cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28714229.v1
title: Supplementary Material for: Causal relationship between Helicobacter pylori infection and autoimmune diseases of the digestive system: evidence from a Mendelian randomization study

description: Background: The association between Helicobacter pylori (H. pylori) infection and digestive autoimmune diseases remains unclear, with inconsistent findings in previous observational studies. We conducted Mendelian randomization (MR) analysis to systematically explore the causal relationship and delve into the pathogenesis based on gut microbiota.
Methods: This study encompassed anti- H. pylori IgG levels and genome-wide association studies (GWAS) for multiple digestive autoimmune diseases, utilizing diverse MR methodologies to assess the causal relationship between H. pylori antibody levels and these diseases. Associations between H. pylori and ulcerative colitis (UC) were examined using genetic variants from MiBioGen associated with 194 gut microbiota traits. Additionally, a series of sensitivity analyses were performed to validate the results of the initial MR analyses.
Results: Our study showed a significant association between anti- H. pylori IgG levels and the incidence risk of UC (β=-0.001, P=0.011). No causal associations were observed with the incidence risk of primary biliary cirrhosis (PBC), primary sclerosing cholangitis (PSC), celiac disease, and Crohn's disease (CD). Multiple gut microbiota were found to be correlated with H. pylori infection and UC. Particularly noteworthy is the negative correlation between the abundance of the genus.Anaerofilum and H. pylori antibody levels (β=-0.174, P=0.048). Notably, genus.Anaerofilum exhibited a positive genetic correlation with an increased risk of UC (β=0.0014, P=0.0029).
Conclusion: MR analysis confirmed a causal association between anti- H. pylori IgG and UC, but not with CD. The genus.Anaerofilum may increase the risk of UC by inhibiting H. pylori infection.
DOI: 10.6084/m9.figshare.7967177.v1
title: Supplement to: Model-averaged regression coefficients have a straightforward interpretation using causal conditioning

description: Script to show two of the infinite number of generating models that have the same conditional probability distribution P(Y | X)
DOI: 10.6084/m9.figshare.27896343.v1
title: <b>High-resolution environmental magnetic study of a paleosol from the upper Permian in Southwest China</b><b>: insights into paleoclimatic conditions</b>

description: Rock magnetic parameters of the paleosol from the TK-1 drill core in Yunnan Province, Southwest China.
DOI: 10.6084/m9.figshare.28722143.v1
title: Table_S11.enr_immune_late.csv

description: <b>Table S11. </b>Gene Set Enrichment Analysis (GSEA) in brain tumor-associated immune cells at 28d, as shown in Figure 5I.
DOI: 10.17632/b9wzmmt32b
title: Data for: Automatic Multifaceted Matlab Package for Analysis of Ocular Images (AMPAO)

description: AMPAO Data
DOI: 10.6084/m9.figshare.25114601.v1
title: Pain and morphine equivalent daily dose (MEDD) data.

description: Pain is a challenging multifaceted symptom reported by most cancer patients, resulting in a substantial burden on both patients and healthcare systems. This systematic review aims to explore applications of artificial intelligence/machine learning (AI/ML) in predicting pain-related outcomes and supporting decision-making processes in pain management in cancer.The data shared are the clinical, tumor, therapeutic variables of 900 patients with oral cavity, oropharyngeal or unknown neck cancers, and pain severity and opioid doses at the end of RT.
DOI: 10.6084/m9.figshare.16708696.v1
title: CrAss-like phages data

description: Dataset accompanying the paper "Discovery, diversity and functional associations of crAss-like phages in human gut metagenomes from four Dutch cohorts" by Gulyaeva et al.
DOI: 10.6084/m9.figshare.27222816.v1
title: The stable isotopes values for dehydration/rehydration experiments

description: This dataset is a rehydration/dehydration experiment to analyze the effect of cryogenic vacuum distillation (CVD) on water isotopes. Please notice that there were two sample for one plant was because of one of the sample failed during the experiments. There were also four sample for one plant which was because of one sample was increased as there is still a space (slot) left for that round in CVD experiments. This is the final version for this experiments. I also redid some samples for solid proof.
DOI: 10.6084/m9.figshare.3516794.v1
title: Appendix E. Factor loadings derived from principal component analysis (PCA) to characterize ecosystem service beneficiaries (ESBs).

description: Factor loadings derived from principal component analysis (PCA) to characterize ecosystem service beneficiaries (ESBs).
DOI: 10.6084/m9.figshare.3568572.v1
title: Appendix E. Description of procedures used to quantify spatiotemporal variation in forage quality at both study sites.

description: Description of procedures used to quantify spatiotemporal variation in forage quality at both study sites.
DOI: 10.17632/dg6vgybhrg
title: Phylogenetic analysis of Tethysuchians

description: Character list and matrices used to evaluate Tethysuchian phylogenetic relationships
DOI: 10.6084/m9.figshare.27625104.v1
title: <b>Raw Data - </b><b>Adaptation of a Load Cell for the Precise Assessment of Diverse Karate Punch Techniques</b>

description: <b>Raw Data - Adaptation of a Load Cell for the Precise Assessment of Diverse Karate Punch Techniques</b>
DOI: 10.6084/m9.figshare.8234144.v1
title: Mouse TibiaMicroCT data

description: The longitudinal microCT data of mouse tibia from Wild and WildPTH groups.
DOI: 10.6084/m9.figshare.28428884.v1
title: Supplementary Material for: Sex Differences in Clinical Presentation of Women and Men Evaluated at a Comprehensive Stroke Center for Suspected Stroke

description: Introduction: Understanding sex differences in the clinical presentation of patients with suspected stroke is important to reduce sex-related disparities and improve care. We aimed to characterize presenting symptoms in women and men with suspected stroke evaluated at our comprehensive stroke center. Methods: This was a retrospective analysis of consecutive patients with suspected stroke treated at the University Hospital Essen between January 2017 and December 2021. Patient characteristics, signs and symptoms as well as final diagnoses in women and men were compared. Logistic regression analysis was performed to assess the association of individual symptoms with a diagnosis of cerebrovascular disease. Results: We included 6069 patients in our analysis. Cerebrovascular disease was diagnosed in 85.2% (2576/3022) of women and 88.0% (2681/3047) of men (p = 0.002). Aphasia (31.4% vs. 27.7%, p = 0.002), neglect (15.5% vs. 12.8%, p = 0.003), gaze deviation (21.0% vs. 18.8%, p = 0.034), as well as nonfocal symptoms including impairments in consciousness (17.0% vs 14.6%, p = 0.012), orientation (42.5 vs. 36.4%, p &lt; 0.001) and completion of tasks (31.2% vs. 26.0%, p &lt; 0.001) were more common among women. Limb ataxia (8.1% vs. 11.2%, p &lt; 0.001) and dysarthria (44.0% vs. 46.8%, p = 0.030) were less frequent in women. Neglect and gaze deviation were independent positive predictors of cerebrovascular disease in women but not in men. Conclusion: Although clinical presentation was similar in both sexes, cortical and nonfocal symptoms were more common among women with suspected stroke. Awareness of sex differences and acknowledgement of the full clinical picture are important to ensure optimal management for women and men with suspected stroke. Our findings might serve as a target for educational programs in order to improve preclinical stroke detection in patients with predominantly nonfocal or subtle symptoms.
DOI: 10.6084/m9.figshare.5991223.v1
title: Theoretical ribosomal protein mass fingerprint of Phaeodactylum tricornutum

description: This is a dataset containing the theoretical molecular mass of various ribosomal proteins in the large and small ribosome subunit of <i>Phaeodactylum tricornutum</i>.<br><br>
DOI: 10.15468/dl.d3uexc
title: Occurrence Download

description: A dataset containing 1512208412 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is EOD – eBird Observation Dataset"
 ]
}

 The dataset includes 1512208412 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009313-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28846514.v1
title: Observation notes

description: These are observation notes I made of the university that I was researching at. The observations were made from the two main campuses on the university in Harare and Marondera
DOI: 10.6084/m9.figshare.28287308.v1
title: Genome annotation files of <i>Xenocypris davidi.</i>

description: In this study, by leveraging the PacBio sequencing technology and Hi-C technology, and integrating the data from second-generation transcriptome sequencing, we successfully obtained the chromosome-level genomic data of <i>Xenocypris davidi</i>.
DOI: 10.6084/m9.figshare.23900004.v1
title: Support set data lists

description: This provides the sample support set data lists used for the experiments in the paper.
DOI: 10.6084/m9.figshare.8135045.v2
title: Supplementary Data 4: RAxML_Proteobacteria_rpS3.newick.tree

description: Tree of RNA assembled Proteobacterial rpS3 genes from soil.
DOI: 10.6084/m9.figshare.28075157.v1
title: FLIMJ_tiff

description: Data output by FLIMJ
DOI: 10.6084/m9.figshare.23530713.v1
title: Marcin Kawalerowicz PhD Thesis Data & Scripts

description: This file contains the following: experimental data gathered during the experiments described in PhD dissertation "Using Agile Experimentation in an Industrial Software Development Environment to study Continuous Test-Driven Development <em>and Continuous Build Outcome Prediction</em>", scripts used to analyze the data.
DOI: 10.6084/m9.figshare.27223008.v1
title: Supplementary Material for: Associations between cooking methods and socio-demographic, dietary and anthropometric factors: results from the Swiss National Nutrition Survey

description: Introduction: Appropriate cooking methods can improve food safety, decrease contaminants and increase nutrient bioavailability. Few studies assessed the sociodemographic characterization of their use in European populations. We aimed to characterize the socio-demographic, lifestyle, and anthropometric predictors of cooking methods in the Swiss population.

Methods: adults aged 18-75 years (n=2,050) participating in the cross-sectional national nutrition survey in Switzerland (menuCH) (2014–2015), representing the 7 main regions in the country. We used logistic regressions to assess the probability of presence or absence of boiled, roasted, microwaved, oven-cooked, gratinated, fried, steamed, and grilled foods by sociodemographic variables. 

Results: Among all participants, the most frequently used cooking methods were boiling (46%), stove-cooking (19%), and steaming (8%). Single participants had a higher probability of consuming grilled or fried foods (68%) than their married counterparts and participants with obesity had a higher probability of consuming grilled or fried foods (67% or 135%) compared to those with normal weight. Divorced or separated participants had a 55% lower probability of consuming roasted foods than married participants. Those following a diet had a 57% lower probability of consuming grilled foods compared to those not on a diet. 

Conclusion: We found differences in the distribution cooking methods of the Swiss population by sociodemographic variables. Further studies should examine the link between cooking methods and disease risk.
DOI: 10.6084/m9.figshare.28188917.v1
title: Database of Electromyography and Digit Force during Precision Grasping of Objects at Different Weights

description: In this study, the Electromyography signals and the variation of the force are recorded for an object pick and place task. The data acquisition is performed for 3 different prismatic precision grasping gestures, where the weight of the object varied from 200 grams to 700 grams. The data acquisition process and preliminary analysis steps are mentioned in this study. This dataset is collected from 15 healthy participants, with around 50 trials for each participant. This dataset can be used for the development and validation of machine learning algorithms to apply in prosthetics and orthosis.
DOI: 10.6084/m9.figshare.25336294.v2
title: ePRS project: summary statistics and ancestry-specific allele frequency

description: Here we share the summary statistics and ancestry-specific allele frequencies for computing PRSs and expected PRSs (ePRSs) provided in the manuscript "The expected polygenic risk score (ePRS) framework: an equitable metric for quantifying polygenetic risk via modeling of ancestral makeup" (check out our preprint on medRxiv: https://medrxiv.org/cgi/content/short/2024.03.05.24303738v1)."All_sumstat.xlsx" contains all the summary statistics we used for the primary PRS-outcome association analyses."LDPred2_sumstat.xlsx" contains all the summary statistics we computed via LDPred2 method."TOPMed_ancestry_specific_AF_by_GAFA.xlsx" contains the ancestry-specific allele frequencies computed using data from individuals in TOPMed. The ancestry-specific allele frequency was computed based on the "ALT" allele using GAFA algorithm (more details of GAFA method can be found at: https://doi.org/10.1016/j.xhgg.2022.100096).The “Sumstat_and_ancestry_AF_AoU_analysis.zip” compressed file contains the summary statistics (download for PGS catalog) and ancestry-specific allele frequency (download for gnomAD) for computing 6 CVD-related PRSs and ePRSs in AoU analysis.<br>
DOI: 10.21233/rpv3-h641
title: Yongdam-Gul Cave ostracode surface sample dataset

description: Raw data for the Yongdam-Gul Cave ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.6084/m9.figshare.10062095.v2
title: S.O. Glucose Data.xlsx

description: Data associated with the analysis of a PMP-glucose derivative created from glucose in <i>S. oneidensis</i> cultures
DOI: 10.6084/m9.figshare.13083560.v1
title: Supplementary Material for: Serum Exosomal Dicer Is a Useful Biomarker for Early Detection of Differentiated Gastric Adenocarcinoma

description: <b><i>Background and Aim:</i></b> A recent basic study identified that Dicer is contained in exosomes derived from cancer cells and plays crucial roles in microRNA maturation and cancer development. Based on this novel basic concept, we analyzed the usefulness of serum exosomal Dicer as a diagnostic biomarker for gastrointestinal cancers. <b><i>Methods:</i></b> Enrolled participants (691) were categorized into 3 groups: gastric cancer (GC) cohort, 183 patients (90 healthy controls (HCs) and 93 GC patients); esophageal cancer (EC) cohort, 115 patients (90 HCs and 25 EC patients); and colorectal cancer (CRC) cohort, 188 patients (92 HCs and 96 CRC patients) after age- and sex matching using the propensity score. The quality of isolated serum exosomes was validated with an electron microscope, particle size analyzer, and exosome marker, CD63. <b><i>Results:</i></b> Serum exosomal Dicer was significantly higher in the GC group than in the HC group (<i>p</i> = 0.004), whereas no significant differences were found in both EC and CRC cohorts. Serum exosomal Dicer was significantly higher in only differentiated gastric adenocarcinoma and not in the undifferentiated type. Moreover, serum exosomal Dicer showed no significant differences regardless of <i>Helicobacter pylori</i> (<i>H. pylori</i>) status. The biomarker panel combining serum exosomal Dicer with <i>H. pylori</i> status distinguished between HC and differentiated GC patients with an area under the curve (AUC) of 0.762. As for early-stage diagnosis, this combination distinguished between HC and stage I differentiated GC with an AUC = 0.758. <b><i>Conclusions:</i></b> Serum exosomal Dicer is a potential noninvasive diagnostic biomarker for early detection of differentiated gastric adenocarcinoma.
DOI: 10.17632/zkjm36wp8s
title: An Inter-Organ Neural Circuit for Appetite Suppression

description: Glucagon-like peptide-1 (GLP-1) is a signal peptide released from enteroendocrine cells of the lower intestine. GLP-1 exerts anorectic and antimotility actions that protect the body against nutrient malabsorption. However, little is known about how intestinal GLP-1 affects distant organs despite rapid enzymatic inactivation. We show that intestinal GLP-1 inhibits gastric emptying and eating via intestinofugal neurons, a subclass of myenteric neurons that project to abdominal sympathetic ganglia. Remarkably, cell-specific ablation of intestinofugal neurons eliminated intestinal GLP-1 effects, and their chemical activation functioned as a GLP-1 mimetic. GLP-1 sensing by intestinofugal neurons then engaged a sympatho-gastro-spinal-reticular-hypothalamic pathway that links abnormal stomach distension to craniofacial programs for food rejection. Within this pathway, cell-specific activation of sparse neuronal populations caused systemic GLP-1-like effects. These molecularly identified, delimited enteric circuits may be targeted to ameliorate the abdominal bloating and loss of appetite typical of gastric motility disorders.
DOI: 10.6084/m9.figshare.13536224.v1
title: Material outflows

description: Material outflows in China and its 31 provinces
DOI: 10.6084/m9.figshare.14068229.v1
title: Pasoh pig nests locations.csv

description: Pig nesting data from Luskin MS, Johnson, JJ, Ickes L, Yao TL & Davies SJ (2021). Wildlife disturbances as a source of conspecific. Proceedings of the Royal Society – Biology
DOI: 10.6084/m9.figshare.25463965.v1
title: Label-free detection and profiling of individual solution-phase molecules- sample raw data

description: These .csv files represent a sample of the raw data corresponding to the single-molecule signals of the four proteins illustrated in Figure 2 in the manuscript entitled 'Label-free detection and profiling of individual solution-phase molecules' and other figures shown in the Extended Data and Supplementary Information sections. The data is numerical and contains 3 columns; time (s), transmission signal (V) and reflection signal (V).
DOI: 10.6084/m9.figshare.28844291.v1
title: Database of the impact of temperature on development of Aedes aegypti and Aedes albopictus in Cambodia

description: <b>Background</b>: <i>Aedes aegypti</i> and <i>Ae. albopictus</i> are primary vectors of dengue virus in Cambodia, distributed throughout the country. Climate change is predicted to affect the diversity and density of these two species, but there is a lack of information on how temperature affects their biology. This study investigates the impact of temperature on the survival, development, and longevity of <i>Ae. aegypti</i> and <i>Ae. albopictus, </i>from populations collected in Phnom Penh.<b>Methods</b>: <i>Aedes aegypti</i> and <i>Ae. albopictus</i> population were collected in Phnom Penh. The experiment was conducted in a climatic chamber with temperatures ranging from 15°C to 40°C, with a 5°C incrementation between each treatment. Bionomic parameters were measured from hatching rate of F2 eggs until number of F3 eggs, in triplicate for each temperature treatment.<b>Results</b>: Temperature significantly influenced all life-history traits of <i>Ae. aegypti</i> and <i>Ae. albopictus</i>. Egg hatching peaked at 20°C, while larval and pupal survival declined sharply at 35–40°C. Larvae of both species could not survive beyond the first stage at 40°C. In contrast, egg hatching rates were the highest at 25°C for <i>Ae. aegypti</i> (97.97%) and 20°C for <i>Ae. albopictus</i> (90.63%). During immature stages, development time decreased at higher temperature (35°C), but mortality was increased. Female longevity peaked at 25°C for <i>Ae. aegypti</i> (66.7 days) and at 20°C for <i>Ae. albopictus</i> (22.6 days), with males having significantly shorter lifespans. In addition, the optimal temperature of female survival is predicted higher in <i>Ae. aegypti</i> than in <i>Ae. albopictus</i>, 27.1°C and 24.5°C, respectively. Wing length increased at lower temperatures, with <i>Ae. aegypti</i> consistently larger than <i>Ae. albopictus</i> at 15°C and 35°C. Blood-feeding rates were highest at 30°C for <i>Ae. aegypti</i> (61.0%) and at 25°C for <i>Ae. albopictus</i> (52.5%).<b>Conclusion</b>: <i>Aedes albopictus</i> appears better adapted to lower temperatures compared to <i>Ae. aegypti</i>. Warmer temperatures accelerate mosquito development but also increased mortality and reduced adult longevity, which could influence their ability to transmit pathogens. These findings highlight the critical role of temperature in mosquito biology and emphasize the potential impact of climate change on dengue transmission dynamics in the future.
DOI: 10.6084/m9.figshare.8309708.v1
title: REAP-seq protein and mRNA counts

description: Protein count data were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2685243, file GSM2685243_protein_2_PBMCs_matrix.txt.gz, and processed into csv format.<br>Aligned bam file was acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2685238, file mRNA_2_PBMCs_possorted_genome_bam.bam.<br><code>velocyto</code> processing:<code>velocyto run (bam directory)/mRNA_2_PBMCs_possorted_genome_bam.bam(transcriptome directory)/genes/genes.gtf</code>
DOI: 10.17632/f3t6vmjj8x
title: Data for: Designed polycrystalline ultra-high ductile boron doped Cu-Al-Ni based shape memory alloy

description: Raw data contains tensile test data and X-ray data of all the three alloys reported in this paper. This data does not include DSC analysis data as we prefer to retain it as it include much more information that would be used for other communication work.
DOI: 10.6084/m9.figshare.16940317.v1
title: Prediction of allosteric sites and signalling: insights from benchmarking datasets (results data)

description: On the top level the Bond_to_bond_propensity_results.zip file contains two folders which are described in detail below:<br>ASBench:1. Results of bond-to-bond propensity analysis on the protein structures (with allosteric ligands) from the ASBench database.2. Results of bond-to-bond propensity analysis on the protein structures (without allosteric ligands) from the ASBench database.<br>CASBench:1. Results of bond-to-bond propensity analysis on the protein structures (orthosteric ligands as the source) from the CASBench database.2. Results of bond-to-bond propensity analysis on the protein structures (orthosteric residues as the source) from the CASBench database.