cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24297877.v1
title: Supplementary Material for: The causal effect of obesity on the risk of 15 autoimmune diseases: a Mendelian randomization study

description: Introduction: Observational studies have shown that obesity is a risk factor for various autoimmune diseases. However, the causal relationship between obesity and autoimmune diseases is unclear. Mendelian randomization (MR) was used to investigate the causal effects of obesity on 15 autoimmune diseases. Methods: MR analysis employed instrumental variables, specifically single nucleotide polymorphisms associated with obesity measures such as body mass index (BMI), waist circumference, hip circumference, and waist-to-hip ratio. The study utilized UK Biobank and FinnGen data to estimate the causal relationship between obesity and autoimmune diseases. Results: Genetically predicted BMI was associated with risk for five autoimmune diseases. The odds ratio per 1-SD increase in genetically predicted BMI, the OR was 1.28 (95% CI, 1.18–1.09; P&lt;0.001) for asthma, 1.37 (95% CI, 1.24–1.51; P&lt;0.001) for hypothyroidism, 1.52 (95% CI, 1.27–1.83; P&lt;0.001) for psoriasis, 1.22 (95% CI, 1.06–1.40; P=0.005) for rheumatoid arthritis, and 1.55 (95% CI, 1.32–1.83; P&lt;0.001) for type 1 diabetes. However, after adjusting for genetic susceptibility to drinking and smoking, the correlation between BMI and rheumatoid arthritis was not statistically significant. Genetically predicted waist circumference, hip circumference, and waist and hip circumference were associated with 6, 6, and 1 autoimmune disease, respectively. Conclusion: This study suggests that obesity may be associated with an increased risk of several autoimmune diseases, such as asthma, hypothyroidism, psoriasis, rheumatoid arthritis, and type 1 diabetes.
DOI: 10.6084/m9.figshare.27273801.v1
title: Asc_genome: softmasked genome assembly.Transcriptome assembly of Aster scaber.

description: The genome and transcriptome assemblies of <i>Aster scaber</i>
DOI: 10.6084/m9.figshare.5124871.v1
title: Supplementary Material for: Do Psychosis Patients with Poor Insight Show Implicit Awareness on the Emotional Stroop Task?

description: <b><i>Background:</i></b> The insight into psychosis can be assessed reliably by clinicians from interviews with patients. However, patients may retain implicit awareness of illness while lacking explicit awareness. <b><i>Sampling and Methods:</i></b> In a sample of first-episode psychosis patients, we used a test of processing of mental illness-related and other negative words as a measure of implicit awareness to see how this varied in relation to insight. An emotional-counting Stroop task tested reaction times to words of three types: psychosis-related (e.g. ‘crazy'), general negative (e.g. ‘cancer') and neutral (e.g. ‘oyster'). Data were available from 43 patients and 23 healthy controls. Patients' insight was assessed using the Schedule for the Assessment of Insight (SAI-E). <b><i>Results:</i></b> Patients reacted slower than controls to words across all conditions, and both patients and controls reacted slower to salient and negative words than neutral words. There was a near significant interaction between word type and group (Wilks' lambda = 0.53, p = 0.055); patients experienced greater interference from negative rather than psychosis-related words (p = 0.003), and controls experienced greater interference from salient rather than negative words (p = 0.01). Within the patient group, there was a correlation between insight and interference on salient words (r = 0.33, p = 0.05), such that those with less insight experienced less interference on psychosis-related words. <b><i>Conclusions:</i></b> Psychosis-related words were less threatening and less self-relevant to psychosis patients with less insight. This suggests that the lack of awareness such patients have of their illness is genuine and more likely to be mediated by lower-level information processing mechanisms than strategies such as conscious, motivated denial.
DOI: 10.6084/m9.figshare.5531692.v1
title: Fungal genome assemblies and gene sets from metagenomic lichen thalli

description: Fungal genome assemblies and gene sets from metagenomic lichen thalli of two species assembled with SPAdes. Taxonomic assignment of metagenomic reads to Ascomycota was performed with MEGAN and MetaWatt.<br>
DOI: 10.17632/6c25gnptbh
title: A Study of "Acetylation of spliceosome protein PHF5A modulates stress responses and colorectal carcinogenesis through alternative splicing mediated upregulation of KDM3A", Wang et al

description: The process utilized by cancer cells for adapting to cellular stress is a key point for carcinogenesis. Alternative pre-mRNA splicing induced post-transcriptional gene expression regulation is one of the pathways for tumors maintaining proliferation rates accompanying the malignant phenotype under stress. However, the protein post-translational modification, especially protein acetylation on pre-mRNA splicing processes under stress is unknown. Here, we uncovered a list of hyperacetylated proteins in the context of acutely reduced Acetyl-CoA levels under nutrient starvation. PHD finger-like domain-containing protein 5A (PHF5A/SF3b14b), a component of U2 snRNPs, can be acetylated at lysine 29 in response to multiple cellular stresses which is dependent on p300. PHF5A acetylation strengthens the interaction among U2 snRNPs and affects global pre-mRNA splicing pattern and extensive gene expression. PHF5A hyperacetylation induced alternative splicing stabilizes KDM3A mRNA and promotes its protein expression. Pathologically, PHF5A K29 hyperacetylation and KDM3A upregulation axis are correlated with poor prognosis of colon cancer patients. Our findings uncovered a novel mechanism of anti-stress pathway that acetylation on PHF5A promotes the cancer cells capacity for stress resistance and consequently contributes to colon carcinogenesis. Raw data for "Acetylation of spliceosome protein PHF5A modulates stress responses and colorectal carcinogenesis through alternative splicing mediated upregulation of KDM3A"
DOI: 10.17632/njn6x2kjhg
title: Association of methanogens and different human host phenotypes_Table

description: Table 1. Association of methanogens and different human host phenotypes (published before 2019)
DOI: 10.6084/m9.figshare.13626545.v1
title: hca_heart_LV_stereoscope_subset_raw_ctl201217.h5ad

description: subsampled dataset from the heart segment of the human cell atlas data. Preprocesses by cartal.
DOI: 10.17632/n9y2vtpxkt
title: Ferroptosis surveillance independent of GPX4 and differentially regulated by sex hormones

description: Lipidomics raw data, western blot raw data, and drug combination treatment raw data have been deposited at Mendely Data.
DOI: 10.6084/m9.figshare.8081072.v1
title: Results of first microarray trial

description: Table of results of first microarray trial. LIMMA analysis was used to compare 3 rat striatum samples (total RNA), which were prenatally METH exposed and 3 rat striatum SAL samples (total RNA), which were prenatally SAL exposed. There, in first list, is a list of significantly up-regulated and down-regulated genes <i>(p &lt;</i> 0.05 and logFC &gt; 1) . There, in second list, is a list of up-regulated nad down-regulated genes.
DOI: 10.6084/m9.figshare.20291553.v4
title: Burn Wound Healing analysis results for Brachystegia boehmii, Ximenia caffra and their silver nanoparticle derivatives

description: The Rat Burn wound dimension data file shows the wound contraction dimensions (raw data) recorded in millimeters from day zero to day twenty-one of treatment. Wound changes and contraction area observations were noted every third day following the commencement of the cream application. The Rat contraction percentage ANOVA data file shows the repeated measures ANOVA calculations carried out at p=0.05 significance level The percentage wound contraction area was calculated using the formula: Wound contraction (%) = [(initial wound size –final wound size on specific day)/initial wound size] × 100 <br> The FTIR, XRD, and UV vis Spectrophotometer result files show the characterization data for the silver nanoparticles fabricated in the study.
DOI: 10.17632/pmnsn49fys
title: HypExp 2, expanding hypergeometric functions about half-integer parameters

description: Abstract HypExp is a Mathematica package for expanding hypergeometric functions about integer and half-integer parameters. Title of program: HypExp 2 Catalogue Id: ADXF_v2_1 Nature of problem Expansion of hypergeometric functions about parameters that are integer and/or half-integer valued. Versions of this program held in the CPC repository in Mendeley Data ADXF_v1_0; HypExp; 10.1016/j.cpc.2006.01.007 ADXF_v2_0; HypExp 2; 10.1016/j.cpc.2007.12.008 ADXF_v2_1; HypExp 2; 10.1016/j.cpc.2011.11.016 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2019)
DOI: 10.6084/m9.figshare.20038628.v1
title: UCE datasets for "Old specimens for old branches: Assessing effects of sample age in resolving a rapid Neotropical radiation of squirrels"

description: <strong>Datasets description:</strong> <strong>Dataset 1</strong>. Alignment of 3,841 UCE loci (1,688,462 base-pairs), generated considering 40% of sample representativeness per locus and without filtering for information content. <strong>Dataset 2</strong>. Alignment of 3,545 UCE loci (1,572,845 base-pairs), generated considering 50% of sample representativeness per locus and without filtering for information content. <strong>Dataset 3</strong>. Alignment of 2,069 UCE loci (937,316 base-pairs), generated considering 60% of sample representativeness per locus and without filtering for information content. <strong>Dataset 4</strong>. Alignment of 2,112 UCE loci (927,942 base-pairs), generated considering 40% of sample representativeness and a minimum of 5% of informative sites per locus. <strong>Dataset 5</strong>. Alignment of 1,742 UCE loci (763,974 base-pairs), generated considering 50% of sample representativeness and a minimum of 5% of informative sites per locus. <strong>Dataset 6</strong>. Alignment of 977 UCE loci (438,765 base-pairs), generated considering 60% of sample representativeness and a minimum of 5% of informative sites per locus.
DOI: 10.6084/m9.figshare.879918.v4
title: precip.mat, a Matlab data file with CRU global total monthly precipitation data

description: CRU05 0.5 Degree 1961-1990 Mean Monthly Climatology SEE: http://www.cru.uea.ac.uk/cru/data/hrg/cru05/cru05_intro.html New, M., Hulme, M. & Jones, P. (1999) Representing twentieth century space–time climate variability. Part I: development of a 1961–90 mean monthly terrestrial climatology. Journal of Climate, 12, 829–856.
DOI: 10.17632/2935f6kfhj
title: Supplementary Material "Metataxonomic analysis of bulk tank milk and seasonal impact on starter culture development in aged goat milk cheese"

description: Supplementary material linked to the manuscript "Metataxonomic analysis of bulk tank milk and seasonal impact on starter culture development in aged goat milk cheese"
DOI: 10.6084/m9.figshare.21915042.v1
title: Supplementary Material for: Efficacy of Local Treatment in Lymph Node Metastasis from Hepatocellular Carcinoma

description: Introduction: We aimed to investigate the significance of lymph node metastasis from hepatocellular carcinoma and the efficacy of local treatment. Methods : We included patients diagnosed with hepatocellular carcinoma with lymph node metastasis. The pattern of lymph node metastasis was evaluated based on imaging examinations and stratified by three locations: regional (group A), beyond regional intra-abdomen (group B), and extra-abdomen (group C) lymph node metastasis. Results: Among 14474 patients, 852 (5.8%) were identified as having lymph node metastasis. Regarding the location of presentation, group A showed the highest incidence, followed by groups B and C. The 1-year overall survival of patients was 31.7%. The survival significantly differed according to the location of lymph node metastasis. The 1-year overall survival rates were 39.8%, 25.5%, and 22.2% in groups A, B, and C, respectively. All patients underwent systemic treatment, with others receiving additional local treatment. Local treatment yielded superior overall survival compared with no local treatment. After propensity score matching, local treatment was associated with improved survival. Additionally, patients were stratified based on disease status at the time of diagnosis of lymph node metastasis: lymph node alone and combined extra-nodal metastasis. The survival benefits of local treatment were observed in both groups. Conclusions: Our findings demonstrated the clinical significance of lymph node metastasis from hepatocellular carcinoma, which was well discriminated according to location, favoring regional metastasis. In patients with hepatocellular carcinoma presenting lymph node metastasis, active application of local treatment for lymph node metastasis can improve oncologic outcomes.
DOI: 10.6084/m9.figshare.25726653.v1
title: Survey Instruments

description: The survey instruments include a pre-survey (demographic) and a post-survey.
DOI: 10.17632/pj6p3hfy7v
title: Experimental setup data on poly-crystalline DCR solar panels_herl2024july

description: The dataset contains insolation data collected between February 1 and February 15, 2024, using four polycrystalline PV panels mounted vertically and oriented toward the cardinal directions, along with simulation data from PVWatts configured with the same specifications to match the experimental setup. This dataset was used for a presentation at the Health & Environmental Resilience and Livability in Cities (HERL) – 3rd Edition online conference, held in July 2024, in collaboration with the University of Perugia, Italy.
DOI: 10.6084/m9.figshare.11877783.v3
title: Traits_of_spiders.csv

description: Morphological and ecological traits of spider species in the semideciduous Atlantic Forest of Argentina.
DOI: 10.6084/m9.figshare.1319405.v1
title: Characterization of leachates of the special handling wastes with different storage ages

description: ABSTRACT: In present work, the aim was to evaluate the physical-chemical composition of a leachate from<br>two special handling wastes of different ages; two years and two days of storage in the city of Tepic, Nayarit,<br>Mexico. Some physical parameters (turbidity, density, particle size and suspended solids), chemical (pH, Z<br>potential, electrolytic conductance, chemical oxygen demand, total organic carbon, metals (Cd, Cu, Fe, Hg, Pb<br>y Ni), ammonia nitrogen, Kjeldahl nitrogen, inorganic nitrogen and total nitrogen) parameters were<br>determined. The results agreed other previous studies described within the bibliography and values were<br>observed within the ranks given by the authors.<br>Key words: Leachate, Z potential, urban solid waste, special handling waste.<br>*Corresponding author Tel +52 311 211 88 21 E-mail address: paz.rosales@gmail.com
DOI: 10.6084/m9.figshare.14813571.v1
title: 2020.05.20 Sanfu Buergeria otai.mp4

description: Territorial competition between two male <i>B. otai</i>. Flagging behavior in combining with call signals were used by the nocturnal Rhacophorid species.Normal advertisement call is different from the buzzing calls utilized during the competition.
DOI: 10.6084/m9.figshare.5128021.v1
title: Supplementary Material for: Characteristic <b><i>miR-24</i></b> Expression in Gastric Cancers among Atomic Bomb Survivors

description: <b><i>Objective:</i></b> To elucidate the mechanism of radiation-induced cancers, we analyzed the expression profiles of microRNAs extracted from formalin-fixed paraffin-embedded (FFPE) gastric cancer (GC) tissue samples from atomic bomb survivors. <b><i>Methods:</i></b> The expression levels of <i>miR-21</i>, <i>miR-24</i>, <i>miR-34a</i>, <i>miR-106a</i>, <i>miR-143</i>, and <i>miR-145</i> were measured by quantitative reverse transcription polymerase chain reaction (qRT-PCR). <b><i>Results:</i></b> The expression of microRNAs was measured by qRT-PCR in a Hiroshima University Hospital cohort comprising 32 patients in the high-dose-exposed group and 18 patients in the low-dose-exposed group who developed GC after the bombing. The GC cases showing high expression of <i>miR-24</i>, <i>miR-143</i>, and <i>miR-145</i> were more frequently found in the high-dose-exposed group than in the low-dose-exposed group. We next performed qRT-PCR of <i>miR-24</i>, <i>miR-143</i>, and <i>miR-145</i> in a cohort from the Hiroshima Red Cross Hospital and Atomic-Bomb Survivors Hospital comprising 122 patients in the high-dose-exposed group and 48 patients in the low-dose-exposed group who developed GC after the bombing. High expressions of <i>miR-24</i> and <i>miR-143</i> were more frequently found in the high-dose-exposed group than in the low-dose-exposed group. Multivariate analysis demonstrated that only high expression of <i>miR-24</i> was an independent predictor for the exposure status. <b><i>Conclusion:</i></b> These results suggest that the measurement of <i>miR-24</i> expression from FFPE samples is useful to identify radiation-associated GC.
DOI: 10.17632/8j268m8pr7
title: Arabic 911 dataset

description: Data can serve as an input for the machine learning process. It directly analyzes emergency calls in Arabic to direct the report to the concerned party.
DOI: 10.17632/p5jn9ns6yn
title: A comprehensive human gastric cancer organoid biobank captures tumor subtype heterogeneity and enables therapeutic screening. Yan HHN et al. Mendeley Dataset 3

description: Comparison of the chromosomal gains and losses in all samples between the tumor organoids and corresponding frozen tumor tissue
DOI: 10.6084/m9.figshare.12278291.v1
title: sphinx_032.tar.gz

description: 32/34 Sphinx CAPTCHA dataset.
DOI: 10.6084/m9.figshare.26760643.v1
title: Typhoon_Muifa_Data

description: The DWL observation data, weather station rain data and the CMA operational warning reports for <b>Typhoon Muifa (2022)</b>
DOI: 10.6084/m9.figshare.4788877.v1
title: Lab experiment injured (large urchins)

description: Data for the manuscript "Fear outweighs risk in adult sea urchins: prey size mediates consumptive and non-consumptive effects on top-down controlled marine ecosystems". Data for the laboratory experiment with injured conspecifics and large urchins
DOI: 10.6084/m9.figshare.7228400.v1
title: Supplementary Material for: Empirical Types of Medical Psychiatry Units

description: Medicine
DOI: 10.6084/m9.figshare.12608198.v1
title: Data extraction form.xlsx

description: This is the tool in excel used to extract relevant data from the records included in the systematic review estimating the impact of pneumococcal conjugate vaccines on childhood pneumonia in sub-Saharan Africa.<br>
DOI: 10.6084/m9.figshare.19337141.v2
title: Associations among smoking, IDH mutations ,MGMT promoter methylation, and grading in glioma a cross-sectional study

description: <b>Methods</b><br>Patients were recruited from Dr. Sardjito General Hospital (a referral hospital in Yogyakarta and Central Java region) and its network hospitals. Genomic DNA was extracted from formalin-fixed paraffin-embedded samples or fresh glioma tissues. Identification of <i>IDH1</i> mutation was performed using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP) or DNA sequencing. Methylation-specific real-time PCR was performed to identify MGMT promoter methylation status. Smoking status was obtained by history taken from the patient or family members.<b>Results</b>In total, 122 patients were included in this study. As many as 35 patients (28.7%) had a smoking history. Most smokers (57.1%) smoke less than ten cigarettes per day. However, most of them (68.8%) have been smoking for more than 20 years. Smoking patients have a significantly higher proportion of high-grade glioma than non-smokers (80% vs. 55.2%, <i>p</i>=0.01). Among 122 patients, 24 (19.7%) of them carried <i>IDH1</i> mutation. Smoking patients have a significantly higher proportion of <i>IDH1</i> mutation compared with non-smokers (31.4% vs. 14.9%, <i>p</i>&lt;0.001). No significant association was found between intensity and duration of smoking with <i>IDH1</i> mutations and glioma grading. No significant association was found between smoking and MGMT promoter methylation.<b>Conclusions</b>In glioma patients, smoking is associated with <i>IDH1</i> mutations and grading but not with MGMT promoter methylation.
DOI: 10.6084/m9.figshare.25634169.v1
title: Supplementary Material for: Genetic Susceptibility Variants of Vascular Dementia among Asians: A Systematic Review and Meta-Analysis

description: Introduction: Vascular dementia (VaD), a neurocognitive impairment directly related to vascular injury, is the second most common cause of age-related dementia. Although numerous studies have investigated candidate genetic polymorphisms associated with VaD in Asia, the genetics of VaD remains unclear. Methods: This review provides an updated meta-analysis of genetic polymorphisms associated with VaD in Asians, using the PRISMA guidelines. Published literature up to May 2021 was extracted from the PubMed, Scopus, Ovid, and EBSCO host databases. Meta-analysis was conducted using the Open Meta analyst, Review Manager, and MedCalc® Statistical Software. Trial sequential analysis (TSA) was performed using TSA viewer software. Results: A total of 46 eligible studies, comprising 23 genes and 35 SNPs, were retrieved. The meta-analysis was conducted on the following genetic polymorphisms, APOE ε2/3/4, MTHFR rs1801131, ACE rs4340 (I/D) gene polymorphism, and a PSEN1 intron 8 variant. The pooled ORs revealed a significant increase in the risk of VaD in the Apolipoprotein E (APOE) ε4 allelic model: OR, 1.79, p&lt;0.001), and the methylenetetrahydrofolate reductase (MTHFR) rs1801133 polymorphism T allele in the allelic model (OR, 1.23, p=0.013). Conclusion: Our findings provide evidence that genetic polymorphisms of the APOE ε4 allele and MTHFR rs1801133 T allele increase the risk of developing VaD in Asians. However, future large-scale investigations examining particularly on South-Eastern and West-Asian populations are highly recommended.
DOI: 10.6084/m9.figshare.769216.v1
title: Data and scripts from "Molecular dynamics simulations of the TSSPSAD peptide antigen in free and bound with CAMPATH-1H Fab antibody states: the importance of the beta-turn conformation"

description: Data and scripts to replicate to results from the publication Molecular dynamics simulations of the TSSPSAD peptide antigen in free and bound with CAMPATH-1H Fab antibody states: the importance of the beta-turn conformation<br>Vasileios A. Tatsis, Ioannis G. Tsoulos and Athanassios Stavrakoudis<br>Int J Pept Res Ther, 2009, 15:1-7
DOI: 10.17632/8d8npp4f94
title: AI Detection Tools: Dataset from Turnitin and ChatGPT 

description: Th experimental data examines the accuracy and reliability of AI text detection tools in determining whether a given text is generated by humans or an AI tool. The experiment utilized ChatGPT, Turnitin, and other AI detection tools.
DOI: 10.4121/14096567.v1
title: Cyclic ageing with driving profile of a lithium ion battery module

description: The dataset consists of cyclic ageing of a module built with commercially available 18650 cylindrical cells (Ni rich and Si/Gr anode). An adapted real driving profile was used to cycle the module. The raw data consist of voltage, current, time, temperature, and Ah counters.The data is the result of experiments conducted at VITO/EnergyVille. They are electrical measurements done with a battery tester on two 16S1P packs.<br><b>Note that the columns Tcell1 to Tcell 16 have an offset of 30 degrees C</b><b><br></b><b>For more data on cell level please check </b>https://doi.org/10.4121/13739296<br>