cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29124047.v1
title: Leaf geometric morphological data for <i>Quercus</i><i> glauca</i>, <i>Quercus</i><i> multinervis</i>, <i>Castanopsis</i><i> tibetana</i>, <i>Castanopsis</i><i> faberi</i>, and <i>Castanopsis</i><i> </i><i>fargesii</i>

description: Leaf geometric morphological data for <i>Quercus</i><i> glauca</i>, <i>Quercus</i><i> multinervis</i>, <i>Castanopsis</i><i> tibetana</i>, <i>Castanopsis</i><i> faberi,</i> and <i>Castanopsis</i><i> </i><i>fargesii</i>, data produced by Image J program in TXT format (3005 leaves from 601 individuals with five leaves per individual).
DOI: 10.6084/m9.figshare.21803304.v2
title: Authentically damaged & manually restored film scans

description: Dataset from "Simulating analogue film damage to analyse and improve artifact restoration on high-resolution scans", Eurographics 2023. <br> Damaged scans of 35mm film of a variety of colour emulsions, including slides and negatives. Damage includes dust, scratches, hairs, and specks. For each damaged scan, a complimentary restored version is provided, where analogue artifacts have been manually restored by an expert. <br> All 44 scans contributed by d@analog.cafe.
DOI: 10.6084/m9.figshare.24235081.v1
title: Supplementary Material for: The evolution and visual prognosis of glial proliferation with different grades after macular hole surgery: an optical coherence tomography-based study

description: Introduction: The glial proliferation after macular hole (MH) surgery was divided into two types previously: thos replacing the entire intraretinal laye and those involving only the inner foveal layers. The evolution and prognosis of the former type was elaborated in previous studies, but the latter one has received limited attention. Therefore, this study aims to investigate the evolution of glial proliferation with varying grades after MH surgery and its effects on foveal microstructure and best-corrected visual acuity (BCVA). Methods: In this retrospective research, we reviewed 202 eyes from 196 consecutive patients who underwent a successful idiopathic MHs repair. Based on optical coherence tomography images, glial proliferation was classified into three types: A-type, which replaced the entire intraretinal layer; B-type, located at the level of and above the external limiting membrane (ELM); and C-type, situated above the ELM. Results: Of the 67 eyes that attended the 1-, 4-, and 10-month follow-up, A-type, B-type, C-type, and no glial proliferation were identified in 27 (40.3%), 17 (25.4%), 20 (29.8%), and 3 eyes (4.5%), respectively, at 1 month. Within 10 months, the prevalence of A-type glial proliferation significantly decreased (P&lt;0.001), but the changes in B-type (P=0.261), C-type (P=0.151), and no glial proliferation (P=0.492) were not significant. In 32 of the 67 eyes, the grade of glial proliferation gradually improved, with A-type transforming into B- or C-type in 19 of 27 eyes (70.4%), B-type into C-type or no glial proliferation in 11 out of 17 eyes (64.7%), and C-type gradually disappearing in 2 out of 20 eyes (10.0%). Among the eyes that attended at least one follow-up (1M, 202 eyes; 4M, 161 eyes; 10M, 97 eyes), those with A-type glial proliferation showed the most defective outer retinal layers, worst BCVA, and thinnest central fovea compared with the other two types at all follow-up time points (P&lt;0.001). Eyes with C-type glial proliferation exhibited significantly better photoreceptor layer status and BCVA compared with those with B-type glial proliferation. A-type glial proliferation at 1 month, which showed significant association with BCVA at 10 months, could be accurately predicted by the minimum linear diameter with a cut-off &gt; 547.5 μm (P&lt;0.001). Conclusion: Within 10 months, A-type glial proliferation substantially resolves but the prevalence of B- and C-type remains unchanged. B-type glial proliferation hinders the restoration of photoreceptors and impairs visual recovery despite being located within the inner retina.
DOI: 10.6084/m9.figshare.4781224.v3
title: Clostridium difficile Manuka honey biofilm formation Results.xlsx

description: Raw data
DOI: 10.6084/m9.figshare.1328470.v3
title: Landsat 8 Scenes Used for Greenland Supraglacial Lake Depth Analysis

description: This file list details the Landsat 8 scenes used for two test regions in Greenland to study supraglacial lake depth retrievals using multispectral imagery. All original data are available via USGS Earth Explorer (earthexplorer.usgs.gov). Imagery were originally accessed in fall 2013 (Northwest region) and fall 2014 (Jakobshavn). For methods and results see Pope et al. in <em>The Cryosphere </em>and associated publications.
DOI: 10.6084/m9.figshare.21094717.v1
title: gut-community-microcosms

description: Underlying data used to generate figures in Jin et al. 2022 "<strong>Microcosm cultures of a complex synthetic community reveal ecology and genetics of gut microbial organization</strong>". https://doi.org/10.1101/2022.09.13.507837. See https://github.com/xiaofanjin/gut-community-microcosms for code.
DOI: 10.6084/m9.figshare.24282670.v1
title: Data for Addressing fraudulent responses in online surveys: insights from a web-based participatory mapping study

description: Abstract:1. Web-based studies of human dimensions are increasing across environmental and socio-ecological disciplines. However, the prevalence of fraud threatens research quality. Increased fraud rates should be expected as surveys move progressively more online, motivated by expanding reach, cost savings, and/or in response to COVID-19. Web-based research must better account for fraud to maintain confidence in findings. Practical diagnostic tools and data quality protocols are required to detect fraud and ensure results quality.2. Drawing on our experience using an online participatory mapping case study, we discuss methods to detect potentially fraudulent responses – and identify some limitations. We begin by reviewing the current state of knowledge on fraudulent responses or “fraudsters” and its relative absence in environmental and socio-ecological disciplines. We then describe our research approach, the indicators and variables we used to detect and assess fraud, and our decision-making process to eliminate suspicious responses without jeopardizing research integrity.3. We found that despite several preventative measures, many fraudulent respondents could provide survey responses and effectively mimicked legitimate respondents at first glance. By assuming each response to be 'potentially fraudulent,' we determined that the complete screening of each respondent, while time-consuming, can limit the prevalence of fraud. We also determined that the most common data consistency checks (e.g., duration, trap questions, straight-liner checks) are unlikely to guarantee valid respondents.4. If not acknowledged and addressed, fraud has the potential to undermine data integrity, discredit research findings, and limit the utility of results for policy. This study contributes to environmental and socio-ecological research by reviewing existing fraudster literature and using our experience with fraud to provide recommendations for researchers to address this problem. We encourage researchers implementing online qualitative research methods to thoroughly assess and report fraud, when possible, to ensure widespread knowledge of this growing threat.
DOI: 10.6084/m9.figshare.25404220.v1
title: Data for paper: "Data-driven image mechanics (D2IM): a deep learning approach to predict displacement and strain fields from undeformed X-ray tomography images - Evaluation of bone mechanics"

description: Data used in the paper: "Data-driven image mechanics (D2IM): a deep learning approach to predict displacement and strain fields from undeformed X-ray tomography images - Evaluation of bone mechanics"by Peter Soar, Marco Palanca, Enrico Dall'Ara and Gianluca Tozzi<br>submitted to publication in Extreme Mechanical Letters, 2024<br>There are 2 parts of this directory:The main dataset 'D2IM_Data':<br>- 'input' comprises slices of XTC scans of porcine vertebra. There is a subfolder 'Removed' containing slices that were manually removed from the dataset due to not containing enough bone. The original 3D scans of the images can be found at: https://orda.shef.ac.uk/articles/dataset/Data_for_paper_MicroFE_models_of_porcine_vertebrae_with_induced_bone_focal_lesions_validation_of_predicted_displacements_with_Digital_Volume_Correlation_/16732441/1<br>- 'mask' is another input that was generated from these scan slices. <br>' 'Target' contains three subfolders of the displacements ('U','V','W'), used as the target/ground truth. These fields were obtained using the DIC/DVC software SPAM.<br>'Clinical' folder contains a few examples used for testing the sensitivity of the D2IM model to lower resolution input. Clinical images were collected at the CT Scan Department, Northern General Hospital, Sheffield.The 'Test Predictions' directory has three archives, each containing images showing the predicted displacements and displacement errors for the full set of test data. Each archive corresponds to the named displacement component u, v or w.A copy of the code for the D2IM prototype model can be found on GitHub at: https://github.com/PeterSoar/D2IM_PrototypeFor any questions the reader is encouraged to contact Dr Peter Soar (p.soar@greenwich.co.uk).
DOI: 10.6084/m9.figshare.28189898.v1
title: Automaticity or reflexivity – what determines the affective origin of FOMO?

description: Database from the study on affective nature of FOMO.
DOI: 10.6084/m9.figshare.29169908.v1
title: Global soil microplastic monitoring data

description: We systematically compiled existing global datasets documenting microplastic occurrence in soil environments worldwide. Studies and datasets included in these databases were selected according to several criteria: (1) soils should be sampled in the field, while cultured or experimentally treated soils were excluded; (2) studies that focused only on specific MP types (e.g., tire MPs) or specific pollution sources were excluded; (3) at least one aspect of MP data should be reported, including abundance, size, shape, color, or polymer compositions; (4) abundance should be expressed as items per kilogram of dry soil (items/kg), or it can be converted to this form; (5) studies with a detection size limit greater than 0.1 mm were excluded to enhance the comparability of the dataset. In addition to MP abundance and characteristics, the extracted information also included: (1) sampling and site description (e.g., site location, sampling depth, sampling number, and land-use types); (2) processing and analytical methods (e.g., extraction solution density, detection size limit, and identification method). Finally, we got 1247 independent records of soil MP monitoring data from 153 articles, encompassing 5129 sampling sites in 28 countries
DOI: 10.6084/m9.figshare.3125005.v1
title: PERU MIGRANT Study | Baseline dataset

description: The <b>PERU MIGRANT Study</b> (PEru's Rural to Urban MIGRANTs Study) was designed to investigate the magnitude of differences between rural-to-urban migrant and non-migrant groups in specific cardiovascular risk factors. Three groups were selected: i) Rural, people who have always have lived in a rural environment; ii) Rural-urban, people who migrated from rural to urban areas; and, iii) Urban, people who have always lived in a urban environment.The <b>PERU MIGRANT Study protocol, instruments and variables</b> are described in full in:Miranda JJ, Gilman RH, García HH, Smeeth L. The effect on cardiovascular risk factors of migration from rural to urban areas in Peru: PERU MIGRANT Study. <i>BMC Cardiovasc Disord</i> 2009;9:23. The <b>main findings of the PERU MIGRANT Study</b> are published in:Miranda JJ, Gilman RH, Smeeth L. Differences in cardiovascular risk factors in rural, urban and rural-to-urban migrants in Peru. <i>Heart</i> 2011;97(10):787-96.
DOI: 10.6084/m9.figshare.28528601.v2
title: Cost of BPH Cleaned.xlsx

description: The research examines the financial burden of diagnosing, treating, and managing the condition, including direct medical costs (consultations, medications, surgeries, and hospital stays), direct non-medical costs ( cost of transportation, homecare services, feeding and lodging ) and indirect costs (productivity loss).
DOI: 10.6084/m9.figshare.654622.v1
title: Open Access Now! Research notes in the form of a deck of slides assembled by Ernesto Priego for the Open Access debate organised by Roger Sabin at Central Saint Martins, University of the Arts, London, Monday 18 March 2013.
DOI: 10.17028/rd.lboro.2003814.v1
title: Scientific Reports 2015 Shear-mediated contributions to the effective properties of soft acoustic metamaterials including negative index

description: These data are those presented in Forrester and Pinfield 2015 Scientific Reports paper on soft acoustic metamaterials. The data are the results of simulations based on multiple scattering models. These were carried out in MATLAB using code based on the ultrasound scattering models described in the paper.The zip file contains 22 Excel spreadsheets relating to the figures in the paper. Some are labelled by figure number, and others by the system simulated.
DOI: 10.17632/558fp8pb44
title: A generalised volumetric method to estimate the biomass of photographically surveyed benthic megafauna

description: Data for paper: A generalised volumetric method to estimate the biomass of photographically surveyed benthic megafauna (https://doi.org/10.1016/j.pocean.2019.102188) (1) Individual body-size data (M, biomass; V, biovolume) of trawl-caught megabenthic invertebrates and demersal fish at the Porcupine Abyssal Plain Sustained Observatory (PAP-SO, NE Atlantic, 4850 m water depth), as directly (Mm, Vm) and indirectly (Me, Ve) measured. (2) Individual body-size data (M, biomass; V, biovolume) of photographically surveyed megabenthic invertebrates and demersal fish at three shelf-sea locations in the Celtic Sea (NE Atlantic, 100 m water depth), as indirectly (Me, Ve) measured. (3) Inter-operator variation assessment of individual body-size data as indirectly measured. A traditional length-weight relationship (LWR) approach was employed to estimate individual biomass (Me), a the proposed generalised volumetric method (GVM) was used to estimate individual biovolume (Ve).
DOI: 10.6084/m9.figshare.1463337.v1
title: Air quality dataset

description: Dataset
DOI: 10.6084/m9.figshare.28204718.v1
title: Supplemental Table Final

description: The raw data for skin RNAseq mapping. The following tabs are within the file:BioProjects- Each dataset processed for the paper and the mapped data in aggregate for various metrics. In gray are details of the experiment, cyan the quality control, green the data mapping to human transcriptome, yellow the foreign RNA, and orange the Immune Repertoire.Sample Details- Data from the SRA and Biosamples for each read dataset.Paired_End_scripts- The scripts used to process each sample of paired-end reads.Single_End_scripts- The scripts used to process each sample of single-end reads.sex_determination- The mapping (TPM) of various sex biased genes to determine each sample as male or female.skin_genes- The TPM levels of various skin-specific transcripts in each dataset.Immune Rep- The mapping statistics of the immune repertoire for each sample.KRAKEN2- The summed mapping for each annotation for each BioProject.OT-MONDO_0002406- The Open Target Platform gene list used for various parameters of dermatitus.top_bioprojects- The integrated data mapped for five of the top skin datasets.top_bioprojects_correlation- Pearson correlation of the top_bioprojects data values for the top five BioProjects.
DOI: 10.6084/m9.figshare.28239545.v2
title: Origin data of Manuscript "Microbial Networks in Subsurface Sediment Porewater: Key Drivers for Organic Matter Degradation and Groundwater Chemistry Evolution"

description: Raw and reprocessed data of manuscript "Microbial Networks in Subsurface Sediment Porewater: Key Drivers for Organic Matter Degradation and Groundwater Chemistry Evolution".IncludingFigure dataMicrobial dataIons16S rRNA sequencing data in FASTA formatPlease find the published manuscript in ACS ES&T Water at 10.1021/acsestwater.5c00101
DOI: 10.17632/j83cfgkrb5
title: A Curated Dataset for Drug Class Prediction and Repositioning

description: This curated dataset offers a valuable resource for deep learning applications in drug discovery and repositioning domains. It contains 5,350 high-resolution images systematically categorized into pharmacological classes and molecular targets. The pharmacological classes encompass antifungals, antivirals, corticosteroids, diuretics, and non-steroidal anti-inflammatory drugs (NSAIDs), while the molecular targets emphasize Alzheimer's disease-related enzymes, including acetylcholinesterase, butyrylcholinesterase, and beta-secretase 1. The dataset was meticulously compiled using data from well-established databases, including DrugBank, ChEMBL, and DUD-E, ensuring diversity and quality in the compounds selected for training. Active compounds (true positives) were sourced from DrugBank and ChEMBL, while decoy compounds (true negatives) were generated using the DUD-E protocol. The decoy compounds are designed to match the physicochemical properties of active compounds while lacking binding affinity, creating a robust benchmark for machine learning evaluation. The balanced structure of the dataset, with equal representation of true positive and decoy compounds, enhances its suitability for binary and multi-class classification tasks. The collection of compounds is diverse and of high quality, thus supporting a wide range of deep learning tasks, including pharmacological class prediction, virtual screening, and molecular target identification. This ultimately advances computational approaches in drug discovery.
DOI: 10.6084/m9.figshare.12739436.v1
title: Dataset - A Comprehensive Evaluation of Contact Recombination and Contact Resistivity Losses in Industrial Silicon Solar Cells

description: This dataset contains the contact resistivity and contact recombination data associated with the following publication.The contact resistivity data was collected on cTLM, wide pad TLM and narrow pad TLM. The contact recombination data was collected on mini-cells with variation on finger width and spacing. The sample firing temperature was ranging 740 C - 840 C. The finger width was varied from 60 um - 400 um. The finger spacing was varied from 0.8mm - 2.5 mm. <br><br>M. Li <em>et al</em>., "A Comprehensive Evaluation of Contact Recombination and Contact Resistivity Losses in Industrial Silicon Solar Cells," in <em>IEEE Journal of Photovoltaics</em>, doi: 10.1109/JPHOTOV.2020.3003792.<br>
DOI: 10.6084/m9.figshare.28943975.v1
title: Supplementary Material for: Relationships between eating styles and body mass index in women: a moderating role of positive eating

description: Introduction: First, we investigated the relationships between eating styles (cognitive restraint, uncontrolled eating, and emotional eating) and BMI in women. Second, we aimed to explore whether positive eating serves as a protective factor in the relationships between eating styles and body mass index (BMI).
Methods: The sample comprised of 404 women recruited via online surveys who completed: the Positive Eating Scale, the Three-Factor Eating Questionnaire, the sociodemographic survey. Data collection was independent.
Results: First, we found that in women cognitive restraint, uncontrolled eating, and emotional eating are all positively related to BMI. Second, as predicted, we demonstrated the effect of positive eating as a moderator in the relationship between emotional eating style and uncontrolled eating style and BMI. Specifically, in women with average and low levels of positive eating, positive relationships between emotional eating and BMI, as well as uncontrolled eating and BMI were more pronounced. The effect of positive eating on the relationship between cognitive restraint and BMI was opposite to the expected.
Conclusion: Our preliminary conclusions may suggest that food positivity should not be placed on the same continuum with eating behaviours as its opposite end of the continuum. As a distinct construct, it may serve as a protective factor and strengthening a positive attitude towards food may possibly reduce the negative impact of unhealthy eating styles on individuals’ BMI and, in turn, on health and well-being. It would be beneficial to verify these assumptions in future research.
DOI: 10.6084/m9.figshare.29137676.v2
title: <b>Lipid metabolites affected by deficient autophagy antagonize the occurrence of autophagy through AMPK signaling in insects</b>

description: Study Purpose: To investigate the changes of lipid metabolites in Drosophila fat body due to premature or inhibited autophagySample Details: The larvae were collected for more than 20 mg in each sample from <i>WT</i><sup><em>1118</em></sup>, <i>DmAtg1</i><sup><em>Δ3D</em></sup>,<sup> </sup>and<i> ppl-GAL4&gt;UAS-DmAtg1:DmAtg13</i> at wandering (W), white prepupa (WPP), and 3 h after white prepupa (3WPP) stages. Each set of treatments contained six biological replicates.Instrumentation and Data Processing: The <i>Drosophila</i> larvae in each sample were homogenized and extracted for lipids by 1 mL extract solution containing methyl tert-butyl ether and methanol in the volume ratio of 3:1 as well as international standard lipids. The supernatant was measured for metabolites by UPLC-MS/MS. The ultra performance liquid chromatography (UPLC, ExionLC AD), equipped with Thermo Accucore™ C30 column (i.d. 2.1 x 100 mm, 2.6 μm) and maintained at 45°C, was used for UPLC-MS/MS analysis (Wuhan Metware Biotechnology Co., Ltd., Wuhan, China).