cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11413302.v2
title: COALA dataset from 'Transfer learning improves antibiotic resistance class prediction'

description: This includes all 3 different versions of the COALA dataset.<br>COALA100 dataset is a collection of antibiotic resistance genes from 15 databases along with metadata information from these databases which includes the respective antibiotic class.<br><br>The COALA70 dataset is the cd-hitted by 70% threshold version of the COALA100 dataset.<br><br>The COALA40 dataset is the cd-hitted by 40% threshold version of the COALA100 dataset.<br><br>All three datasets are in fasta format. The last section of the description line has the antibiotic label the gene confers resistance to. The second last section is the database name from where the gene was collected. All other sections convey information about the gene.
DOI: 10.6084/m9.figshare.3555234.v1
title: Appendix A. Tables showing alphabetical lists of bat species (with varying feeding habits) captured at La Selva Biological Station, Costa Rica, with corresponding ratios of non-exchangeable hydrogen stable isotopes in fur keratin and of hydrogen stable isotopes in body water from field season A, and corresponding ratios of non-exchangeable hydrogen stable isotopes and nitrogen isotopes in hair keratin from field season B.

description: Tables showing alphabetical lists of bat species (with varying feeding habits) captured at La Selva Biological Station, Costa Rica, with corresponding ratios of non-exchangeable hydrogen stable isotopes in fur keratin and of hydrogen stable isotopes in body water from field season A, and corresponding ratios of non-exchangeable hydrogen stable isotopes and nitrogen isotopes in hair keratin from field season B.
DOI: 10.6084/m9.figshare.5806743.v1
title: BIAJS Brief Index of Affective Job Satisfaction

description: The current data set includes the assessment of the Brief Index of Affective Job Satisfaction (BIAJS) in a first sample of workers over 40, and in a second sample of workers over 44.
DOI: 10.6084/m9.figshare.28697381.v2
title: Main dataset (pheno_dat.csv) along with ancillary data and code to run the phenology main analysis.

description: See parent description for project.
DOI: 10.6084/m9.figshare.3582204.v2
title: 13C graphene, 100 kV

description: STEM micrographs of 99% <sup>13</sup>C graphene imaged with electrons accelerated by a voltage of 100 kV. Each item in the fileset is a ZIP archive containing a single time series of consecutive frames recorded with a medium angle annular dark field detector until an ejection was observed.
DOI: 10.6084/m9.figshare.7409276.v1
title: Original vehicle vibration signal.xlsx

description: The attached is the vehicle vibration signal at six cracking sections and adjacent flat sections under the vehicle speed of 30km/h and 50km/h, respectively. The sampling frequency is 10 kHz.
DOI: 10.6084/m9.figshare.8034764.v1
title: Supplementary Material for: Different Psychosocial Factors Are Associated with Seasonal and Perennial Allergies in Adults: Cross-Sectional Results of the KORA FF4 Study

description: <b><i>Background:</i></b> Psychosocial factors are supposed to play a central role in the development of allergic diseases. Associations with seasonal and perennial forms of allergies have not been investigated, yet. <b><i>Objectives:</i></b> The aim of the study was to investigate the associations of psychosocial factors (social status, depression, generalized anxiety, psychosocial stress, Type-D personality) with seasonal, perennial, and other forms of allergies in adults. <b><i>Method:</i></b> The analysis of self-reported data of the KORA FF4 study was performed with SAS 9.4. The sample consisted of 1,782 study participants in the study region of Augsburg (39–88 years, 61 years, 51.1% female). Descriptive bivariate statistics and multinomial logistic regression models were performed. Age, sex, family predisposition, and smoking status were considered possible confounders. Moreover, several sensitivity analyses were carried out to check whether missing values distorted the results. <b><i>Results:</i></b> A positive association between generalized anxiety and seasonal allergies was found in the multivariate model. Depression was positively, and anxiety negatively, associated with perennial allergies. No association between the analyzed psychosocial factors and other forms of allergies could be found. <b><i>Conclusion:</i></b> The results support the relevance of psychosocial factors in association with allergies. Looking at the psychosocial factors, a separate consideration of seasonal and perennial allergies seems reasonable. Further longitudinal studies should investigate the direction of the associations, the underlying mechanisms, and other psychosocial factors, such as coping mechanisms, in confirmed allergies.
DOI: 10.6084/m9.figshare.12931412.v2
title: F and G-actin separations from MDA-MB-231 GFP-actin cells

description: These images were generated by the SIFTER assay performed on MDA-MB-231 GFP-actin cells and immunoprobed for GFP. Images are annotated with the location of F-actin and G-actin relative to the microwells (e.g., F_right, etc.).
DOI: 10.6084/m9.figshare.5121505.v1
title: Supplementary Material for: Apolipoprotein E ε4 Prevalence in Alzheimer’s Disease Patients Varies across Global Populations: A Systematic Literature Review and Meta-Analysis

description: <i>Background:</i> The Ε4 allele of apolipoprotein E (APOE) is associated with Alzheimer’s disease (AD). However, attributable risk due to APOE4 varies by region and by race/ethnicity. <i>Methods:</i> A literature review and meta-analysis were conducted to estimate the prevalence of APOE4 by geographic area among AD patients. <i>Results:</i> Although estimates varied significantly by study design and case definition, AD patients recruited in Asian and southern European/Mediterranean communities seemed to have significantly lower E4 carrier status estimates (37 and 43%) than those recruited in North America (58%) or northern Europe (64%; all: p &lt; 0.05). <i>Conclusions:</i> APOE4 genotype frequency varies among AD patients in regional patterns similar to that of the general population. Study level differences may also contribute to the heterogeneity of published estimates of APOE4 in AD cases.
DOI: 10.6084/m9.figshare.14316644.v1
title: Data from Investigation of the evolution and control of fractures in surrounding rock under different pressure relief and support measures in mine roadways prone to rockburst events

description: The data of Fig. 7, FIG. 9 and FIG. 10 are included
DOI: 10.6084/m9.figshare.14673411.v1
title: Information und Glaube (2021).pdf

description: Das sind ganz große Begriffe der Gegenwart und Menschheit<br>
DOI: 10.6084/m9.figshare.25115198.v3
title: Dataset of South China magmatic rocks

description: Compilation of whole-rock geochemical data for Jurassic to Cretaceous magmatic rocks in South China
DOI: 10.6084/m9.figshare.5135257.v1
title: Grayling draft genome dataset

description: ###### Description<br><br>Tthymallus_scaffolds.fasta - Assembled scaffold sequences<br>Tthymallus_RepeatLibrary_deNovo.fasta - De novo repeat library sequences<br>Tthymallus_transcriptome_DeNovo.fasta - De novo transcriptome assembly using Trinity (followed by RSEM based filtering)<br>Tthymallus_transcriptome_ReferenceBased.fasta - Reference-based transcriptome using STAR-Cufflinks-transdecoder pipeline (followed by filtering based on homology to known proteins from zebrafish and stickleback proteins.<br>Tthymallus_ScaffoldAnnotation.gff3 - MAKER pipeline based annotation for the scaffolds.<br>Tthymallus_proteins.fasta - Grayling protein sequences used for inferring orthologous groups (based on MAKER annotations)<br>Tthymallus_maker_fullOutput.gff - Full output from MAKER<br>Tthymallus_CPMcounts.txt - Expression counts for grayling<br>OrthologousGroups.txt - Inferred orthologous groups using Orthofinder<br><br><br>
DOI: 10.25442/hku.28180706.v1
title: Supporting data for “Financialization and the City: Rethinking the Role of Real Estate Investment Trusts in Singapore and Hong Kong’s Urban Transformation”

description: This PhD thesis investigates the development of real estate investment trusts (REITs) in Singapore and Hong Kong from the perspective of critical urban theory. REITs are understood as a representative form of financialization, a process in which the urban built environment is transformed into financial assets. This research follows a qualitative methodology, including fieldwork in Singapore and Hong Kong. Fieldwork for this research includes semi-structured interviews with various professionals to explore their expertise and perspectives on the development of REITs. The interviews aim to investigate the REIT industry's general landscape and its impact on urban development from the perspectives of different professions. Questions are used to explore the expertise of interviewees, and specific follow-up questions will be asked based on interviewees' contextual answers. <br>
DOI: 10.6084/m9.figshare.7097879.v4
title: MRIQC WebAPI - Database snapshot

description: Database snapshot associated to "Crowdsourced MRI quality metrics and expert quality annotations for training of humans and machines" (2018).
DOI: 10.25946/27199110.v1
title: Appendices: Reportable Serious Game Mechanics (SGMX): an ontological framework for the analysis and design of digital game-based learning (Vol. 2)

description: The appendix section of the thesis Reportable Serious Game Mechanics (SGMX): an ontological framework for the analysis and design of digital game-based learning. The appendices contain the full anonymised transcripts of interviews and participant workshops and proposals for the implementation of SGMX. The following appendices are included: Appendix A Stage 1 Online Survey.pdf Appendix B Stage 1 Survey Results.pdf Appendix C Stage 2 Interview Facilitator Guide.pdf Appendix D Stage 2 Interview Data.pdf Appendix E Stage 3 Workshop Information Sheet.pdf Appendix F Stage 3 Workshop Consent Form.pdf Appendix G Stage 3 Workshop Facilitator Guide.pdf Appendix H Stage 3 Workshops Part 1 Transcripts.pdf Appendix I Stage 3 Workshops Part 2 Transcripts.pdf Appendix J Stage 3 Workshop Activity Data.pdf Appendix K Proposed Game Flow Map.pdf Appendix L Proposed GDD Template.pdf Appendix M Proposed Taxonomy.pdf Appendix N Learning Designer Estimates.pdf
DOI: 10.6084/m9.figshare.14224412.v1
title: seqkit-all.stats

description: Output of seqkit stats for all DNA sequence files from <br>Gallardo-Escárate, C. Additional annotation files_GenSAS. figshare https://doi.org/10.6084/m9.figshare.12847493 (2020).<br>
DOI: 10.6084/m9.figshare.29137718.v1
title: S.cerevisiae Growth Curves.txt

description: Standard Curve: Over-nigth S<i>accharomyces</i> <i>cerevisiae</i> S288C cultures were inocullated into fresh YPD media at 30<sup>o</sup>C and monitored (optical density (OD), 600 nm in SpectraMax iD3) for 24h.Atypical Curves: Growth curves were obtained during our previous experiments (Opalek et al. 2022).They were acquired by growing <i>Saccharomyces</i> <i>cerevisiae</i> S288C cultures in rich YPD media at 30<sup>o</sup>C. The populations were starved in various conditions before the re-growth procedure (see details in Opalek et al. 2022). The populations’ densities were monitored by absorbance measurements (optical density (OD), 600 nm in SpectraMax iD3) taken every half an hour. No-lag Curve: Laboratory strain BY Mat a (BY4741) was thawed from -70oC and inoculated into rich YPD medium for 48h. To obtain fresh overnight culture, 10 µl were then inoculated into 1 ml of fresh YPD medium. After 24h, 300 µl of the overnight culture was inoculated into 700 µl of YPD medium for 3 hours. Subsequently, 20 µl inoculum was transferred to 200 µl of YPD in a 96-well plate in 4 repetitions and the OD measurements (λ = 600 nm, SpectraMax iD3 multimode microplate reader) were taken every 5 minutes.<br>The biomass was calculated according to the equations (Opalek et al 2022):<br>For OD measurements below 0.1:<br>10^(1.885845 + 28.72096*OD)For OD measurement equal or above 0.1<br>3566518*OD + 26754296*OD^2 -19881567*OD^3
DOI: 10.6084/m9.figshare.23554821.v1
title: Division III Student-Athletes Gaming Behaviors during Pandemic_anonymized.xlsx

description: This data comes from an article entitled Videogaming as Stress Coping in NCAA Division III Student-Athletes During the Pandemic: An Exploratory Analysis. NCAA Division III student-athletes (N = 45) completed the Leisure Coping Strategy Scale (LCSS), the Leisure Coping Belief Scale (LCBS), the Athlete Identity Measurement Scale (AIMS), and questions about their demographics and videogaming behavior.
DOI: 10.6084/m9.figshare.25037546.v1
title: Near- and super-inertial internal wave responses and the associated energy transfer after the passage of tropical cyclone Fitow at a midlatitude shelf slope

description: This dataset includes the mooring observations used in the manuscript of "Near- and super-inertial internal wave responses and the associated energy transfer after the passage of tropical cyclone Fitow at a midlatitude shelf slope".
DOI: 10.6084/m9.figshare.5666224.v1
title: Effect of solvents on the morphology of PMMA films fabricated by spin-coating

description: Abstract A method to produce thin layer of PMMA (poly (methyl methacrylate) films by spin coating is reported. PMMA is dissolved in xylene, a mixture of MIBK-xylene and chloroform. Varying the PMMA concentration and spin-coating speeds controls the thickness of the PMMA films. Using chloroform as solvent evidenced thickness around 10 μm. This thickness is suitable for core of optical polymeric films. These PMMA films with lower roughness are treated with CHF3 plasma to produce the cladding. The morphology of PMMA films is analyzed by atomic force microscopy and scanning electron microscopy. Profilometry, metricon and contact angle analysis are associated with the effective parameters in roughness and their effect before and after plasma treatment. Gel permeation chromatography (GPC) is used for estimating molecular weights of PMMA.
DOI: 10.6084/m9.figshare.1468354.v1
title: Scalar inference

description: Dataset for scalar inference
DOI: 10.6084/m9.figshare.28079942.v1
title: Speciation history and morphological evolution of <i>Hexarthrius </i>(Coleoptera, Lucanidae)

description: datasets and workflows used for analyses of the speciation history and morphological evolution of <i>Hexarthrius </i>(Coleoptera, Lucanidae).
DOI: 10.6084/m9.figshare.13186766.v1
title: Supplemental materials

description: Supplemental materials contain five figures in pdf formats (Supplemental Figures S1-S5), nine tables in xlsx formats (Supplemental Tables S1-S9) and four sequences files (Supplemental Seq S1-S4) in nexus formats.
DOI: 10.6084/m9.figshare.14424377.v1
title: PREDICTION OF COGNITIVE IMPAIRMENT IN PD BY MOCA.sav

description: 58 PD patients evaluated with the MoCA and a neuropsychological assessment battery that included tests to measure attention/working memory, memory, visuospatial ability, language and executive functions.
DOI: 10.15468/dl.tmstqd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holtbyrnia innesi (Fowler, 1934)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((17.9648 19.8496,8.9648 19.8496,8.9648 10.8496,17.9648 10.8496,17.9648 19.8496))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013504-250525065834625/datasets/export for details.
DOI: 10.6084/m9.figshare.21548601.v11
title: DRAVP:a comprehensive database of antiviral peptides and proteins

description: DRAVP is a comprehensive database of antiviral peptides and proteins. All data were manually collected from published literatures.
DOI: 10.6084/m9.figshare.25245466.v3
title: Finding Large Independent Sets in Networks Using Competitive Dynamics

description: Many decision-making algorithms were inspired by the inner working of individual biological systems. However, it is less clear whether collective behaviour of biological species can also be interpreted as a mechanism for solving computational tasks. By studying coexistence of species interacting through simple rules on a complex network, we demonstrate that the underlying dynamical system recovers near-optimal solutions to the maximum independent set problem -- one of the fundamental computationally hard problems in graph theory. Furthermore, through illuminating an unexpected connection between bifurcation points in the underlying dynamical system and the Katz centrality in the network, we introduce an algorithm for approximating the maximum independent set problem on a graph. Because of fundamental positioning of this problem in science, our results have multi-fold relevance for biology, economics, complex systems, as well as computer science, including the identification of optimal error-correcting codes.<br><br>These files contain the numerical study performed for the article Finding Large Independent Sets in Networks Using Competitive Dynamics by M.N. Mooij & I. Kryven.
DOI: 10.6084/m9.figshare.22691251.v2
title: Untitled Item

description: The MIDOG++ dataset represents an extension of the data set used in the MIDOG 2021 and 2022 challenges. We provide region of interest images from 503 histological specimens of seven different tumor types with variable morphology: breast carcinoma, lung carcinoma, lymphosarcoma, neuroendocrine tumor, cutaneous mast cell tumor, cutaneous melanoma, and (sub)cutaneous soft tissue sarcoma. The human and canine samples were processed and stained at different human and veterinary pathology laboratories with standard H&E dye and digitized with different digital whole slide image scanners. We provide labels for 11,937 mitotic figures that have been differentiated against 14,351 imposter cells in a blinded consensus by two pathologists and a final decision by a third pathologist for disagreed labels.
DOI: 10.6084/m9.figshare.28601132.v2
title: Beacon2Science: Enhancing STEREO/HI beacon data with machine learning for efficient CME tracking

description: List of the test set events used for evaluation of our models. For each event, we give the date and time (UT) of first appearance in the STEREO-A HI1 field of view.Neural Network weights 1 Neural Network weights 2
DOI: 10.6084/m9.figshare.5123050.v1
title: Supplementary Material for: Accuracy and Precision of Desktop Spirometers in General Practices

description: <i>Background:</i> Spirometry has become an essential tool for general practices to diagnose and monitor chronic airways diseases, but very little is known about the performance of the spirometry equipment that is being used in general practice settings. The use of invalid spirometry equipment may have consequences on disease diagnosis and management of patients. <i>Objectives:</i> To establish the accuracy and precision of desktop spirometers that are routinely used in general practices. <i>Methods:</i> We evaluated a random sample of 50 spirometers from Dutch general practices by testing them on a certified waveform generator using 8 standard American Thoracic Society waveforms to determine accuracy and precision. Details about the brand and type of spirometers, year of purchase, frequency of use, cleaning and calibration were inquired with a study-specific questionnaire. <i>Results:</i> 39 devices (80%) were turbine spirometers, 8 (16%) were pneumotachographs, and 1 (2%) was a volume displacement spirometer. Mean age of the spirometers was 4.3 (SD 3.7) years. Average deviation from the waveform generator reference values (accuracy) was 25 ml (95% confidence interval 12–39 ml) for FEV<sub>1</sub> and 27 ml (10–45 ml) for FVC, but some devices showed substantial deviations. FEV<sub>1</sub> deviations were larger for pneumotachographs than for turbine spirometers (p &lt; 0.0031), but FVC deviations did not differ between the two types of spirometers. In the subset of turbine spirometers, no association between age and device performance was observed. <i>Conclusions:</i> On average, desktop spirometers in general practices slightly overestimated FEV<sub>1</sub> and FVC values, but some devices showed substantial deviations. General practices should pay more attention to the calibration of their spirometer.
DOI: 10.6084/m9.figshare.99878.v2
title: Interactions: The Magic Word is "Neuroscience" (data)

description: This dataset consists of the raw data used for creating a frequency distribution of 100 words that appear in a sample of cognitive psychology article titles. All data were collected from the Altmetric database. The histogram appears in a blog post on the Altmetric blog.
DOI: 10.6084/m9.figshare.16556808.v1
title: Figshare

description: Nanoparticle<br><br>
DOI: 10.6084/m9.figshare.5901865.v1
title: glacier bedrock outcrop models

description: These .ply files were generated in vSFM to generate scaled distances by calibrating 3D model output to known camera positions
DOI: 10.6084/m9.figshare.27079549.v1
title: Supplementary Material for: Demographic Trends, Coalterations, and Imatinib Resistance across Genomic Variants in Gastrointestinal Stromal Tumors: An AACR Project GENIE Analysis

description: Introduction: Gastrointestinal stromal tumors (GIST) are the most common mesenchymal neoplasm of the gastrointestinal tract, the treatment of which represents a significant breakthrough in targeted cancer therapy. Given its overall rare nature, analysis of genomic differences and clinical implications between demographic groups has not been previously completed, but American Association for Cancer Research (AACR) Project GENIE makes such an analysis possible. 
Methods: Anonymized demographic, clinical, and genomic data from 1,559 GIST patients was analyzed using cBioPortal and custom Python scripts, with no exclusions from the cohort. Data included patient demographics, genomic alterations, and co-occurrence information, and was classified according to clinical implications using the OncoKB database. Analysis involved Chi-squared tests for differences in genomic alterations across various demographic factors and mutual exclusivity analysis to identify co-mutation patterns.
Results: Male patients exhibited higher mutation rates at PDGFRA (14.56% vs 8.05%; p&lt;0.001), while female patients had higher rates at NF1 (7.46% vs 3.23%; p=0.001). Asian patients showed higher alteration rates at KIT (85.59%; p=0.002). Co-occurrence analysis revealed KIT alterations frequently co-occurred with CDKN2A (q&lt;0.001), MTAP (q=0.045), and PTEN (q=0.056), while showing mutual exclusivity with PDGFRA (q&lt;0.001), NF1 (q&lt;0.001), and BRAF (q=.015). CDKN2A alterations co-occurred with MTAP (q&lt;0.001) and PIK3CA (q=.015), while being mutually exclusive with TP53 (q=.002) and NF1 (q=.007). Trends were similar among patients who had received no prior medical treatment. Imatinib-resistant mutations were more common in male patients (25.6% vs 18.9%; p=.0056) and those under 55 (27.3% vs 20.9%; p=.0228). Among patients with imatinib-resistant mutations, 77.78% had sunitinib resistance, while 70.25% maintained sensitivity to ripretinib.
Conclusion: Sex and race/ethnic differences in genomic alterations, as well as co-mutations, were prevalent among patients with GIST. Variations in mutational profiles highlight the importance of distinct genetic drivers that may be targeted to treat different patient populations.
DOI: 10.6084/m9.figshare.23589570.v1
title: Evolutionary origin and population diversity of a cryptic hybrid pathogen

description: See README for description of dataset