediction models deployed at the Platteville, CO, USA, site in fall 20221-winter 2022. Among the employed instruments are Microwave Radiometers (MWRs), Infrared Spectrometers (IRS), Radio Acoustic Sounding Systems (RASS), ceilometers, surface sensors, and information from the operational Rapid Refresh numerical weather prediction model.

The dataset also includes 15 radiosounding launched for assessing the retrievals.

For further information, please see:

Bianco, L., Adler, B., Bariteau, L., Djalalova, I. V., Myers, T., Pezoa, S., Turner, D. D., and Wilczak, J. M.: Sensitivity of thermodynamic profiles retrieved from ground-based microwave and infrared observations to additional input data from active remote sensing instruments and numerical weather prediction models, Atmos. Meas. Tech. Discuss. [preprint], https://doi.org/10.5194/amt-2023-263, in review, 2024.
DOI: 10.15468/dl.r83ttf
title: Occurrence Download

description: A dataset containing 41897 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Fucus vesiculosus L."
 ]
}

 The dataset includes 41897 records from 173 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047662-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10663334
title: Descriptive statistics supplement: Influence of shoulder morphology and rotator cuff tear type on load-induced glenohumeral biomechanics – a Sawbone simulator study

description: The dataset "descriptive_statistics.xlsx" contains the desctiptive statistics for our planned publication with the title: Influence of shoulder morphology and rotator cuff tear type on load-induced glenohumeral biomechanics – a Sawbone simulator study
DOI: 10.6084/m9.figshare.23522679
title: Replication Package for "Fixing Dockerfile Smells: An Empirical Study"

description: This repository contains the replication package for "Fixing Dockerfile Smells: An Empirical Study". For more details, check the attached README.https://github.com/grosa1/dockleanerAbstract: Docker is the de facto standard for software containerization. A Dockerfile contains the requirements to build a Docker image containing a target application. There are several best practice rules for writing Dockerfiles, but the developers do not always follow them. Violations of such practices, known as Dockerfile smells, can negatively impact the reliability and performance of Docker images. Previous studies showed that Dockerfile smells are widely diffused, and there is a lack of automatic tools that support developers in fixing them. However, it is still unclear what Dockerfile smells get fixed by developers and to what extent developers would be willing to fix smells in the first place. The aim of our study is twofold. First, we want to understand what Dockerfiles smells receive more attention from developers, i.e., are fixed more frequently in the history of open-source projects. Second, we want to check if developers are willing to accept changes aimed at fixing Dockerfile smells (e.g., generated by an automated tool), to understand if they care about them. We evaluated the survivability of Dockerfile smells from a total of 53,456 unique Dockerfiles, where we manually validated a large sample of smell-removing commits to understand (i) if developers performed the change with the intention of removing bad practices, and (ii) if they were aware of the removed smell. In the second part, we used a rule-based tool to automatically fix Dockerfile smells. Then, we proposed such fixes to developers via pull requests. Finally, we quantitatively and qualitatively evaluated the outcome after a monitoring period of more than 7 months. The results of our study showed that most developers pay more attention to changes aimed at improving the performance of Dockerfiles (image size and build time). Moreover, they are willing to accept the fixes for the most common smells, with some exceptions (e.g., missing version pinning for OS packages).
DOI: 10.15468/37eshs
title: Swiss Psyllid (Hemiptera) Collections - Basel

description: Database of jumping plant-lice of the families Calophyidae, Carsidaridae, Homotomidae, Phacopteronidae and Triozidae of the Naturhistorisches Museum Basel (NMB) and Muséum d'histoire naturelle Genève (MHNG) - Basel part. Nomenclature is coherent with regard to the Pan-European Species Directory Infrastructure PESI (Fauna Europaea) and the online database Psyl'ist (Catalogue of Life). Geographic coordinates for specimens collected in Switzerland are provided by the Centre Suisse de Cartographie de la Faune.
DOI: 10.15468/9hacmg
title: Gothenburg Herbarium - Types (GBIF:IH:GB:Herbarium)

description: This database contains information from Gothenburg (Sweden) types herbarium.
DOI: 10.15468/hiiw6b
title: Herbarium GAT

description: The Gatersleben Herbarium (GAT) of the IPK contains a representative 400,000 specimens' collection of cultivated plants and their wild relatives from extra-tropical regions. It is one of the largest of such special herbaria in the world and serves as an essential source of reference and working material for the reproduction of genebank accessions and various IPK research activities. Furthermore the Gatersleben Herbarium takes part in the international loan and exchange network of botanical collections and can be used by German and foreign specialists.
DOI: 10.15468/jw9ezj
title: BCCM/LMG Bacteria collection

description: BCCM/LMG is a bacterial culture collection currently comprising over 25.000 well-characterized strains. The biological origin of our collection is very broad, including bacterial isolates from food, clinical, veterinary, agricultural, aquatic and other environmental sources. This way, the biological resources of BCCM/LMG may serve the needs of various R&D sectors, including green, red, blue and white biotechnology.
DOI: 10.15468/mttec8
title: IPOE_Benthos_Steffens

description: Data of macrobenthic fauna of the eastern Laptev Sea.
DOI: 10.1594/pangaea.729169
title: (Appendix 1c) Abundance and stable oxygen and carbon isotope ratios of Globigerinoides ruber from MIS 11 of sediment core GeoTu_SL096

description: isotope analyses: 10-12 specimens of G. ruber size fraction 315-400 µm
DOI: 10.15468/3iqgn8
title: pins

description: Portail des n�matodes du sol
DOI: 10.15468/5woguj
title: GSPB Prokarya Catalogue

description: Except for a small number of saprophytes, the collection consists of phytopathogenic bacteria - at present about 3000 strains. The strains belong to 166 different species, subspecies or pathovars of all currently known phytopathogenic bacterial genera.
DOI: 10.15468/bdwtd8
title: DORSA - German Orthoptera Collections

description: a Database System for Systematics and Taxonomy
DOI: 10.15468/bgmqmr
title: Global compendium of Aedes aegypti occurrence

description: Aedes aegypti and Ae. albopictus are the main vectors transmitting dengue and chikungunya viruses. Despite being pathogens of global public health importance, knowledge of their vectors’ global distribution remains patchy and sparse. A global geographic database of known occurrences of Ae. aegypti and Ae. albopictus between 1960 and 2014 was compiled. Herein we present the database, which comprises occurrence data linked to point or polygon locations, derived from peer-reviewed literature and unpublished studies including national entomological surveys and expert networks. We describe all data collection processes, as well as geo-positioning methods, database management and quality-control procedures. This is the first comprehensive global database of Ae. aegypti and Ae. albopictus occurrence, consisting of 19,930 and 22,137 geo-positioned occurrence records respectively. Both datasets can be used for a variety of mapping and spatial analyses of the vectors and, by inference, the diseases they transmit.
DOI: 10.15468/liaksh
title: Mt. Kenya Inventory Surveys 2009

description: Mt. Kenya inventory surveys was carried out by various stakeholders to determine biodiversity richness in the ecosystem