cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25403407.v2
title: ChatGPT API and BERT NLP

description: <b>input_prompts.csv</b> provides the inputs for the ChatGPT API (countries and their respective prompts).<b>topic_consolidations.csv </b>contains the 4,018 unique topics listed across all ChatGPT responses to prompts in our study and their corresponding cluster labels after applying K-means++ clustering (n = 50) via natural language processing with Bidirectional Encoder Representations from Transformers (BERT). ChatGPT response topics come from both versions (3.5 and 4) over 10 iterations each (per each country).<b>ChatGPT_prompt_automation.ipynb</b> is the Jupyter notebook of Python code used to run the API to prompt ChatGPT and gather responses.<b>topic_consolidation_BERT.ipynb</b> is the Jupyter notebook of Python code used to process the 4,018 unique topics gathered through BERT NLP. This code was adapted from Vimal Pillar on Kaggle (https://www.kaggle.com/code/vimalpillai/text-clustering-with-sentence-bert).
DOI: 10.6084/m9.figshare.26348908.v1
title: Assemblies_and_data_R1.zip

description: <b>All datasets used for the phylogenomics, phylogenetics, SSU rRNA tree, Virulency </b><b>factors, and HGTs.</b><br><b>Assemblies directory</b><b> contains:</b> two subdirectories: “full” contains raw rnaSPAdes v3.13 assemblies,“cleaned_based_on_taxonomy” contains decontaminated protein assemblies.<b>HGTs,</b><b> </b><b>Energy_generation_and_pyruvate_metabolism</b><b>, a</b><b>nd Virulency_factors</b><b> directories contain:</b> three subdirectories: “initial_fastas”, “final_fastas”, and “trees” respectively. The “initial_fasta” directory contains all the candidate sequences from the preliminary datasets. The “final_fastas” directory comprises of all sequenced after manual inspection and removal of xenolog sequences. Final trees in newick format are in the “trees” directory.<b>The SSUrRNA directory contains:</b> fasta file with all the SSU rRNA sequences (SSU_rRNA.fas) and the tree in newick format (SSU_rRNA.tre).<b>The Phylogenomics directory contains: </b>all the proteomes, single gene datasets, including all considered sequences (orthologs and paralogs), table with the information whether the gene was used in the final phylogenomic dataset or not as well as the information about taxon completeness (Taxon_Completness_Table.docx), and the table providing information about the source of the data, datatype and the taxonomical assignment of the data used for the phylogenomics (metadata.tsv).<b>The Phylogentics directory contains:</b> all the datasets used for the 4-gene phylogeny: single gene alignments (HSP90_concat.fasta, elonfation_factor_1_concat.fasta, alpha_tubulin_concat.fasta, SSU_rRNA_concat.fasta), final concatenated alignment (4-gene-phylogeny.aln) and final tree in newick format (4-gene-phylogeny.newick).<br>
DOI: 10.6084/m9.figshare.27798735.v1
title: Genome of Spathodea campanulata

description: A chromosome-level genome assembly of Spathodea campanulata
DOI: 10.60893/figshare.jcp.26808454.v1
title: Supplement

description: The supplementary material includes comparison of theoretical spectra computed by different hwhm values, vibronic assignments, tautomer-specific spectra of hypoxanthine at various temperatures, and Cartesian coordinates of optimized geometries of each molecule.
DOI: 10.6084/m9.figshare.22691353.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.27616145.v2
title: Local Signal Detection on Irregular Domains with Generalized Varying Coefficient Models

description: In spatial analysis, it is essential to understand and quantify spatial or temporal heterogeneity. This article focuses on the generalized spatially varying coefficient model (GSVCM), a powerful framework to accommodate spatial heterogeneity by allowing regression coefficients to vary in a given spatial domain. We propose a penalized bivariate spline method for detecting local signals in GSVCM. The key idea is to use bivariate splines defined on triangulation to approximate nonparametric varying coefficient functions and impose a local penalty on L2 norms of spline coefficients for each triangle to identify null regions of zero effects. Moreover, we develop model confidence regions as the inference tool to quantify the uncertainty of the estimated null regions. Our method partitions the region of interest using triangulation and efficiently approximates irregular domains. In addition, we propose an efficient algorithm to obtain the proposed estimator using the local quadratic approximation. We also establish the consistency of estimated nonparametric coefficient functions and the estimated null regions. The numerical performance of the proposed method is evaluated in both simulation cases and real data analysis. Supplementary materials for this article are available online, including a standardized description of the materials available for reproducing the work.
DOI: 10.6084/m9.figshare.3382393.v4
title: "I wasn't sure it was normal to watch it"

description: These papers make up the final report of a quantitative and qualitative piece of research for the NSPCC and Children's Commissioner for England, regarding young people's feelings about and experiences of online pornography. You can access either the full report or a version prepared for young people (age 13+). These versions were revised in May, 2017.
DOI: 10.17632/jgpcryspbr
title: Mechanism of arsenic-induced liver injury in rats revealed by metabolomics and ionomics based approach

description: Arsenic (As) is an environmental toxicant and human carcinogen, and long-term exposure to As can lead to varying degrees of liver injury. In order to futher explore the mechanism of As-induced liver injury in rats, a rat model of As poisoned was established in this study, and metabolomics and ionomics methods were applied to study the differences of liver metabolites and ion concentrations between As poisoned rats. By metabolomic analysis, a total of 164 differentially expressed metabolites (DEMs) were identified between the As poisoned group and the Contrl(Ctrl) group, in which metabolic pathways such as nicotinate and nicotinamide metabolism, steroid hormone biosynthesis, and taurine and hypotaurine metabolism were significantly enriched. Ionomics results showed that ten ions were elevated in the As poisoned group, including As, cadmium (Cd), mercury (Hg), and manganese (Mn), while lead (Pb) and thallium (Tl) were reduced (p &lt; 0.05). Spearman Correlation analysis of DEMs and differentially ions showed that As, Cd, Hg and Pb were negatively correlated with androstenedione, protoporphyrinogen and estriol, while As was positively correlated with progesterone, Cd and nicotinamide adenine dinucleotide (NAD+), Mn and 5-L-glutamyltaurine. This study revealed the changes in liver metabolites and ions level in As poisoned rats, as well as the relationship between them and the potential mechanisms of As induced liver injury, among them, the steroid hormone biosynthesis pathway plays an important role in arsenic hepatotoxicity.
DOI: 10.6084/m9.figshare.14113010.v2
title: Ocean mask and atmospheric tide derived from ERA5

description: Data set 1: This data set is a ocean mask file in terms of spherical harmonic coefficients up to degree/order (d/o) 360. Such a ocean mask is used for Inverted Barometer (IB) correction, as shown in the main text. This ocean mask can be transformed into any grid by a harmonic synthesis, which is set to 1 over the ocean and 0 over the continents. Usage of this ocean mask refers to the standard format of gravity fields coefficients. In detail, the leading two columns in the file denote the degree and order respectively. The third and fourth column denote the coefficient 'C' and 'S', respectively.<br>Data set 2: This data set is our tide constitute S1 (diurnal solar tide) derived from ERA5 over 2007-2014. This data set is provided as a ASCII file with a text header and a main body. The header records the basic information of authors and ends with "END OF HEADER". The main body comprises two sub-dataset, of which one is the 'cos' part and another one is the 'sin' part up to degree/order 180. As for the 'cos' part, the leading two columns in the file denote the degree and order respectively, and the third and fourth column denote the coefficient 'cnmCos' and 'snmCos', respectively. As for the 'sin' part, the third and fourth column denote the coefficient 'cnmSin' and 'snmSin', respectively. With all these coefficients ready, the tide S1 at a specific time can be easily reconstructed. <br>Data set 3: This data set is our tide constitute S2 (semi-diurnal solar tide) derived from ERA5 over 2007-2014. Usage of this data set (file) is the same as Data set 2.<br>The rest tide files are directly named after its tide consitute and their usage is the same as Data set 2 as well:ATM_K1.asc, ATM_L2.asc, ATM_M2.asc, ATM_N2.asc, ATM_P1.asc, ATM_R2.asc, ATM_R3.asc, ATM_S3.asc, ATM_T2.asc, ATM_T3.asc.
DOI: 10.6084/m9.figshare.3569082.v1
title: Appendix D. Fire reconstructions for the Williams Creek and Squaretop Mountain study areas.

description: Fire reconstructions for the Williams Creek and Squaretop Mountain study areas.
DOI: 10.6084/m9.figshare.5241469.v1
title: Erratum: Psychoanalytic Single Cases Published in ISI-Ranked Journals: The Construction of an Online Archive

description: Medicine
DOI: 10.6084/m9.figshare.20226276.v1
title: Normalized Remote Sensing Agricultural GPP Monsoon 2010

description: agricultural gross primary productivity
DOI: 10.6084/m9.figshare.26156605.v1
title: MATLAB<sup>®</sup> algorithms for the quantitative characterization of trapped DNAPL configurations

description: <b>Algorithm 1. </b>Converting raw image sequences of the invasion morphology from the onset of drainage to the stable trapped state.<b>Algorithm 2. </b>Acquisition of quantitative metrics for invasion morphology.<b>Algorithm 3. </b>Acquisition of quantitative metrics for distribution and morphological characteristics of trapped DNAPL (TCE).
DOI: 10.6084/m9.figshare.28668479.v1
title: Supplementary Material for: Severe Late-onset Neutropenia in a Pregnant Patient with Multiple Sclerosis After Ocrelizumab

description: Introduction: Ocrelizumab is a recombinant humanized anti-CD20 monoclonal antibody used to treat multiple sclerosis. Late-onset neutropenia, absolute neutrophil count &lt; 1.5x109/L that develops &gt; 4 weeks after last drug administration, is a known adverse event associated with anti-CD20 monoclonal antibodies, including rituximab and ocrelizumab. 
Case Presentation: We present the case of a 27-year-old woman who developed severe late-onset neutropenia during her third trimester of pregnancy after treatment with ocrelizumab 6 months prior. 
Conclusion: Neurologists should be aware of this risk and consider additional hematologic monitoring for pregnant patients who received anti-CD20 therapy as therapies such as G-CSF are available to help prevent serious infections.
DOI: 10.6084/m9.figshare.29178800.v1
title: Data from Duffy et al. (2025), "The Sound of Success in the Early Palaeolithic: Better Knapping is Brighter, Clearer and More Attention Grabbing"

description: The CSV file "<b>Acoustic_analysis_data.csv</b>" contains data collected for experiment 1 (an acoustic analysis of strikes by material quality and strike outcome, n=1472). This file contains the following 7 columns:'file': file name for each strike recording'Material': material type (flint, granite or gabbro)'Outcome': strike outcome (success or fail)'dom_mean': mean dominant frequency (Hz)'specCentroid_mean': mean spectral centroid (Hz)'entropy_mean': mean Wiener entropy (0-1)'loudness_mean': mean amplitude (dB)The CSV file "<b>Preference_test_data.csv</b>" contains data collected for experiment 2 (ratings of aesthetic appeal and perceived salience for strikes varying by material quality and outcome, n=10370). This file contains the following 5 columns:'Participant.Public.ID': unique identifier for each anonymous participant'Response': Likert scale response (5=strongly agree, 4=agree, 3=neither agree nor disagree, 2=disagree, 1=strongly disagree)'Question': indicates whether participants' Likert scale ratings correspond to the aesthetic appeal ('Like') or perceived salience ('Attention') question'Material': material type (Flint, Granite or Gabbro)'Success': strike outcome (Yes = success, No = fail)
DOI: 10.17632/55xmdcxynp
title: UUD 1945 Sebagai Landasan Konstitusional Terhadap Perlindungan Hak Warga Negara Indonesia

description: Negara dan konstitusi adalah dwitunggal. Jika diibaratkan bangunan, negara sebagai pilar-pilar atau tembok tidak bisa berdiri kokoh tanpa pondasi yang kuat, yaitu konstitusi Indonesia. Kedudukan konstitusi sangatlah penting bagi suatu negara, hal ini disebabkan konstitusi memiliki peran atau fungsi yang sangat penting yaitu untuk mengatur dan membatasi kekuasaan dalam suatu negara. Jenis penelitian ini merupakan penelitian kualitatif, yaitu studi kepustakaan/studi literatur dengan mereview berbagai jurnal dan buku yang berkaitan dengan UUD 1945 dan hak warga negara sebagai sumber referensi. Hasil penelitian menunjukan, bahwa UUD 1945 sebagai konstitusi nasional merupakan sumber hukum tertinggi yang menjadi patokan dan pedoman bagi peraturan hukum lainnya. Sebagai negara hukum, Indonesia berkewajiban menjamin dan melindungi hak-hak warga negaranya. Dalam UUD 1945 secara tegas memuat hak-hak dasar warga negara yang selanjutnya disebut hak konstitusional. Karena dicantumkan dalam konstitusi atau undang-undang   dasar   maka   ia   menjadi bagian dari konstitusi atau undang-undang dasar sehingga seluruh cabang kekuasaan Negara wajib menghormatinya. Hak-hak yang diatur dalam konstitusi   merupakan   batas   yang   tidak bisa  dilanggar  oleh  penyelenggara  negara dalam    menjalankan    kekuasaan    negara, baik  sebagai  hak  warga  negara  atau  hak asasi.
DOI: 10.6084/m9.figshare.7082633.v1
title: Supplementary Material for: Intussusceptive Pillar Formation in Developing Porcine Glomeruli

description: <b><i>Background/Aims:</i></b> Intussusceptive angiogenesis (IA) is a dynamic process which contributes to vascular expansion and remodeling. Intraluminal pillars have long been the distinctive structural indicator of IA. However, the mechanism of their formation has not been fully elucidated. <b><i>Methods:</i></b> Using light and electron microscopy, we studied intussusceptive vascular growth in the developing porcine metanephric kidney. <b><i>Results:</i></b> We observed intraluminal pillars formed by endothelial cells in the vasculature of developing glomeruli. Their diameter was &lt; 2.5 µm, consistent with the diameter of nascent pillars. TEM revealed that the majority of these pillars consisted only of endothelium. However, a central core of extracellular matrix (ECM) covered by endothelium, reminiscent of a more mature intussusceptive pillar, was also found in the lumen of a glomerular capillary. Perivascular cells or pericytes were not involved in the pillar structure during these stages of formation. <b><i>Conclusion:</i></b> This study shows ECM presence in a mature intussusceptive pillar without any perivascular cell involvement in the structure. This leads to the hypothesis that ECM deposition precedes the participation of these cells in the formation of intraluminal pillars during IA in porcine metanephric glomerular capillaries.
DOI: 10.17632/cwyvmmtxsg
title: balance shoes

description: Balance shoes raw data with unipodal/bipodal/open-eyes/closed-eyes data
DOI: 10.17632/jfy5f9f7x4
title: Negative impact of comorbidities on all-cause mortality of psoriasis patients is partially alleviated by biologic treatment: A real-world, case-control study.

description: Supplementary data for paper Negative impact of comorbidities on all-cause mortality of psoriasis patients is partially alleviated by biologic treatment: A real-world, case-control study.
DOI: 10.6084/m9.figshare.12093648.v2
title: KPOP DATA.xlsx

description: This excel sheet describes the data obtained through a survey conducted for a study on Social media and K-Pop.
DOI: 10.6084/m9.figshare.14497923.v1
title: Explanatory model of perceived stress in the general population: a cross-sectional study in Peru during the COVID-19 context

description: <b>Explanatory model of perceived stress in the general population: a cross-sectional study in Peru during the COVID-19 context</b><br><b>Background: </b>The COVID-19 pandemic had a negative impact on mental health worldwide. A high prevalence of stress had been previously reported in populations during this context. Many theoretical frameworks had been proposed for explaining the stress process, we aim to propose an explanatory model for the genesis of perceived stress in the Peruvian general population.<br><b>Method: </b>We conducted an online survey in Peruvian general population assessing sociodemographic variables and evaluating mental health conditions by using The Perceived Stress Scale (PSS-10), Positive Affect and Negative Affect Scale (PANAS), Generalized Anxiety Disorder scale (GAD-7), Patient Health Questionnaire (PHQ-9), and a numerical rating scale for fear of COVID-19. Correlation analysis was conducted for the variables of interest. Two regression models were constructed to explore related factors to the dimensions of perceived stress. Finally, a structural regression model was performed with the independent variables.<br><b>Results: </b>Data of 210 individuals was analyzed. Ages ranged from 15 to 74 years and 39% were women. Additionally, 65.2% of the participants had at least one mental health condition (depression, anxiety, or stress). Perceived self-efficacy and Positive Affect were correlated, as Perceived helplessness with Anxious symptoms and Negative affect. Regression analysis showed that sex, anxiety symptoms, and negative affect explained perceived helplessness while positive and negative affect explained self-efficacy. The structural regression model analysis identified that fear of COVID-19 (composed of fear of infecting others and fear of contagion), predicted mental health problems (i.e., anxiety and depression); and those were predicted by positive and negative affect. Perceived helplessness and Perceived self-efficacy were interrelated and represented the perceived stress variable.<br><b>Conclusions: </b>We proposed an explanatory model of perceived stress based on two correlated dimensions (self-efficacy and helplessness) in the Peruvian general population during the context of the COVID-19 pandemic, with two out of three individuals surveyed have at least one mental health condition.<b><br></b><b>https://doi.org/10.3389/fpsyg.2021.673945</b>
DOI: 10.6084/m9.figshare.26039878.v3
title: Chromosome-level baobab genome illuminates its evolutionary trajectory and environmental adaptation

description: Our study delves into the evolutionary history of the baobab tree, one of Earth's oldest non-clonal plants. Motivated by FDA recognition of baobab for food use and reports of historic tree deaths, we sought to provide genome-based insights. We began with skim sequencing and genome size estimation for all eight baobab species. Using Illumina and Oxford Nanopore Technologies, we created two chromosome-scale haploid Adansonia digitata assemblies and several long-read contig assemblies for baobabs from Namibia, Sudan, and Madagascar. Additionally, we collected leaf samples from 25 Adansonia digitata specimens across Africa for population genetics analyses. Despite challenges in seed germination and DNA extraction, we refined our methods to obtain high-quality DNA and RNA.Our research unveiled that Adansonia digitata is autotetraploid, unlike the other seven diploid species, and highlighted a proliferation of DNA transposable elements over long terminal repeat retrotransposons. We identified a whole-genome duplication event about 30 million years ago, leading to up to 16 copies of genes related to flower development, chromatin/transcription, and exocytosis. We hypothesize that genes associated with UV-B light perception and chromatin regulation contribute to the baobab's longevity. Additionally, our study revealed distinct baobab populations in Namibia linked to specific watersheds, suggesting geographical barriers to gene flow. These findings enhance our understanding of baobab diversity and inform breeding strategies.By sequencing and providing quality genomic data, we aim to advance conservation efforts and understanding of the baobab's evolutionary trajectory amidst climate change. Our chromosome-resolved genome assembly for Adansonia digitata represents a significant improvement over previous fragmented assemblies.
DOI: 10.6084/m9.figshare.27926433.v1
title: Data to fit EMSRR

description: Dataset to fit Environmentall- Mediated stock recruitment relationships for European hake in Adriatic Sea, European hake in Western Ionian Sea, red mullet in Adriatic Sea,red mullet in Western Ionian Sea, deep-water rose shrimp in Adriatic and Ioan Seas, giant red shimp in Sounthern Adriatic and Ionian Seas and blue ad red shrimp in Sounthern Adriatic and Ionian Seas. The data were used in SEAwise project framework (see seawiseproject.org).
DOI: 10.6084/m9.figshare.3527933.v1
title: Appendix B. A table showing the values of the parameters used for describing environmental conditions of the study sites.

description: A table showing the values of the parameters used for describing environmental conditions of the study sites.
DOI: 10.6084/m9.figshare.5126566.v1
title: Supplementary Material for: Cost Savings Using a Protocol Approach to Manage Anemia in a Hemodialysis Unit

description: <b><i>Background:</i></b> National guidelines recommend using anemia management protocols to guide treatment. The objective of this study was to determine if an anemia management protocol would improve hemoglobin (Hgb) indices in hemodialysis patients and to measure whether the protocol would reduce the use and cost of darbepoetin alfa (DBO) and intravenous (IV) iron in hemodialysis patients. <b><i>Methods:</i></b> An anemia management protocol was created and implemented for hemodialysis patients at our institution. A retrospective observational review of the use of DBO and IV iron as well as changes in Hgb, transferrin saturation and ferritin in 174 patients was conducted 6 months before and after implementation of the anemia protocol. <b><i>Results:</i></b> The number of Hgb measurements in the target range increased from 44.3 to 46.0% (p = 0.48) after protocol implementation. The mean weekly dose of DBO was reduced from 34.56 ± 31.12 to 31.11 ± 28.64 μg post-protocol implementation (p = 0.011), which translated to a cost savings of USD 41,649 over 6 months. The mean monthly IV iron dose also decreased from 139.56 ± 98.83 to 97.65 ± 79.05 mg (p &lt; 0.005), a cost savings of USD 18,594 over the same time period. <b><i>Conclusion:</i></b> The use of an anemia management protocol resulted in the deprescribing of DBO and iron agents while increasing the number of patients in the target Hgb range, which led to significant cost savings in the treatment of anemia.
DOI: 10.17632/h3pxvcwzgw
title: Inflation Targeting as a Shock Absorber