cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/vmnt67rd7k
title: World Special Economic Zone

description: Special economic zones are typically created in order to facilitate rapid economic growth by leveraging tax incentives to attract foreign investment and spark technological advancement. While many countries have set up special economic zones. China has been the most successful in using SEZs to attract foreign capital.

More than 1,000 zones were created in the last five years, and at least 500 more are in the pipeline for the coming years.

A new wave of industrial policies and increasing competition for international investment has sparked a boom in the establishment of special economic zones (SEZs), according to UNCTAD’s World Investment Report 2019.

The global tally of zones has increased to nearly 5,400, up from 4,000 five years ago, and more than 500 new SEZs are in the pipeline.

The industrial zones, which offer fiscal incentives and streamlined regulations to attract foreign direct investment (FDI), are common in most developing and many developed economies. More than 145 economies operate such zones today.
DOI: 10.6084/m9.figshare.28455698.v1
title: Analysis of The Development Trend of Chinese Aquatic products Imported from Southeast Asia after The Contaminated Wastewater Discharge from Japan

description: 这些数据表明，产品发生了变化2018 年至 2024 2023 年日本污染废水排放事件影响的全球对华出口
DOI: 10.17632/xn3ccj6kym
title: An open-source implementation of a quasi harmonic approach to compute the intramolecular entropy of particle systems

description: The implementation of a quasi harmonic approach to determine the intramolecular entropy of particle systems in an open-source python code is presented. The code makes use of platform-independent tools and can be readily transferred to any computer platform which can run python. It is straightforward to incorporate the code into the LAMMPS software as well as into other molecular simulation programs. In the computational part of this work, we evaluate the intramolecular entropy of atactic polystyrene and polyethylene melts in an all atom as well as in a coarse grained (CG) resolution at five temperatures between 400 and 450 K. For both polymers, coarse graining with its reduced system degrees of freedom and its softened bonded radial potential, causes a strong reduction of the entropy. However, the averaged entropy per degree of freedom in the CG case exceeds the one under atomistic resolution. Also the temperature dependence of the intramolecular entropy becomes weaker in the transition from an atomistic to a coarse grained description. The larger entropy of polyethylene in comparison to polystyrene under both resolutions is a consequence of its longer chain length. To simplify a comparison of the two polymers in the two considered resolutions, we analyze the total intramolecular entropy as well as its temperature gradient via a scaling of both quantities by the number of degrees of freedom. In the two studied systems and for both levels of resolution, a linear dependence of the intramolecular entropy on the temperature is identified.
DOI: 10.6084/m9.figshare.11858928.v1
title: Additional file 15 of Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed

description: Additional fileÂ 15. Prediction on the functional redundancy of bacterial communities in wild and domesticated rice
DOI: 10.6084/m9.figshare.25041452.v1
title: GenAI x Place Identity data

description: Data analyzed for manuscript "Place Identity: A Generative AI’s Perspective" published in <i>Humanities and Social Sciences Communications</i>.
DOI: 10.6084/m9.figshare.6179219.v2
title: Code and metadata: Genetic architecture and selective sweeps after polygenic adaptation to distant trait optima

description: Understanding the genetic basis of phenotypic adaptation to changing environments is an essential goal of population and quantitative genetics. While technological advances now allow interrogation of genome-wide genotyping data in large panels, our theoretical understanding of the process of polygenic adaptation is still quite limited. To address this limitation, we use extensive forward-time simulation to explore the impacts of variation in demography, trait genetics, and selection on the rate and mode of adaptation and the resulting genetic architecture. We simulate a population adapting to an optimum shift, modeling sequence variation for 20 QTL for each of 12 different demographies for 100 different traits varying in the effect size distribution of new mutations, the strength of stabilizing selection, and the contribution of the genomic background. We then use random forest regression approaches to learn the relative importance of input parameters for statistics of interest such as the speed of adaptation, the relative frequency of hard sweeps and sweeps from standing variation, or the final genetic architecture of the trait. We find that selective sweeps occur even for traits under relatively weak selection and where the genetic background explains most of the variation. Though most sweeps occur from variation segregating in the ancestral population, new mutations can be important for traits under strong stabilizing selection that undergo a large optimum shift. Additionally, we find that deleterious mutations are more strongly influenced by the strength of stabilizing selection. We also show that population bottlenecks and expansion impact overall genetic variation as well as the relative importance of sweeps from standing variation and the speed with which adaptation can occur. We then use the matrix of effect sizes and allele frequencies in each population as a target for machine learning and find that demography and the effect size of new mutations have the largest influence on present day genetic architecture. Because a variety of parameter combinations can result in relatively similar genetic architectures, we conclude that it is not straightforward to infer much about the process of adaptation from the genetic architecture alone. Overall, our results underscore the complex population genetics of individual loci in even relatively simple quantitative trait models but provide a glimpse into the factors that drive this complexity.
DOI: 10.6084/m9.figshare.14386799.v1
title: fixed SST runs

description: All files are in NetCDF4 format, readable with nco or cdo.<br>"xxx_fixedssts" files are 20 year climatologies of fixed SST simulations with control climatologies subtracted (except for "control_fixedssts.nc").<br>"xxx_instantaneous" files contain instantaneous radiative changes from control (except for "control_instantaneous.nc").<br>"xxx_isccp" files contain the ISCCP simulated cloud changes for with cloud radiative kernels
DOI: 10.6084/m9.figshare.2300251.v1
title: Validation of assembled contigs of Hypsibius dujardini genome of Boothby et al. using ultra low input sequencing

description: Extent of microbial contamination in assembled contigs of Hypsibius dujardini genome of Boothby et al. is confirmed by mapping sequence reads obtained from a single individual of H. dujardini Z151 (same strain) using ultra low input sequencing protocol using Thruplex kit (Rubicon Genomics). Mapping was performed using BWA, and mapping statistics are calculated using Qualimap software. <br>As shown in the report, nearly 7000 contigs show coverage &lt; 1, including 11 longest contigs.
DOI: 10.17632/2zv856bysz
title: Data for: Pharmacy Stakeholder Reports on Ethical and Logistical Considerations in Anti-Opioid Vaccine Development

description: Data collected from Pharmacists and Student Pharmacists in WI in 2019. Contains information regarding opinions on opioid use disorder, data on their access to and use of therapeutics and non-pharmacologic options for management of opioid-related concerns, opinions on logistical and ethical concerns associated with these options, and opinions regarding the desired characteristics, applications, logistical and ethical concerns regarding anti-opioid vaccines as a potential new therapeutic approach.
DOI: 10.6084/m9.figshare.19919056.v1
title: JSS - The Role of Scrum Master - Survey Questionnaire

description: This contains the survey questionnaire of the paper: The Role of the Scrum Master in an Industry based University Course (Journal of Systems and Software, 2022)
DOI: 10.6084/m9.figshare.10312097.v1
title: Simplified shape file for mapping

description: In this directory, there are 6 geojson files which were used for mapping.1. Lake_Arc_simplify: Boundary of Lakes in and around Ontario2. Ontario_arc: Boundary lines of Ontario3. Municipal_Arc_simplify: Boundary lines of municipalities4. Municipal_Polygon: Polygons of the municipalities5. Stations151: Locations of 151 weather stations (municipalites)6.polygon9864: Rectangle areas centered at the 9864 grid points<br>source:https://github.com/LAMPSYORKU/OntarioClimateDataPortal/tree/master/shapefiles
DOI: 10.6084/m9.figshare.13260227.v2
title: AM_vs_EcM_tropical_complete

description: Dataset obtained from data published by Tedersoo et al 2014. Contains climatic and soil information of tropical lowland forests
DOI: 10.6084/m9.figshare.22093037.v1
title: A draft genome assembly of reef-building octocoral <em>Heliopora coerulea</em>

description: <strong>Abstract</strong> Coral reefs are under existential threat from climate change and anthropogenic impacts. Genomic studies have enhanced our knowledge of resilience and responses of some coral species to environmental stress, but reference genomes are lacking for many coral species. The blue coral <em>Heliopora</em> is the only reef-building octocoral genus and exhibits optimal growth at a temperature close to the bleaching threshold of scleractinian corals. Local and high-latitude expansions of <em>Heliopora coerulea</em> were reported in the last decade, but little is known about the molecular mechanisms underlying its thermal resistance. We generated a draft genome of <em>H. coerulea</em> with an assembled size of 429.9 Mb, scaffold N50 of 1.42 Mb and BUSCO completeness of 94.9%. The genome contains 239.1 Mb repetitive sequences, 27,108 protein coding genes, 6,225 lncRNAs, and 79 miRNAs. This reference genome provides a valuable resource for in-depth studies on the adaptive mechanisms of corals under climate change and the evolution of skeleton in cnidarian. <br> <strong>Data Records</strong> The Illumina, PacBio HiFi, and RNAseq data have been deposited in NCBI Sequence Read Archive with accession number SRR23530023, SRR23530024, SRR23530025, SRR23530026, SRR23530027, SRR23530028, SRR23530029, SRR23530030, and SRR23530031, under Bioproject accession number PRJNA936655. The genome assembly has been deposited at GenBank with accession number JASJOG000000000. The genome annotation (“Hco_maker_PASA_Final.gff”) and predicted genes (“Hco_v1.transcript.fasta” and “Hco_v1.protein.fasta”), lncRNA (“Hco_lncRNA.fasta”), and miRNA (“Hco_miRNA_mature.fasta”) has been deposited in the Figshare database. <br> #Genome paper published in <strong>Scientific Data</strong> in 2023.
DOI: 10.6084/m9.figshare.7667174.v1
title: South American dataset (Gnecchi-Ruscone et al. 2019)

description: Genome-wide genotype data (not filtered for QC) generated as described in Gnecchi-Ruscone et al. 2019 (Molecular Biology & Evolution). <br>
DOI: 10.17632/m4p55ypxxz
title: Data for: A pin-array method for capturing tissue deformation under defined pressure distributions and its application to prosthetic socket design

description: Excel data files relating to measurements of forearm tissue stiffness and forces exerted on pads designed using the pin array tool
DOI: 10.6084/m9.figshare.1428748.v1
title: Dataset of 8800 animal × seed interactions

description: 8800 unique animal × seed interactions and their corresponding animal body masses, animal categories, seed volumes, fruit types, research sources and references.<br>Paper:A mammoth mouthful? A test of the idea that larger animals ingest larger seedsSC Chen, AT MolesGlobal Ecology and Biogeography 24 (11), 1269-1280https://doi.org/10.1111/geb.12346<br>
DOI: 10.6084/m9.figshare.24233548.v1
title: generalized nonlinearity

description: The R and datafiles contain information required to reproduce the case study the analyses contained in the paper "Generalized non-linearity in wildlife ecology: research, review, and recommendations"
DOI: 10.17632/4x4nsbhz37
title: Merlin++, a flexible and feature-rich accelerator physics and particle tracking library

description: Merlin++ is a C++ charged-particle tracking library developed for the simulation and analysis of complex beam dynamics within high energy particle accelerators. Accurate simulation and analysis of particle dynamics is an essential part of the design of new particle accelerators, and for the optimization of existing ones. Merlin++ is a feature-full library with focus on long-term tracking studies. A user may simulate distributions of protons or electrons in either single particle or sliced macro-particle bunches. The tracking code includes both straight and curvilinear coordinate systems allowing for the simulation of either linear or circular accelerator lattice designs, and uses a fast and accurate explicit symplectic integrator. Physics processes for common design studies have been implemented, including RF cavity acceleration, synchrotron radiation damping, on-line physical aperture checks and collimation, proton scattering, wakefield simulation, and spin-tracking. Merlin++ was written using C++ object orientated design practices and has been optimized for speed using multicore processors. This article presents an account of the program, including its functionality and guidance for use.
DOI: 10.6084/m9.figshare.26044042.v1
title: Spatial transcriptomic sequencing for HNSCC

description: Spatial transcriptomic sequencing for HNSCC tumor samples.
DOI: 10.6084/m9.figshare.12494579.v1
title: Gene database of Acinetobacter baumannii ATCC 19606

description: With its natural habitat still under investigation, <i>Acinetobacter baumannii</i> is a Gram-negative, small, round, rod-shaped bacterium that has been increasingly associated with nosocomial infections in hospitals, with particular prevalence in immunocompromised patients. Lacking a flagella, the bacterium nevertheless exhibits twitching and swarming motility which likely arise due to the presence of Type IV pili on the cell surface. Motility of the bacterium could also have been aided by the secretion of a layer of exopolysaccharides on the cell surface that serve as lubricants. This work sought to illuminate the genetic repertoire of <i>A. baumannii</i> ATCC 19606 by parsing its annotated genome sequence from Genbank through an in-house MATLAB software. Comprising gene name, gene function and gene sequence, the database should find use in understanding the molecular players endowed in the bacterium, particularly those relevant to pathophysiological processes. More importantly, gene sequences catalogued could inform efforts at using loss-of-function approaches aided by genome editing to help dissect the molecular dialogue between different effectors during pathogenesis.
DOI: 10.6084/m9.figshare.23585250.v1
title: Supplementary Material for: Dupilumab for chronic prurigo: case series on effectiveness, safety, and quality of life

description: Background Chronic prurigo (CPG) is a pruritic skin disease, characterized by an itch–scratch cycle and scarring. It reduces patients’ quality of life (QoL). Dupilumab is a monoclonal human IgG antibody that inhibits signaling of the interleukin 4 (IL-4) and interleukin 13 (IL-13) pathways through blockade of the IL-4 receptor (IL-4R). Patients with CPG who receive dupilumab often report great improvement in itch and overall QoL. We therefore reviewed our experience in order to follow up on QoL, safety, and treatment response in patients with CPG who received dupilumab. Methods We conducted a real-world retrospective single-center case series. Outcomes were assessed by phone interviews and photographs using validated questionnaires and scores. Demographic data were obtained from the hospital files. Follow-up was up to 2 years. We assessed quality of life with the Dermatology Life Quality Index (DLQI) and the Itchy quality of life questionnaire (ItchyQoL). Numerical Rating Scale (NRS) was used to assess itch. Prurigo lesions were documented with the Prurigo activity and severity score (PAS). Results Ten patients were included in this study. Results were reported up to two years after treatment with dupilumab. The response variables for DLQI, ItchyQoL, NRS and PAS analyses showed a statistically significant decrease over time (DLQI: (p = &lt; 0.0001, [-0.84; -1.27]), ItchyQoL: (p = &lt; 0.0001, [-9.89; -18.69], NRS maximum and average: p = &lt; 0.0001, [-0.52; -0.86] and p = &lt; 0.0001; [-0.55; -0.94] and PAS number of lesions: p = 0.0005; [-1.70; -5.28]). The percent decrease after one year of treatment (this estimate is based on model estimates) ranges from -42% to -82%. Four (40%) patients reported mild side effects. No serious side effects were reported. Conclusion Dupilumab treatment of CGP for up to two years is associated with improved QoL and less itching.
DOI: 10.6084/m9.figshare.24552160.v6
title: Article - MPS-Sampling

description: All the data about the article of MPS-Sampling.MPS-Samping (data of the analysis from MPS-Sampling)ADB (Artificial genomes generated from RiboDB data)datafasta.tar.gz (a file to unzip, containing all the protein sequences from GTDB)genome_index (the index csv file used by MPS-Sampling)SamplesSample_X (a directory for each tested sample)inputgenome_index (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_0.4MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)GTDB (Genome-Based Database)inputfasta.tar.gz (a file to unzip, containing all the protein sequences from GTDB)genome_index.csv (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_X (There is a directory for each delta from {0.05, 0.1, ... , 0.95, 1}.)MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)RiboDB (Ribosomal Database)inputfasta.tar.gz (a file to unzip, containing all the protein sequences from RiboDB, after filtering)genome_index.csv (the index csv file used by MPS-Sampling)output4.MPS_results_directorye_value_1e-05_cov_mode_0_min_cov_0.8_min_seq_id_0.6delta_X (There is a directory for each delta from {0.05, 0.1, ... , 0.95, 1}.)MPS_links.csv (A file with two columns, containing the link between each original genome (first column) and its MPS-representative (second column).)MPS_representatives.csv (A file with one column, contain the MPS-representatives chosen by MPS-Sampling.)phylogeny (data about the phylogenetic inference)Bacillaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Bacterial backboneconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Enterobacteriaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)Lactobacillaceaeconcat_cleaned.fst (the supermatrix used for the phylogenetic inference)FastTree_iTOL.nw (the inferred phylogeny, as it was used on iTOL)<br>
DOI: 10.6084/m9.figshare.28904894.v1
title: Combined dataset_HMIS tool review_2025.xlsx

description: The dataset contains the key data elements for postpartum and postabortion family planning indicators that are available in routine registers (antenatal care, maternity/delivery care, postnatal care, postabortion care, and family planning register)<b><i> </i></b>from 18 countries as of 2023/2024.
DOI: 10.17632/25g6cm8vhb
title: Wheat Rust Images For Diseases Map

description: Wheat Rust Images For Diseases Map
DOI: 10.6084/m9.figshare.12163812.v2
title: GTT-1-protein-307.dcdWW domain trajectories

description: Trajectories of ww domainTrajectories dataTrajectories of WW domain
DOI: 10.6084/m9.figshare.24873813.v1
title: VR Training Study dataset and analysis scripts (VRAT001)

description: This folder contains preprocessed data and accompanying analysis scripts in R for a study on the effects of a VR training on hemispatial neglect. The pre-registered study protocol is published on OSF: https://osf.io/b4xfg.
DOI: 10.6084/m9.figshare.27595785.v2
title: <b>Imputation-Based Whole Genome Sequencing Data in Duroc, Landrace, and Yorkshire Pigs</b>

description: Imputation-Based Whole Genome Sequencing Data in Duroc, Landrace, and Yorkshire Pigs
DOI: 10.17605/osf.io/2jks3
title: MetaOnc KVI – Breast Cancer Digital Twin System

description: MetaOnc system KVI – Breast Cancer Digital Twin System is not just a statistical assessment tool. It is the implementation of an advanced oncological philosophy, which perceives each patient not as a simple carrier of biological markers, but as a multidimensional existence with physical, psychological, social and environmental components. This digital image – or " patient avatar " – is fully tailored to the specific parameters of each person, and evolves simultaneously with them, recording, simulating and interpreting the course of the disease in a dynamic way.
Its predictive component allows the assessment of therapeutic response and potential outcomes, based on hundreds of parameters covering the genomic signature, tumor characteristics, treatment history, adverse events, psychological profile, lifestyle and support structure of the patient. At the same time, the digital twin's advisory function offers targeted recommendations to the medical team, the patient himself or his psychosocial environment, indicating areas for reinforcement, empowerment or differentiation.
At the core of the project lies the vision of its creator, Dr. Dimitrios G. Kimoglou: the unification of Neuroscience , Psychology, Oncology and Artificial Intelligence into a single platform of understanding and intervention. MetaOnc KVI is not just software, but an interactive , evolving representation of each woman's battle with breast cancer – a "second voice", based on evidence-based knowledge and personalized analysis.
It is intended to function as a predictive model, educational tool, and advisory guide to the patient's psychosomatic course, strengthening the role of science in the holistic support of human life.
DOI: 10.17632/t255cjz787
title: Multiomics picture of obesity in young adults: part I

description: The proteomic data obtained for plasma samples of patients with different BMIs

This dataset presents the results of SearchGUI/PeptideShaker processing of HPLC-MS/MS profiling of plasma samples of patients with different BMIs. This dataset contains information about the proteins and peptides detected in the plasma samples, allowing researchers to gain insights into the proteomic profiles associated with different BMI categories. The dataset includes details about the identified proteins and peptides, such as their abundance levels and potential biological functions. 
Additionally, the dataset provides information on the quality of the analysis, including metrics such as false discovery rates and confidence scores for the identified proteins and peptides. 
In order to view the visualized results of proteomic analysis, one need to utilize the PeptideShaker package (http://compomics.github.io/projects/peptide-shaker). PeptideShaker is a comprehensive platform for analyzing and interpreting experimental data, offering insights into the quality of identified hits, the performance of mass spectrometry, and the effectiveness of search engines. 
Description of the experiment (as well as raw data and mgf files) is available as well (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7912072/).