cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28690565.v1
title: RF spatial prediction code

description: The RF model is applied to the spatial prediction code of soil heavy metal elements, and the implementation software is R.
DOI: 10.6084/m9.figshare.7511207.v1
title: Comparing the bibliographic management softwares: Mendeley, EndNote and Zotero

description: The development of a reliable literature review from relevant previously published studies is imperative to highlight the originality and scientific contributions of research. Due to the large amount of databases and publications available, we need ease-to-use tools that assist reference management in a standardized way. The purpose of this article was to examine three of the most frequently used bibliographic management softwares by academic researchers: Mendeley, EndNote, and Zotero. The authors sought to highlight the main benefits and difficulties in using the softwares and compared their main features by using a theoretical-conceptual research-based literature as well as critically analyzing the softwares cited by the authors. As a result, it was possible to highlight the main features of each of the softwares and develop a comparative chart. Considering the characteristics of the three softwares analyzed, it was possible to conclude that all of them have tools that facilitate searching, organizing, and analyzing articles, which can facilitate the work of researchers who use these softwares.
DOI: 10.25442/hku.24955896.v2
title: README

description: Note 1: The whole greenspace dataset for one year is split into three parts (i.e., Part 1, Part 2, and Part 3).Note 2: Data is stored in the GeoTiff format with 36 spectral bands, representing 10-day temporal resolution.Note 3: Data is stored in the Int16 datatype (16-bit integer values) with a scale factor of 0.001.Note 4: Data for some large cities is split into several small parts (with a "_Px" symbol in the file name).
DOI: 10.6084/m9.figshare.23750682.v1
title: Machine Learning Ensemble Directed Engineering of Genetically Encoded Fluorescent Calcium Indicators.

description: This upload contains all data collected and presented in (https://doi.org/10.1101/2023.04.13.536801). The files are zipped files associated with main figures, supplemental figures, and supplementary tables. We have additionally attached a .zip file that includes the Chen<sup>1</sup> and Dana<sup>2</sup> datasets used to run our model, as well as an amino acid property matrix derived from AAINDEX<sup>3</sup>. <br> Dataset Refs: 1. Chen, T.-W. <em>et al.</em> Ultrasensitive fluorescent proteins for imaging neuronal activity. <em>Nature</em> <strong>499</strong>, 295–300 (2013). 2. Dana, H. <em>et al.</em> High-performance calcium sensors for imaging activity in neuronal populations and microcompartments. <em>Nat. Methods</em> <strong>16</strong>, 649–657 (2019). 3. AAindex. (https://www.genome.jp/aaindex/)
DOI: 10.6084/m9.figshare.7365008.v2
title: Bovine mammary microbiome

description: amplicon sequencing data and associated metadata of bovine milk and teat from mastitic and infected quarters
DOI: 10.17632/k6tkmm6m5h
title: C57BL_Genomics_Supplementary_material

description: Supplementary material for genomic variation study of 9 C57BL/6 and 5 C57BL/10 substrains. The manuscript associated with this dataset titles: "Polymorphic SNPs, short tandem repeats and structural variants are responsible for differential gene expression across C57BL/6 and C57BL/10 substrains".
DOI: 10.17632/r2vwjw5rbx
title: Afaan Oromo Facebook posts and comments hate speech dataset

description: This dataset is collected from Facebook pages those who mainly using Afaan Oromo for their posts. It is collected from pages of political activists, broadcasting media, religious organization, politician, and famous personal blogs to get many and representative data, as there are many reactions in comment sessions of such posts. we set the following rules for selecting Facebook Pages:
1. A page that mostly uses the Afaan Oromo language for posts. 
2. Pages having likes and followers greater than 20,000.
3. Pages of religious media, famous vlogers, politicians and broadcasting media are selected to get more representative data
Based on the above rules, we selected 18 different Facebook pages and 20,000 unique datasets are collected from posts and comments. The datasets are annotated by 8 annotators based on the annotation guideline given by the researcher. The annotation guideline is prepared based on difinitions of hate speech from Ethiopian hate speech proclamation and also by refering Ethiopian criminal law. Also, the social media hate speech guideline prepared by Center for Advancement of Right and Democracy organization is refered for the guideline preparation. Based on the guideline all annotators given same number of datasets, where 4 of them given the same datasets for measuring inter annotator agreement. We used Fleiss kappa for inter annotator agreement and we got 0.64 which is showing good level of agreement. The dataset is annotated to binary class containing labels hate and free. Among the 20,000 collected datasets which are obtained after cleaning and removing unnecessary characters, 9985 are annotated as Free and the rest 1015 are annotated as Hate.
DOI: 10.17632/xw8f9kkz7f
title: Easy creation of polymeric systems for molecular dynamics with Assemble!

description: This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018) Abstract We present Assemble!, a program greatly simplifying the preparation of molecular dynamics simulations of polymeric systems. The program is controlled either via command line or an intuitive Graphical User Interface, and runs on all major operating systems. Assemble! allows the creation of a desired system of polymer chains from constituent monomers, packs the chains into a box according to the required concentration and returns all the files needed for simulation with Gromacs. We illustrate t... Title of program: Assemble! Catalogue Id: AEZE_v1_0 Nature of problem Preparation of complex polymeric systems for molecular dynamics simulations with Gromacs. Versions of this program held in the CPC repository in Mendeley Data AEZE_v1_0; Assemble!; 10.1016/j.cpc.2015.12.026
DOI: 10.6084/m9.figshare.20647788.v2
title: TabRecSet: A Large Scale Dataset for End-to-end Table Recognition in the Wild

description: Version 3 (Alpha version 1). Share same json annotations.
DOI: 10.6084/m9.figshare.25284835.v1
title: Comparison of PBL and CBL with LBL

description: Traditional lecture-based teaching method is the most commonly used approach in the medical curriculum in China. Problem-based Learning (PBL) and case-based learning (CBL) have been widely researched and utilized in the world. This study aims to evaluate the effectiveness and acceptability of the combined PBL and CBL method in the second-year undergraduate students in their Nephrology experiment module of Medical Diagnostics course.
DOI: 10.6084/m9.figshare.29145755.v1
title: supplementary materials.docx

description: The present study demonstrated that in vitro, activation of Smo/Gli1 pathway can inhibit the G1/S phase transition, proliferation and migration of CFs. Correspondingly, in cardiac remodelling model mice, early intervention with activation of Smo not only ameliorates cardiac fibrosis, but also protects both cardiac function and structure. This provides new evidence for the Shh signalling pathway as a possible target for the treatment of cardiac fibrosis.
DOI: 10.6084/m9.figshare.7946792.v1
title: gVCF_NA20852

description: 1000 Genomes gVCF mapped to hs37d5 for NA20852. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.23265644.v2
title: Data for 'Individual Coal Mine Methane Emissions Constrained by Eddy-Covariance Measurements: Low Bias and Missing Sources'

description: Individual Coal Mine Methane Emissions Constrained by Eddy-Covariance Measurements
DOI: 10.6084/m9.figshare.24265966.v1
title: 2019.3-2020.2京津河北空气质量数据.csv

description: 获取京津冀地区2年5月至2019年2020月PM&lt;&gt;.&lt;&gt;日浓度数据、气象数据、遥感数据、人口变化数据等，反转京津冀地区过去一年空气质量变化，预测京津冀地区部分时间段空气质量
DOI: 10.6084/m9.figshare.28023422.v3
title: Data Figures

description: Data for related figures and supplementary information
DOI: 10.6084/m9.figshare.28927670.v1
title: 第一组

description: Game
DOI: 10.6084/m9.figshare.12366035.v1
title: 关于高科技健康服务系统用户使用行为的调查问卷

description: 关于高科技健康服务系统用户使用行为的调查问卷
DOI: 10.6084/m9.figshare.21810576.v2
title: Strava activity data

description: Simplified activity data from Strava. <br> Primary training data harvested used training watch. Selective use for physical activity only designated as training and not recovery work.
DOI: 10.6084/m9.figshare.24420631.v2
title: Synthetic augmentation of cancer cell line multi-omic datasets using unsupervised deep learning: MOFA

description: Calculated omic matrices using MOFA (PMID:29925568, PMID:32393329).
DOI: 10.6084/m9.figshare.28215734.v1
title: <b>Exercise alters molecular profiles of inflammation and substrate metabolism in human white adipose tissue</b>

description: White adipose tissue (WAT) plays a significant role in whole-body energy homeostasis, and its excess typifies obesity. In addition to WAT quantity, perturbations in the basic cellular processes of WAT (i.e. quality) are also associated with obesity and metabolic disease. Exercise training alleviates metabolic perturbations associated with obesity; however, the underlying molecular mechanisms that drive these metabolic adaptations in WAT are not well described. Abdominal subcutaneous WAT biopsies were collected after an acute bout of exercise (1 day after) at baseline and following three weeks of supervised aerobic training in sedentary overweight women (<i>n</i> = 6) without alterations in body weight and fat mass. RNA-seq, global proteomics, and phosphoproteomics in WAT revealed training-induced changes in 1527 transcripts, 154 proteins, and 144 phosphosites, respectively. Training decreased abundance of transcripts and proteins involved in inflammation and components of the extracellular matrix (ECM) and increased abundance of transcripts and proteins related with fatty acid esterification and lipolysis. In summary, short-term aerobic training significantly reduces local inflammation and increases lipid metabolism in WAT of sedentary overweight women – independent of alterations in body and fat mass. As such, some of the health benefits of aerobic training may occur through molecular alterations in WAT (i.e. enhanced quality) rather than a sheer reduction in WAT quantity.
DOI: 10.6084/m9.figshare.22822799.v2
title: Dipodomys_ordii

description: Gene, transcript, and intron level classification, by species
DOI: 10.6084/m9.figshare.27014959.v1
title: RePurr: Automated Repair of Block-Based Learners' Programs

description: Programming is increasingly taught using dedicated block-based programming environments such as Scratch.While the use of blocks instead of text prevents syntax errors, learners can still make semantic mistakes implying a need for feedback and help. Since teachers may be overwhelmed by help requests in a classroom, may not have the required programming education themselves, and may simply not be available in independent learning scenarios, automated hint generation is desirable. Automated program repair can provide the foundation for automated hints, but relies on multiple assumptions: (1) Program repair usually aims to produce localized patches for fixing single bugs, but learners may fundamentally misunderstand programming concepts and tasks or request help for substantially incomplete programs. (2) Software tests are required to guide the search and to localize broken statements, but test suites for block-based programs are different to those considered in past research on fault localization and repair: They consist of system tests, where very few tests are sufficient to fully cover the code. At the same time, these tests have vastly longer execution times caused by the use of animations and interactions on Scratch programs, thus inhibiting the applicability of metaheuristic search. (3) The plastic surgery hypothesis assumes that the code necessary for repairs already exists in the codebase. Block-based programs tend to be small and may lack this necessary redundancy. In order to study whether automated program repair of block-based programs is nevertheless feasible, in this paper we introduce, to the best of our knowledge, the first automated program repair approach for Scratch programs based on evolutionary search. Our RePurr prototype includes novel refinements of fault localization to improve the lack of guidance of the test suites, recovers the plastic surgery hypothesis by exploiting that a learning scenario provides model and student solutions as alternatives, and uses parallelization and accelerated executions to reduce the costs of fitness evaluations. Empirical evaluation of RePurr on a set of real learners’ programs confirms the anticipated challenges, but also demonstrates that the repair can nevertheless effectively improve and fix learners’ programs, thus enabling automated generation of hints and feedback for learners.
DOI: 10.6084/m9.figshare.28082978.v1
title: FileS12_AlignmentsConcatenated.zip

description: Genes used in concatenated tree. This set of 171 genes selected from clade-grabbed trees (see methods section) was concatenated using IQ-Tree with partitioned models (given in PartitionFile.nex) to produce the phylogeny in Fig 2.
DOI: 10.25909/27276171.v2
title: Data associated with Figure 4a

description: data for all figures can be found in different tabs within the file: Raw Data associated with Microrheology of the Cumulus-Oocyte Matrix using Optical Tweezers
DOI: 10.6084/m9.figshare.12486497.v1
title: JVASP-5851 to JVASP-8243

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.24226177.v2
title: SPRUCE Snow presence, depth, and fractional cover estimates

description: This dataset contains snow presence (2015-2021), depth (2019-2021), and fractional cover estimates (2017-2021) estimates for experimental plots in the SPRUCE experiment in Minnesota, USA. Data were derived from repeat digital photography, with quantities estimated daily. For additional information, see Richardson<i> </i><i>et al</i>. (submitted), “<i>Experimental Whole-ecosystem Warming Enables Novel Estimation of Snow Cover and Depth Sensitivities to Temperature, and Quantification of the Snow-Albedo Feedback Effect.</i>”
DOI: 10.6084/m9.figshare.28661075.v1
title: UW 12364 digital model and image set

description: UW 12364 pterosaur tracks<i>Pteraichnus </i>isp.Sundance Formation, Alcova Reservoirlate Oxfordian-early Kimmeridgian, Upper Jurassic
DOI: 10.6084/m9.figshare.3514373.v1
title: Appendix E. Comparison of linear, quadratic, and piecewise regressions of chlorophyll content of elk forage grasses on Julian day in 2005.

description: Comparison of linear, quadratic, and piecewise regressions of chlorophyll content of elk forage grasses on Julian day in 2005.
DOI: 10.17632/2yygth933v
title: Data for: Unit Scheduling Considering the Flexibility of Intelligent Temperature Control Appliances under TOU Power Price
DOI: 10.6084/m9.figshare.10308617.v3
title: raw data.xlsx

description: This study retrospectively assessed the data of 95 patients with ARDS caused by severe pneumonia. Patients were divided into NGS group and no-NGS group. Clinical characteristics, laboratory examination, ICU cost and prognosis in the two groups were compared. Meanwhile, compared patients in NGS group, mNGS and routine detection methods had different detection efficiency for bacteria, fungi, viruses, unusual pathogens and co-infections.
DOI: 10.6084/m9.figshare.14815077.v1
title: Supplementary Material for: Current and Future Projections of Amyotrophic Lateral Sclerosis in the United States Using Administrative Claims Data

description: <b><i>Background:</i></b> Various methodologies have been reported to assess the real-world epidemiology of amyotrophic lateral sclerosis (ALS) in the United States. The aim of this study was to estimate the prevalence, incidence, and geographical distribution of ALS using administrative claims data and to model future trends in ALS epidemiology. <b><i>Methods:</i></b> We performed a retrospective analysis of deidentified administrative claims data for &gt;100 million patients, using 2 separate databases (IBM MarketScan Research Databases and Symphony Health Integrated DataVerse [IDV]), to identify patients with ALS. We evaluated disease prevalence, annual incidence, age- and population-controlled geographical distribution, and expected future trends. <b><i>Results:</i></b> From 2013 to 2017, we identified 7,316 and 35,208 ALS patients from the MarketScan databases and IDV, respectively. Average annual incidence estimates were 1.48 and 1.37 per 100,000 and point prevalence estimates were 6.85 and 5.16 per 100,000 and in the United States for the MarketScan databases and IDV, respectively. Predictive modeling estimates are reported out to the year 2060 and demonstrate an increasing trend in both incident and prevalent cases. <b><i>Conclusions:</i></b> This study provides incidence and prevalence estimates as well as geographical distribution for what the authors believe to be the largest ALS population studied to date. By using 2 separate administrative claims data sets, confidence in our estimates is increased. Future projections based on either database demonstrate an increase in ALS cases, which has also been seen in other large-scale ALS studies. These results can be used to help improve the allocation of healthcare resources in the future.
DOI: 10.6084/m9.figshare.24720762.v1
title: Supplementary Tables.pdf

description: <b>Table S1</b><b> </b><b>Distribution of phenotypes within the subtypes. </b>Values are presented as numbers with percentages in brackets. In the total cohort, from 258 women data was missing to determine the phenotype. In the subset NIH criteria, from 16 women data was missing to determine the phenotype. Abbreviations: OD, ovulatory dysfunction; PCOM, polycystic ovarian morphology; HA, hyperandrogenism. Phenotype A: OD +HA +PCOM, phenotype B: OD + HA, phenotype C: HA + PCOM, and phenotype D: OD +PCOM. <b>Table S2</b> <b>Comparison between classic NIH subset and non-NIH subset from the total cohort across the three subtypes. </b>Values are presented as numbers with percentages in brackets. Samples were stratified in the ‘Classic NIH’ and ‘non-NIH Rotterdam’ groups based on the clustering analysis from the total cohort. Phenotype A: OD +HA +PCOM, phenotype B: OD + HA, phenotype C: HA + PCOM, and phenotype D: OD +PCOM. Chi-squared test was performed to test for significance.
DOI: 10.6084/m9.figshare.25679526.v1
title: <b>Exploring Baekdudaegan Mountain Research: Insights from Bibliometric and Latent Dirichlet Allocation Analysis</b>

description: Mountains are complex and diverse ecosystems. This study explores insights into Baekdudaegan mountain research. Baekdudaegan is renowned for its biodiversity hotspots and cultural heritage, spanning over 1,400 kilometers across the Korean Peninsula. We obtained a total of 165 pieces of literature containing the keyword 'Baekdudaegan' from the Web of Science (WoS) core collection for bibliometric and Latent Dirichlet Allocation (LDA) analysis...
DOI: 10.6084/m9.figshare.29083430.v1
title: Gridded data of embodied carbon from asphalt

description: 5,538,063 records are weight in urban building ECE of asphalt in two urban agglomerations from 2000 to 2020 at 500×500m grid scale.
DOI: 10.17632/72d9dyrf7r
title: Blending and separating dynamics of RNA-binding proteins develop architectural splicing networks spreading throughout the nucleus. Masuda et al.

description: "Figure_related_data.zip" contains .jpg or .tif files for figures. "raw_images.zip" contains images with and without super-resolution/deconvolution processing.
DOI: 10.6084/m9.figshare.25237449.v1
title: Additional file 2 of A forecasting tool for a hospital to plan inbound transfers of COVID-19 patients from other regions

description: Supplementary Material 2: Spreadsheet Model
DOI: 10.6084/m9.figshare.12085821.v1
title: Results from a Replicated Experiment on the Affective Reactions of Novice Developers when Applying Test-Driven Development: Raw Data

description: Contains the raw data of the replicated experiment by Romano et al. [1]. <br>Reference:[1] S. Romano, D. Fucci, M. T. Baldassarre, D. Caivano and G. Scanniello, <i>"Results from a Replicated Experiment on the Affective Reactions of Novice Developers when Applying Test-Driven Development,"</i> in proc. of International Conference on Agile Software Development (XP), 2020.
DOI: 10.6084/m9.figshare.14914911.v1
title: Raw outputs of P depletion

description: Results of depletion factor calcuations. Presented here are the depletion factors from each infdividual tephra analysis, from each of the volcanic provinces.<br>Used in Figure 3 of "Late Ordovician climate change and extinctions driven by elevated volcanic nutrient supply" by Longman et al., Nat. Geosci. (2021) <br>
DOI: 10.6084/m9.figshare.19210002.v1
title: RRM models of Sherwood and Bunter Sandstones

description: The models in this collection were constructed using Rapid Reservoir Modelling (RRM) prototype software.Jacquemyn, C., Pataki, M.E., Hampson, G.J., Jackson, M.D., Petrovskyy, D., Geiger, S., Marques, C.C., Silva, J.D.M., Judice, S., Rahman, F. and Sousa, M.C., 2021. Sketch-based interface and modelling of stratigraphy and structure in three dimensions. <i>Journal of the Geological Society</i>, <b>178</b>, jgs2020-187, <sub>https://doi.org/10.1144/jgs2020-187</sub>.<br>Rapid Reservoir Modelling (executable and source code) is available at: <sub>https://bitbucket.org/rapidreservoirmodelling/rrm</sub>.<br>The models are part of the following publication.Alshakri, J., Hampson, G.J., Jacquemyn, C., Jackson, M.D., Petrovskyy, D., Geiger, S., Silva, J.D.M., Judice, S., Rahman, F. and Costa Sousa, M., in press. A Screening Assessment of the Impact of Sedimentological Heterogeneity on CO<sub>2</sub> Migration and Stratigraphic-Baffling Potential: Sherwood and Bunter Sandstones, UK. <i>In: </i>Heinemann, N. (ed.), Enabling secure subsurface storage in future energy systems, <i>Geological Society of London Special Publication</i>, <b>528</b>, 245-266. https://doi.org/10.1144/SP528-2022-34
DOI: 10.6084/m9.figshare.21231260.v1
title: SNP Data 60 heirlooms.xlsx

description: Genotyping matrix using the SolCap array and consisting of 7,591 biallelic SNPs present in over 90% of 60 tomato heirlooms
DOI: 10.6084/m9.figshare.3568689.v1
title: Appendix D. Photographs of butterflies and orthopteran species and lists of butterfly and orthopteran species, and plant families found in 2011 and 2012.

description: Photographs of butterflies and orthopteran species and lists of butterfly and orthopteran species, and plant families found in 2011 and 2012.
DOI: 10.17632/38sym72fmc
title: Synoptics and Tornado Projections using SOMs and ANNs (Kent State and EPRI)

description: These are the requisite datasets, customized functions, and scripts associated with the paper: "Using neural network models and synoptic circulation patterns to project future changes in US tornado activity" by Cameron Lee, Omon Obarein, and Erik Tyler Smith (currently in preparation as of 21-Jan-2025). All datasets, custom functions, and scripts are in Matlab-based file formats (.mat for data, and .m for functions and scripts). The dataset named "Outputs_Xkeepsave_SOMxANN_v35.mat" is a Matlab 'cell-array' data file of the collection of final datasets for producing various graphics and tables in the above-mentioned manuscript. For any questions on the use of these datasets, custom functions and scripts, please contact Dr. Cameron C. Lee at Kent State University.

This research was funded by EPRI (Contract ID: 10016806; PI: Cameron C. Lee).
DOI: 10.6084/m9.figshare.24646320.v1
title: Key Biodiversity Areas_KBAs.rar

description: Global Dataset containing the current boundaries for Key Biodiversity Areas (KBAs)