cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21453843.v2
title: Genome assembly

description: Genome assembly for Chrysomela aeneicollis
DOI: 10.6084/m9.figshare.1422130.v7
title: Development of preparative and analytical methods of the hop bitter acid oxide fraction and chemical properties of its components

description: The bitter acids in hops (<i>Humulus lupulus</i> L.) and beer, such as α-, β-, and iso-α-acids, are known to affect beer quality and display various physiological effects. However, these compounds readily oxidize, and the effect of the oxides on the properties of beer or their potential health benefits are not well understood. In this study, we developed a simple preparative method for the bitter acid oxide fraction derived from hops and designated the constituents as matured hop bitter acids (MHBA). HPLC-PDA-ESI/HRMS and MS<sup>2</sup> revealed that MHBA are primarily composed of α-acid-derived oxides, which possess a common β-tricarbonyl moiety in their structures similar to α-, β-, and iso-α-acids. We also developed a quantitative analytical method of whole MHBA by HPLC, which showed high precision and reproducibility. Using our newly developed method, the concentration of whole MHBA in several commercial beers was evaluated. Our results will promote the study of bitter acid oxides.
DOI: 10.6084/m9.figshare.24251236.v1
title: PFCinLSUT_LiceaJKhanOASinghTModleskyCM_EJN_2023

description: Data from EJN paper titled "Prefrontal cortex hemodynamic activity during a test of lower extremity functional muscle strength in children with cerebral palsy: a functional near-infrared spectroscopy study".<br><br>
DOI: 10.6084/m9.figshare.25942579.v1
title: Supplementary Material for: The Glutamatergic Effects of Clinical Repetitive Transcranial Magnetic Stimulation in Depressed Populations: A Preliminary Meta-Analysis of Proton Magnetic Resonance Spectroscopy Studies

description: Background: 
Repetitive transcranial magnetic stimulation (rTMS) alleviates symptoms of major depressive disorder, but its neurobiological mechanisms remain to be fully understood. Growing evidence from proton magnetic resonance spectroscopy (1HMRS) studies suggests that rTMS alters excitatory and inhibitory neurometabolites. This preliminary meta-analysis aims to quantify current trends in the literature and identify future directions for the field. 
Methods: 
Ten eligible studies that quantified Glutamate (Glu), Glutamate+Glutamine (Glx), or GABA before and after an rTMS intervention in depressed samples were sourced from PubMed, MEDLINE, PsychInfo, Google Scholar, and primary literature following PRISMA guidelines. Data were pooled using a random effects model, Cohen’s d effect sizes were calculated, and moderators, such as neurometabolite and 1HMRS sequence, were assessed. It was hypothesized that rTMS would increase cortical neurometabolites.
Results: 
Within-subjects data from 224 cases encompassing 31 neurometabolite effects (k) were analyzed. Active rTMS in clinical responders (n=128; k=22) nominally increased glutamatergic neurometabolites (d=0.15 [95% CI:-0.01, 0.30], p=0.06). No change was found in clinical non-responders (p=0.8) or sham rTMS participants (p=0.4). A significant increase was identified in Glx (p=0.01), but not Glu (p=0.6). Importantly, effect size across conditions was associated with the number of rTMS pulses patients received (p=0.05), suggesting dose dependence.
Conclusions and Relevance: 
Clinical rTMS is associated with a nominal, dose-dependent increase in glutamatergic neurometabolites, suggesting rTMS may induce glutamate-dependent neuroplasticity and upregulate neurometabolism. More, larger-scale studies adhering to established acquisition and reporting standards are needed to further elucidate the neurometabolic mechanisms of rTMS.
DOI: 10.6084/m9.figshare.5117812.v1
title: Supplementary Raw Data from Exposure to the leaf litter microbiome of healthy adults protects seedlings from pathogen damage

description: Contains raw data for this study
DOI: 10.6084/m9.figshare.20220066.v1
title: SciSciNet_Twitter_Metadata

description: SciSciNet_Twitter_Metadata
DOI: 10.6084/m9.figshare.21861501.v1
title: Illicit Drug Data.sav

description: The study was performed using a self-administered questionnaire consisting of different sections: 1) demographic characteristics including age, gender, place of residence, academic year and field of study, and perceived socioeconomic status; 2) drug use assessment questionnaire to assess the pattern of smoking, alcohol, and illicit drug use. In this study, we assessed the use of cannabis, opium (and condensed forms of opium), heroin, stimulants (methamphetamine, LSD, and ecstasy), and methylphenidate. We assessed lifetime indicators, the past 12 months, frequency of use in the past month, and the age of first use of each substance. Cocaine use and non-medicinal use of morphine, methadone, and buprenorphine in the past 12 months were also assessed; 3) psychological assessment consisting of the 6-item Kessler Psychological Distress Scale (K6)(21), a single question for overall happiness(22), and questions on having a major problem in life, perceived academic achievement, and social support; 4) questions about the family status and family relations, parents’ marital status, and relationship with family; 5) risk factors for drug use consisting of opportunity of drug use, risk perception, drug use in family and friends, and receiving education on drugs; 6) lifestyle consisting of physical activity, gaming, gambling, and interest in social and political topics. Additionally, to provide an indirect estimate, we asked everyone about last month use of cannabis among three of their closest friends who were present and participated in the survey. To assess the genuineness of responses, we asked each participant to guess how accurate his/her closest friend in the class has answered questions regarding drug use.
DOI: 10.6084/m9.figshare.17067599.v1
title: Supplementary Material for: First-Line Immune Checkpoint Inhibitor-Based Sequential Therapies for Advanced Hepatocellular Carcinoma: Rationale for Future Trials

description: <b><i>Introduction:</i></b> Atezolizumab (ATEZO) plus bevacizumab (BEVA) represents the new standard of care for the treatment of advanced hepatocellular carcinoma (HCC). However, the choice of the second-line treatment after the failure of immunotherapy-based first-line remains elusive. Taking into account the weaknesses of the available evidence, we developed a simulation model based on available phase III randomized clinical trials (RCTs) to identify optimal risk/benefit sequential strategies. <b><i>Methods:</i></b> A Markov model was built to estimate the overall survival (OS) of sequential first- and second-line systemic treatments. Sequences starting with first-line ATEZO plus BEVA followed by 5 second-line treatments (sorafenib [SORA], lenvatinib [LENVA], regorafenib, cabozantinib, and ramucirumab) were compared. The probability of transition between states (initial treatment, cancer progression, and death) was derived from RCTs. Life-year gained (LYG) was the main outcome. Rates of severe adverse events (SAEs) (≥ grade 3) were calculated. The incremental safety-effectiveness ratio (ISER) was calculated as the difference in probability of SAEs divided by LYG between the 2 most effective sequences. <b><i>Results:</i></b> ATEZO plus BEVA followed by LENVA (median OS, 24 months) or SORA (median OS, 23 months) was the most effective sequence, producing a LYG of 0.50 and 0.42 year, respectively. ATEZO plus BEVA followed by SORA was the safest sequence (SAEs 63%). At a willingness-to-risk threshold of 10% of SAEs for LYG, ATEZO plus BEVA followed by second-line SORA was favored in 72% of cases, while at a threshold of 30% of SAEs for LYG, ATEZO plus BEVA followed by second-line LENVA was favored in 69% of cases. <b><i>Conclusion:</i></b> Our simulation model provides a strong rationale to support ongoing trials evaluating second-line tyrosine-kinase inhibitors after first-line ATEZO plus BEVA. Future evidence from ongoing RCTs and prospective real-world studies are needed to prove the net health benefit of sequential treatment options for advanced HCC.
DOI: 10.6084/m9.figshare.28744412.v1
title: Datasheets

description: <b>KU Mammalogy's current "FN" Datasheet</b> (FN = Field Number) - one sheet/number assigned per sampled animal to ensure all appropriate metadata are collected and correctly associated with the ID and metadata for that organism<b>Gazetteer </b><b>datasheet</b> - includes details about the individuals on a field expedition<b>Ancillary datasheet</b> - used to collect reproductive details and parasite information<b>Trapline datasheet</b> - records location, habitat details, number and types of traps set, and duration<b>Bat net datashee</b><b>t</b> - records location, habitat details, net specifications, and duration
DOI: 10.15468/dl.egvhb2
title: Occurrence Download

description: A dataset containing 7376 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Aricia agestis (Denis & Schiffermüller), 1775"
 ]
}

 The dataset includes 7376 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009611-250426092105405/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.7346015.v1
title: Data from Associations between neurochemical receptor genes, 2D:4D, impulsivity and relationship quality

description: The data used for analysis
DOI: 10.6084/m9.figshare.24451720.v1
title: ctLung.nii.gz

description: image ct lung<br>
DOI: 10.6084/m9.figshare.27302643.v4
title: Business Intent and Network Slicing Correlation Dataset

description: BINS is based on a dataset called Business Intent and Network Slicing Correlation Dataset (BINS) within the context of intent-based networking. This dataset primarily includes user business intent description data, business intent annotation data, and data correlating business intents with network slices. As the latest dataset for network intent recognition, the deployment of BINS will aid in the development of intent-based network management systems and then promote the development of network automation.
DOI: 10.17028/rd.lboro.28608554.v1
title: Dataset of Improved Weather Files for Building Simulation

description: This dataset contains the weather files described in in the DEEP Report 6.01 Improved Weather Files for Building Simulation which is available here: https://assets.publishing.service.gov.uk/media/6717bfcbe319b91ef09e385a/6.01_DEEP_Weather_Report.pdf.The dataset is made publicly available here. This dataset includes:1. README.txt: A Read Me file with more details of the dataset.2. Dataset_descriptor.pdf: A guidance document containing information on how to use the weather files.3. London_RWD.epw: A multi-year weather that depicts the weather conditions of London for the 2010-2019 decade.4. Manchester_RWD.epw: A multi-year weather that depicts the weather conditions of Manchester for the 2010-2019 decade.5. Glasgow_RWD.epw: A multi-year weather that depicts the weather conditions of Glasgow for the 2010-2019 decade.6-17. London_FWD_Sc.1.epw - London_FWD_Sc.12.epw : Multi-year weather files that depict future weather conditions of London (considering twelve scenarios in UKCP18 projections and modifying the RWD file).18-29. Manchester_FWD_Sc.1.epw - Manchester_FWD_Sc.12.epw : Multi-year weather files that depict future weather conditions of Manchester (considering twelve scenarios in UKCP18 projections and modifying the RWD file).30-41. Glasgow_FWD_Sc.1.epw - Glasgow_FWD_Sc.12.epw : Multi-year weather files that depict future weather conditions of Glasgow (considering twelve scenarios in UKCP18 projections and modifying the RWD file).<br>
DOI: 10.6084/m9.figshare.12129126.v1
title: Supplementary Material for: Clinical Consequences of Untreated Dental Caries, Individual Characteristics, and Environmental Factors on Self-Reported Oral Health Measures in Adolescents: A Follow-Up Prevalence Study

description: <b><i>Background/Aims:</i></b> This study evaluated the relationships of clinical consequences of untreated dental caries, individual characteristics, and environmental factors on self-reported oral health measures in adolescents. <b><i>Methods:</i></b> A follow-up prevalence study was conducted involving 406 twelve-year-old adolescents selected from public schools in the eastern area of the city of Manaus, Brazil. Baseline data included clinical consequences of untreated caries (PUFA/pufa index), DMFT, sociodemographic characteristics (sex, parental schooling, and family income), psychosocial factors (sense of coherence [SOC-13 scale], oral health beliefs and self-esteem [Rosenberg Self-Esteem Scale]), and social support (SSA questionnaire). Oral health-related quality of life (OHRQoL [CPQ<sub>11–14</sub>]) and self-rated oral health were assessed at the 6-month follow-up. Structural equation modelling was used to explore the relationships between variables according to the Wilson and Cleary model. <b><i>Results:</i></b> The prevalence of PUFA/pufa was 17.8% and mean DMFT was 1.5. The number of teeth with clinical consequences of untreated caries predicted poor self-rated oral health at the 6-month follow-up. Low parental schooling predicted low family income and clinical consequences of untreated dental caries. Psychosocial factors predicted OHRQoL directly and self-rated oral health indirectly. OHRQoL was linked to self-rated oral health. Clinical consequences of untreated dental caries mediated the relationship of parental schooling with OHRQoL and self-rated oral health. OHRQoL mediated the relationship of psychosocial factors and sex with self-rated oral health. Clinical consequences of untreated dental caries was associated with adolescents’ self-rated oral health. Furthermore, the former was an important mediator on the link between low parental education and adolescents’ self-reported oral health measures. <b><i>Conclusions:</i></b> Socioeconomic status, psychosocial factors, and social support were related to OHRQoL and self-rated oral health via direct and indirect pathways.
DOI: 10.6084/m9.figshare.13287290.v1
title: X-ray microCT of tomato stems from healthy plants and plants infected with Ralstonia (a bacterial wilt pathogen). Dataset 1: Intact Stem experiment.

description: <b><i>Dataset from BioRxiv paper!<br></i></b><br>Full resolution X-ray micro CT reconstructions of tomato stems from healthy plants and plants infected with Ralstonia (a bacterial wilt pathogen). <br><br>This data is from the experiment where plants with <b>intact </b>root and leaf systems were imaged. So the few air-filled xylem vessels (black) correspond to <i>non-functional</i> vessels that are filled with air instead of sap (grey).<br><br>The first file has information on how to interpret the image and it notes some of the reconstruction artefacts that are visible in the images. <br><br>Subsequently, the composite supplemental figure is present. This fig shows low resolution versions of each of the samples and are organized by condition. Each high resolution cross-section is labeled with the sample ID in the file name:<br>1. <b>HP </b>and <b>HS</b>: <b>H</b>ealthy Stems<br>2. <b>P</b> <b>- </b><i>Ralstonia</i> GMI1000 infected stems at variable disease stage<br>Raw data is available upon request. Each sample is ~2-10 Gb, and we could not find a public database to deposit the data into. <br><br>
DOI: 10.6084/m9.figshare.19376471.v1
title: Raw resfinder output from Abricate

description: Raw abricate output
DOI: 10.6084/m9.figshare.23296472.v1
title: Enhancing Physics Learning with ChatGPT, Bing Chat, and Bard as Agents-to-Think-With: A Comparative Case Study

description: Log capturing participants' interactions simulating Physics students' learning experiences with ChatGPT, Bing Chat, and Bard, supporting findings and conclusions of the study "Enhancing Physics Learning with ChatGPT, Bing Chat, and Bard as Agents-to-think-with: A Comparative Case Study," by Renato P. dos Santos.
DOI: 10.6084/m9.figshare.6181823.v1
title: Biogenic volatile release from permafrost thaw determined by microbial soil sink

description: Supplementary data for the article:<br>Kramshøj et al. (2018) Biogenic volatile release from permafrost thaw determined by microbial soil sink. Nature Communications.<br><br>
DOI: 10.6084/m9.figshare.16622005.v1
title: Supplementary Material for: IL-6 Is Associated with Progression of Coronary Artery Calcification and Mortality in Incident Dialysis Patients

description: <b><i>Introduction:</i></b> Inflammation is important in the pathogenesis of atherosclerosis. Elevated interleukin-6 (IL-6) is associated with cardiovascular events and also predicts mortality in individuals with CKD. Our goal was to determine the association between IL-6, FGF23, and high-sensitivity C-reactive protein (hsCRP) on coronary artery calcification (CAC) progression and mortality in incident dialysis patients without prior coronary events. <b><i>Methods:</i></b> A prospective cohort of incident adult dialysis participants had CAC measured by ECG-triggered multislice CT scans at baseline and at least 12 months later. Lipids, mineral metabolism markers, FGF23, and inflammatory markers, such as IL-6 and hsCRP, were measured at the baseline visit. <b><i>Results:</i></b> Participants in the high IL-6 tertile had the highest baseline CAC score (133.25 [10.35–466.15]) compared to the low (0.25 [0–212.2]) and intermediate (29.55 [0–182.85]) tertiles. Almost half of the participants with high IL-6 (15 of 32 [46.9%]) experienced progression of CAC compared to participants with low (8 of 32 [25%]) and intermediate (9 of 32 [28.1%]) (<i>p</i> = 0.05) IL-6 levels. Each log increase in IL-6 was associated with increase in death (hazard ratio 2.2, 95% CI: 1.2–3.8; <i>p</i> = 0.01). After adjusting for smoking, age, gender, race, diabetes, phosphate, and baseline calcium score, IL-6 (log) was associated with 2.2 times (95% CI: 1.1–4.6; <i>p</i> = 0.03) increase in death. <b><i>Conclusion:</i></b> IL-6 is associated with progression of CAC and mortality in incident dialysis patients.
DOI: 10.6084/m9.figshare.22566746.v1
title: Repurposing immune boosting and anti-viral efficacy of <i>Parkia</i> bioactive entities as multi-target directed therapeutic approach for SARS-CoV-2: exploration of lead drugs by drug likeness, molecular docking and molecular dynamics simulation methods

description: The COVID-19 pandemic has caused adverse health (severe respiratory, enteric and systemic infections) and environmental impacts that have threatened public health and the economy worldwide. Drug repurposing and small molecule multi-target directed herbal medicine therapeutic approaches are the most appropriate exploration strategies for SARS-CoV-2 drug discovery. This study identified potential multi-target-directed <i>Parkia</i> bioactive entities against SARS-CoV-2 receptors (S-protein, ACE2, TMPRSS2, RBD/ACE2, RdRp, MPro, and PLPro) using ADMET, drug-likeness, molecular docking (AutoDock, FireDock and HDOCK), molecular dynamics simulation and MM-PBSA tools. One thousand <i>Parkia</i> bioactive entities were screened out by virtual screening and forty-five bioactive phytomolecules were selected based on favorable binding affinity and acceptable pharmacokinetic and pharmacodynamics properties. The binding affinity values of <i>Parkia</i> phyto-ligands (AutoDock: −6.00–−10.40 kcal/mol; FireDock: −31.00–−62.02 kcal/mol; and HDOCK: −150.0–−294.93 kcal/mol) were observed to be higher than the reference antiviral drugs (AutoDock: −5.90–−9.10 kcal/mol; FireDock: −35.64–−59.35 kcal/mol; and HDOCK: −132.82–−211.87 kcal/mol), suggesting a potent modulatory action of <i>Parkia</i> bioactive entities against the SARS-CoV-2. Didymin, rutin, epigallocatechin gallate, epicatechin-3-0-gallate, hyperin, ursolic acid, lupeol, stigmasta-5,24(28)-diene-3-ol, ellagic acid, apigenin, stigmasterol, and campesterol strongly bound with the multiple targets of the SARS-CoV-2 receptors, inhibiting viral entry, attachment, binding, replication, transcription, maturation, packaging and spread. Furthermore, ACE2, TMPRSS2, and MPro receptors possess significant molecular dynamic properties, including stability, compactness, flexibility and total binding energy. Residues GLU-589, and LEU-95 of ACE2, GLN-350, HIS-186, and ASP-257 of TMPRSS2, and GLU-14, MET-49, and GLN-189 of MPro receptors contributed to the formation of hydrogen bonds and binding interactions, playing vital roles in inhibiting the activity of the receptors. Promising results were achieved by developing multi-targeted antiviral <i>Parkia</i> bioactive entities as lead and prospective candidates under a small molecule strategy against SARS-CoV-2 pathogenesis. The antiviral activity of <i>Parkia</i> bioactive entities needs to be further validated by pre-clinical and clinical trials.
DOI: 10.6084/m9.figshare.28072349.v1
title: Intensity_d2_v2.mat

description: Intensity images for NAD(P)H and FAD.
DOI: 10.6084/m9.figshare.22540213.v1
title: fNIRS Scans

description: The data set is provided in the native NIRStar format (.wl1 and .wl2 file format).
DOI: 10.6084/m9.figshare.28728950.v1
title: <b>Responses of soil carbon-degrading enzymes to straw return: Implications for soil organic carbon</b>

description: Yue Li, Hao Feng, Qiliang Yang, Ji Chen, Junsheng Lu, Kadambot H.M. Siddique.Responses of soil carbon-degrading enzymes to straw return: Implications for soil organic carbon.<i>Ecological Indicators.</i>
DOI: 10.6084/m9.figshare.23657583.v1
title: Human BMSCs’ data

description: We downloaded human BMSCs’ data from the Gene Expression Omnibus public database (GEO). We collected 4 aged BMSCs samples (GSM878100, GSM878101, GSM878102, GSM878103) and 5 control samples (GSM878095, GSM878096, GSM878097, GSM878098, GSM878099). We then analyzed differentially expressed genes.
DOI: 10.6084/m9.figshare.24173622.v1
title: Supplementary Material for: Neuro-specific and immuno-inflammatory biomarkers in umbilical cord blood in neonatal hypoxic-ischemic encephalopathy

description: Objectives To evaluate neuronal injury and immuno-inflammatory biomarkers in umbilical cord blood (UCB) at birth, in cases with perinatal asphyxia with or without hypoxic ischemic encephalopathy (HIE), compared with healthy controls and to assess their ability to predict HIE. Study design In this case-control study term infants with perinatal asphyxia were recruited at birth. UCB was stored at delivery for batch analysis. HIE was diagnosed by clinical Sarnat staging at 24 hours. Glial fibrillary acidic protein (GFAP), the neuronal biomarkers tau and neurofilament light protein (NFL), and a panel of cytokines were analysed in a total of 150 term neonates; 50 with HIE, 50 with asphyxia without HIE (PA) and 50 controls. GFAP, tau and NFL concentrations were measured using ultrasensitive Single molecule array (Simoa) assays, and a Cytokine Screening Panel was applied to analyse the immuno-inflammatory and infectious markers. Results GFAP, tau, NFL, and several cytokines were significantly higher in newborns with moderate and severe HIE compared to a control group and provided moderate prediction of HIE II/III (AUC 0.681-0.827). Furthermore, the levels of GFAP, tau, Interleukin 6 (IL-6) and Interleukin 8 (IL-8) were higher in HIE II/III cases compared with cases with PA/HIE I. IL-6 was also higher in HIE II/III compared with HIE I cases. Conclusions Biomarkers of brain injury and inflammation were increased in umbilical blood in cases with asphyxia. Several biomarkers were higher in HIE II/III vs. those with no HIE or HIE I, suggesting that they could assist in the prediction of HIE II/III.