cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20468535.v3
title: Species Abundance Data

description: Species abundance data used for population models. Each csv file contains the data for each of our focal species. The csv files for each species are labeled with the first three letters of each of the species' name and genus. The first column of the data contains the name of the locality where the data was colected. The second column contains the locality treatment where Dentro means that the locality was excluded from livestock and Fuera means that the locality did not have a livestock exclusion fence. The third column contains the quadrat from which the data comes from and the fourth column contains the subquadrat. The fifth column contains the year in wich the data was taken. Columns X an Y contain coordinates which were used to assess dispersal from and to neighbor subquadrats. t1 contains abundance at time t and t2 contain the species abundance at time t+1. Columns y1 to y16 are a matrix that indicate the year that the data were collected. If, for instance, the data was collected in 2010, then the y10 column will contain ones while the rest of the columns will contain zeros. The depth column indicates the soild depht of the subquadrat where the data was taken. Next are the columns of interacting species' abundances where the column names contain the first three lettters of each species' name and genus. Because not all species in our study interact with the focal species, the remaining species were added together and allowed to interact with the focal species as a single “multispecies” for which interaction parameters were estimated. This column is labeled multi. Some species' interaction with the focal species change with soil depth so we added a matrix to identify which species' interactions do so. This matrix is also labeled with the first three letters of the species' name and genus and occupies the last columns of the datasets.
DOI: 10.6084/m9.figshare.25395508.v1
title: Sequence alignments and phylogenetic trees for <i>Monosporascus bulgaricus</i> and <i>M. europaeus</i> - Fungal Planet 1650 & 1651 - June 2024

description: Sequence alignments and phylogenetic trees for <i>Monosporascus bulgaricus</i> and <i>M. europaeus</i> - Fungal Planet 1650 & 1651 - June 2024
DOI: 10.6084/m9.figshare.12318950.v2
title: Initial Weight Model of Predictive Coding Deep Neural Network

description: Sample Initial Weight Model of Predictive Coding Deep Neural Network.<br>Use the model with predictive coding deep neural network,https://doi.org/10.6084/m9.figshare.5483710and with training dataset,https://doi.org/10.6084/m9.figshare.5483668<br>Sample command.$ python PredNet/main.py -i train_list.txt --initmodel init/02.model -g 0<br>$ python PredNet/main.py -i train_list.txt --initmodel init/0.model -g 0<br><br>pth file is the initial value for the pytorch version program.
DOI: 10.25452/figshare.plus.24486904.v3
title: Microconfined High-Pressure Transcritical Channel Flow Dataset

description: First comprehensive, open-source dataset carefully curated and structured for studying microconfined high-pressure transcritical fluid channel flows under various regimes. In particular, the dataset contains 18 direct numerical simulations of carbon dioxide at different bulk pressure and velocities confined between differentially-heated walls. For all cases, the thermodynamic conditions selected impose the fluid to undergo a transcritical trajectory across the pseudo-boiling region. The data collection comprises an array of physical quantities that enable comprehensive parametric analyses spanning laminar, transitional, and turbulent flow regimes. This data repository is poised to provide access to the detailed study and modeling of the complex physics observed in high-pressure transcritical fluid environments, especially those closely linked to improving microfluidics performance.The data is structured in a manner where individual cases are allocated in dedicated folders, facilitating in this way convenient access and data processing. Each case folder is structured in different FTT subfolders, which contain 10 snapshot files of the corresponding FTT uniformly spaced in time. Additionally, there is a README.txt file in each case folder that provides essential information about the individual case, such as (i) key independent parameters, (ii) dimensionless numbers, (iii) details on the calculation of the stretching factor in the y-direction, and (iv) the time advancement technique. The dataset files within the FTT subfolders are stored in the Hierarchical Data Format version 5 (h5), an open-source file format capable of handling complex and diverse data. There is also an associated xdmf file that contains data descriptions for these files, which can be visualized with, for example, the open-source software Paraview. Moreover, each case folder also includes a configuration file and a substances library file in YAML format. Likewise, there are C++ files in both .cpp and .hpp formats, allowing users to replicate the simulations for further investigation and/or verification. Finally, a post-processing script is supplied with the dataset, specifically designed to streamline the presentation of primary variables while concurrently computing derived quantities.
DOI: 10.6084/m9.figshare.19312040.v1
title: Cotton pan-genome PAV

description: PAV matrix for 1020 Gossypium hirsutum accessions.PAV matrix for 177 Gossypium barbadense accessions.
DOI: 10.6084/m9.figshare.8258783.v1
title: CCDB_7303.jpg

description: Coronal mouse brain slice containing stains of Fluoromyelin(green), DiI(red), and TO-PRO3(blue) which stain for myelin, blood vessels, and cells respectively
DOI: 10.6084/m9.figshare.3558678.v1
title: Data Paper. Data Paper

description: File List 135Zoocoenoses.txt (MD5: b11669ace2cc4aa58cb018abe5781ba9) 135FoodWebs.txt (MD5: 75e2137a9c8258313cc1accf68cabe23) SIZEWEB Box 1.pdf (MD5: 6bdda45aaba5579a4c0121e22553f83b) SIZEWEB Box 2.pdf (MD5: da9b26b141f459393a367cf59a9e73ce) Description This paper provides data on the taxonomy, abundance, body size, and general feeding habits of soil invertebrates at 135 sites in the Netherlands, along with the edaphic chemical characteristics, air temperature, precipitation, atmospheric deposition, and human management practices of those sites. Sampling, monitoring, and modeling activities were performed in the framework of the Dutch Soil Quality Network. A total of 258 genera, families, and morpha of free-living soil nematodes, mites, insects, myriapods, enchytraeids, and earthworms, ranging in dry body mass &gt;7 orders of magnitude, were identified, counted, and measured for biomass estimates. Trophic links reflecting life history were estimated from existing literature and, when possible, compared with microarthropods’ carbohydrase activity. Environmental variables were collected at each site, including soil chemistry (pH, carbon, nitrogen, phosphate, cadmium, chrome, copper, lead, mercury, nickel, and zinc), atmospheric nitrogen deposition, inputs of nitrogen and phosphorus from manure, rainfall, and temperature. Prior analyses of these data are cited, and the data are released here for the first time. These data describe how strongly different types of human-induced disturbance influence the abundance–mass allometric relationships in soil biota. <i>Key words: Acarina; agroecosystem; allometric scaling; Annelida; atmospheric N deposition; cattle pressure; Collembola; land use; N eutrophication; Nematoda; soil nutrients; The Netherlands.</i>
DOI: 10.6084/m9.figshare.4036134.v1
title: Birdwatching Data Set

description: Given the two specified areas (grasslands and woodlot), we randomly chose five transects to follow in a straight line. Along these transects we stopped at random spots and listened/looked around to find any bird we could find. Once any were located we took down the information, specifically what type (if we could see it) or what sound it made. After some time went by with no new movement or sounds, we continued on the transect until we felt we had enough.
DOI: 10.6084/m9.figshare.17184518.v1
title: Supplementary Material for: Factors that Influence Intraoperative Decision-Making Among Pediatric Neurosurgeons: A Grounded Theory Study

description: Introduction: Pediatric neurosurgery is a sub-specialty of medicine that is responsible for diagnosing, managing, and treating neurological disease in children with the use of surgery. Good intraoperative decisions making is critical to ensuring patient safety, yet almost nothing is known about what factors play a role in intraoperative decisions. As such, the purpose of this paper was to explore the factors that influence intraoperative decisions when pediatric neurosurgeons encounter something unexpected or uncertain during surgery. Methods: The study utilized the Grounded Theory method of data collection and analysis. Twenty-six pediatric neurosurgeons from 12 countries around the world were interviewed between June-October 2020 about the factors that go into making intraoperative decisions. Data was analyzed line by line and constant comparison was used to examine relationships within, and across codes and categories. Results: Pediatric neurosurgeons reflected on six factors while operating in order to come to a decision about how to proceed when they encountered an uncertainty or complication. The study findings resulted in a conceptual model that describes how concrete data including biological and technological factors and contextual data including emotional/relational factors, surgeon factors, and cultural factors influence risk assessment when making an intraoperative decision during surgery. Conclusions: The findings from this research can be used for training and educating surgeons about intraoperative decision-making processes. Pedagogical modules can be developed that includes training sessions on factors that may implicitly and explicitly influence thinking processes during an operation. Surgeons may also benefit from having open discussions with surgical colleagues about the rich, emotional, intellectual scope of the work that they do with all the challenges that these relationships can bring into decision-making in the operating room.
DOI: 10.25442/hku.23041406.v1
title: Supporting data for “Evaluating the Impact of a School-based Mindfulness Intervention on Peer Relationships among Chinese Migrant Children: The Role of Self-concept and Self-concept Clarity”

description: This is supporting data for thesis: “Evaluating the Impact of a School-based Mindfulness Intervention on Peer Relationships among Chinese Migrant Children: The Role of Self-concept and Self-concept Clarity”, which include: 1. Data of a meta-analuysis study examined the effects of MBIs on peer relationships of children and adolescents, including study and effect size information. 2. Pretest, posttest, and followup survey date of a cluster randomized control trial aims to examine the effectiveness of a school-based mindfulness intervention on peer relationships among Chinese migrant children. 3. Codings of children’s drawing indicators from an interview after a mindfulness-based intervention.
DOI: 10.6084/m9.figshare.3530018.v1
title: Appendix B. Host activity density categories.

description: Host activity density categories.
DOI: 10.6084/m9.figshare.12444203.v1
title: JARVIS-DFT-DFPT (JVASP-44330 to JVASP-52653)

description: DFPT input/output files for JARVIS-DFT.
DOI: 10.21942/uva.27323298.v1
title: Slab_part2.tar.gz

description: This file contains quantitative 7 Tesla MRI contrasts at 0.5 mm isotropic resolutions (partial brain coverage) of the participants 0051-0104 included in the AHEAD
DOI: 10.6084/m9.figshare.12009372.v3
title: Computational Search for Magnetic and Non-magnetic 2D Topological Materials using Unified Spin-orbit Spillage Screening

description: Two-dimensional topological materials (TMs) have a variety of properties that make them attractive for applications including spintronics and quantum computation. However, there are only a few such experimentally known materials. To help discover new 2D TMs, we develop a unified and computationally inexpensive approach to identify magnetic and non-magnetic 2D TMs, including gapped and semi-metallic topological classifications, in a high-throughput way using density functional theory-based spin-orbit spillage, Wannier-interpolation, and related techniques. We first compute the spin-orbit spillage for the ~1000 2D materials in the JARVIS-DFT dataset (https://www.ctcms.nist.gov/~knc6/JVASP.html ), resulting in 122 materials with high-spillage values. Then, we use Wannier-interpolation to carry-out Z<sub>2</sub>, Chern-number, anomalous Hall conductivity, Curie temperature, and edge state calculations to further support the predictions. We identify various topologically non-trivial classes such as quantum spin-hall insulators (QSHI), quantum anomalous-hall insulators (QAHI), and semimetals. For a few predicted materials, we run G<sub>0</sub>W<sub>0</sub>+SOC and DFT+U calculations. We find that as we introduce many-body effects, only a few materials retain non-trivial band-topology, suggesting the importance of high-level DFT methods in predicting 2D topological materials. However, as an initial step, the automated spillage screening and Wannier-approach provide useful predictions for finding new topological materials and to narrow down candidates for experimental synthesis and characterization.
DOI: 10.6084/m9.figshare.28389002.v1
title: DATASET for 1st manuscript (Liquid crystalline coatings loaded with colistin for preventing development of biofilms on orthopedic implants )

description: This DATASET is compiling experimental characterization and bioactivity data that was produced during the project. In the project we at introducing a novel and translatable implant coating approach, focusing on directed assembly of non-lamellar lyotropic liquid crystalline (LLC) nanostructures on implants for prevention of initial bacterial attachment and biofilm formation on implants through local delivery of the widely used cationic antibiotic colistin (COL). In addition to small-angle X-ray scattering (SAXS) characterization investigations, in vitro studies were conducted for evaluating the anti-bacterial and anti-biofilm properties of the LLC coatings against the gram-negative bacteria Pseudomonas aeruginosa. The study also highlights the implications of inverse liquid crystalline self-assemblies for designing nanostructural coatings on orthopedic implants capable of preventing implant-associated biofilm infections through local delivery of antibacterial agents.
DOI: 10.6084/m9.figshare.21946568.v1
title: Literature search: Microfluidic characterization of enzymes

description: The dataset contains the records of scientific research articles which were found during the literature search focused on microfluidic characterization of enzymes. The description of the dataset is as follows: <br> For each study, we have collected information about the detection technique applied, enzyme characteristics, and studied enzymes, including their enzyme commission (EC) numbers, type of microfluidic device and the number of enzyme variants characterized. Furthermore, we have determined the development level of microfluidic technologies based on the searches both in the articles themselves and in the citing literature. Based on this search, we have classified the articles into three categories: (i) proof-of-concept (POC) studies, which only developed and demonstrated the microfluidic system, (ii) systematic applications, i.e., studies that employed the developed technology in at least one other study for similar characterization, and (iii) studies employing commercially available microfluidic technologies. Finally, we have acquired the number of citations and the average number of citations per year from the Web of Science database (results as of 18th January, 2023), while we don’t include citations and publications from 2023.
DOI: 10.6084/m9.figshare.8081594.v1
title: Alignments used in phylogenetic analyses

description: Alignment for used in phylogenetic analyses for "Molecular phylogenetics of slit-faced bats (Chiroptera: Nycteridae) reveals deeply divergent African lineages"
DOI: 10.6084/m9.figshare.27719451.v1
title: <b>Multi resolution electricity consumption dataset of Chinese cities</b>

description: Accurate estimation of electricity consumption at multi-temporal resolutions is crucial for formulating safe and efficient energy management strategies. However, reliable data on daily and monthly urban electricity consumption is often limited. This study develops a top-down approach based on multi-source data to measure the daily and monthly electricity consumption at city-level. Using this method, we calculated the daily and monthly electricity consumption for 296 cities in China. Additionally, we explored the validity of the measurement results from multiple perspectives. This dataset is highly consistent with the officially released national-scale electricity consumption statistics, with a Pearson correlation coefficient of 0.8878. The dataset in this study can be used for analysis in a variety of cutting-edge research fields, such as urban power system resilience assessment, urban power system risk management strategy and policy development.
DOI: 10.6084/m9.figshare.9742214.v1
title: Stanniocalcin-1 is a Modifier of Oxygen-Induced Retinopathy Severity

description: Abnormal activation of signaling pathways related to angiogenesis, inflammation, and oxidative stress has been implicated in the pathophysiology of retinopathy of prematurity (ROP), a leading cause of blindness in pre-term infants. Therapies for ROP include laser and anti-vascular endothelial growth factor agents. However, these therapies have side effects, and even with adequate treatment, visual acuity can be impaired. Novel therapeutic options are needed. Stanniocalcin-1 (STC-1) is a neuroprotective protein with anti-inflammatory and anti-oxidative stress properties. Rodent models of oxygen-induced retinopathy (OIR) were selected to determine whether STC-1 plays a role in the development of OIR. STC-1 gene and protein expression was first evaluated in the Sprague Dawley rat OIR model that is most similar to human ROP. OIR was then induced in wild-type and <i>Stc-1<sup>−/-</sup></i> mice. Retinas were isolated and evaluated for avascular and neovascular area on retinal flat mounts. Quantification of gene expression by quantitative real-time PCR was performed. VEGF was assayed by ELISA in media obtained from induced pluripotent stem-cell-derived retinal pigment epithelial (iPS-RPE) cells following treatment with recombinant STC-1. STC-1 was significantly upregulated in a rat model of OIR compared to room air controls at the gene (<i>P</i> &lt; .05) and protein (<i>P</i> &lt; .001) level. <i>Stc-1<sup>−/-</sup></i> OIR mice showed significantly worse ROP compared to wild-type mice as assessed by avascular (20.2 ± 2.4% vs 15.2 ± 2.5%; <i>P</i> = .02) and neovascular area (14.3 ± 2.7% vs 8.8 ± 3.7%; <i>P</i> &lt; .05). Transcript levels of vascular endothelial growth factor-A were significantly higher in <i>Stc-1<sup>−/-</sup></i> OIR mice compared to wild-type controls (<i>P</i> = .03). STC-1 reduced VEGF production in iPS-RPE cells (<i>P</i> = .01). STC-1 plays a role in the OIR stress response and development of pathologic vascular features in rodent OIR models by regulating VEGF levels.
DOI: 10.6084/m9.figshare.6243644.v1
title: Additional file 2: of Ouroboros resembling competitive endogenous loop (ORCEL) in circular RNAs revealed through transcriptome sequencing dataset analysis

description: A complete list of ORCEL (Ouroboros Resembling Competitive Endogenous Loop) reported in this article. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.16591973.v2
title: Pre-trained Models for PSRGAN

description: 75000_G X4<br><br>5000_G X2<br><br>https://hyongsong.work/<br>
DOI: 10.6084/m9.figshare.13644161.v1
title: Original data for microbiome duckweed fitness experiment

description: Original data for the duckweed microbiome eco-evolutionary dynamics project
DOI: 10.6084/m9.figshare.23650023.v3
title: Data from Keiser et al - Beetle malacophagy

description: Collection information and morphology measurements for Cychrini beetles collected while eating their snail prey (excel file). Raw photographs used for analysis in Leica Microsystems software. The specimen ID in the filename corresponds to the specimen ID in the datasheet.
DOI: 10.6084/m9.figshare.26830408.v1
title: Supplementary Material for: The Role of Online Well-Being Therapy in Overcoming Allostatic Overload in Medical Workers: A Pilot Randomized Controlled Study

description: Introduction: Stress may lead to allostatic overload. Well-Being Therapy (WBT) might mitigate it by enhancing psychological well-being and protecting from psychological symptoms. Since no reports are available on the use of WBT in allostatic overload, we evaluated online WBT effects in reducing allostatic overload in medical workers during the coronavirus pandemic.
Methods: Sixty-six participants with allostatic overload were enrolled and randomly assigned to eight sessions of online WBT (n=32) or eight sessions of an online psychoeducation program on healthy lifestyle (CON) (n=34). The primary outcome was the prevalence rate of allostatic overload in the two groups at session 8 (T2). Secondary analyses were performed on changes in the PsychoSocial Index (PSI) and Psychological Well-Being scales (PWB) scores at the same time points. Generalized Estimating Equation (GEE) models were employed.
Results: The WBT group showed a significantly lower rate of allostatic overload at T2 than the CON group (28.13% vs 70.59%, p &lt; 0.001); similar results were found at T1, T3, and T4 (p &lt; 0.001). Compared to CON, WBT produced a significant decrease in psychological distress (p &lt; 0.001) and abnormal illness behavior (p = 0.031), as well as a significant improvement in PWB autonomy, environmental mastery, personal growth, positive relations with others, purpose in life, and self-acceptance (p &lt; 0.001).
Conclusion: Online WBT may be an effective non-pharmacological therapeutic strategy for individuals with allostatic overload. These findings need to be further validated in different clinical populations.
DOI: 10.6084/m9.figshare.28224872.v1
title: CAP_GBS.hmp.txt

description: Genotyping-by-sequencing (GBS) of the Capsicum Diversity Panel (CAP) to estimate narrow-sense heritability for traits important to mechanical harvesting in chile peppers.
DOI: 10.6084/m9.figshare.28702220.v2
title: ICMLRebuttal.pdf

description: ICML Rebuttal
DOI: 10.6084/m9.figshare.7272713.v1
title: Quality scores for Wikipedia articles (July 2018)

description: This dataset includes a list of over 37 million Wikipedia articles in 55 languages with quality scores by WikiRank (https://wikirank.net). Quality scores of articles are based on Wikipedia dumps from July, 2018<br> <strong>License</strong><br> All files included in this datasets are released under CC0: https://creativecommons.org/publicdomain/zero/1.0/<br><strong>Format</strong><br>• page_id -- The identifier of the Wikipedia article (int), e.g. <em>4519301</em><br><em><em>• </em></em>revision_id -- The Wikipedia revision of the article (int), e.g. <em><em>24284811</em></em><em>• </em>page_name -- The title of the Wikipedia article (utf-8), e.g.<em> General relativity<br></em><em>• </em>wikirank_quality -- quality score 0-100<em><br></em>
DOI: 10.6084/m9.figshare.14226968.v5
title: Airline Data

description: This is airline data, for development of project