cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25452/figshare.plus.19733230.v1
title: Dataset of MOSAIc analyses of GWASs supporting paper "Mosaic patterns of selection in genomic regions associated with diverse human traits"

description: Natural selection shapes the genetic architecture of many human traits. However, the prevalence of different modes of selection on genomic regions associated with variation in traits remains poorly understood. To address this, we developed an efficient computational framework to calculate enrichment of different evolutionary measures among regions associated with complex traits. We applied the framework to summary statistics from &gt;900 genome-wide association studies (GWASs) and 11 evolutionary measures of sequence constraint, population differentiation, and allele age while accounting for linkage disequilibrium, allele frequency, and other potential confounders. We demonstrate that this framework yields consistent results across GWASs with variable sample sizes, numbers of trait-associated SNPs, and analytical approaches. The resulting evolutionary atlas maps diverse signatures of selection on genomic regions associated with complex human traits on an unprecedented scale. This atlas of signatures of different modes of natural selection across the diversity of available GWASs will enable exploration of the relationship between the genetic architecture and selection in the human genome. <br> Each file is labeled with the associated GWASs PMID. Within each folder there are trait-level enrichments and region-level enrichments. <br> Input files: <strong>gwas_name</strong>.format.tsv <br> Region-level enrichment files: <strong>gwas_name</strong>.format.<strong>evomeasure</strong>_z_score_p_value.tsv <br> Trait-level enrichment files: <strong>gwas_name.</strong>format_extreme_regions_mean_enrichment_all_annotation.tsv
DOI: 10.6084/m9.figshare.692180.v2
title: Example files for PASTIS: Phylogenetic Assembly with Soft Taxonomic InferenceS

description: Phylogenetic trees (newick format), taxonomic information, and sequence data (FASTA) files for generating MrBayes input files with the R package PASTIS.
DOI: 10.17632/kjyh2swhg9
title: Strand specific RNA sequencing of L.monocytogenes 10403S under UV irradiation conditions in comparison to bacteria grown in BHI

description: Part1. Bacteria were grown in BHI medium without UV irradiation for ssRNA-Seq analysis.
DOI: 10.17632/6wz7jv7ncz
title: TBMU Heat Stress_Tremblay, F

description: This data repository includes the cleaned data used to evaluate the effect of heat-stress on thick-billed murres using biophysical models.
DOI: 10.17632/tkdmbbsjzs
title: Exploring the side effects of COVID 19 vaccines (Pfizer, Astra-Zeneca, Moderna) in Saudi Arabia

description: Abstract: The public controversy regarding the safety of the COVID-19 vaccines is still a concern to this day, so our study aimed to explore the possible side effect of COVID-19 vaccines in Saudi Arabia and to potentially establish an association between different vaccine types and experienced side effects. The data was gathered using an online based google form distributed via social media. 461 participants met the inclusion criteria and were used in the analysis. The focus was exploring the side effects experienced after receiving Pfizer, AstraZeneca, or Moderna vaccines as a first, second, or booster dose. With Pfizer as a first, second, or booster dose, pain at injection site was the most commonly experienced side effect. Rarely myocarditis and thromboembolism and peri-carditis were reported with Pfizer. pain at injection site was also the most common side effect with AstraZeneca as a first and second dose. on rare occasions myocarditis and thromboembolism were reported with AstraZeneca. As for Moderna as a booster dose pain at injection site was most commonly experienced, and rarely respondents reported myocarditis and pericarditis. Overall, most of the reported side effects of Pfizer, AstraZeneca, and Moderna COVID-19 vaccines were mild side effects and the reported life threatening side effects were very rare.
DOI: 10.6084/m9.figshare.28746467.v1
title: data availability

description: All raw data of toxicitybiodegradabilityhuman keratinocyte cytotoxic assayquestionnaires
DOI: 10.6084/m9.figshare.24161235.v1
title: Supplementary Material for: Triple-A syndrome in Morocco: founder effect, age estimation of the AAAS c.1331+1G&gt;A variant and implications for genetic diagnosis

description: Introduction: Triple-A syndrome (Triple-A) is an autosomal recessive disorder characterized by alacrimia, achalasia and adrenal insufficiency. Several variants on the AAAS gene have been described, and some variants are clustered in particular geographical areas, such as the c.1331+1G&gt;A variant which is very frequent in North Africa. Here, we describe the genetic features of Triple-A in a series of unrelated families from Morocco. Methods: Screening for the AAAS c.1331+1G&gt;A variant was performed by direct sequencing or by PCR-RFLP. Haplotype analysis using Single Tandem Repeat (STR) markers flanking AAAS gene was performed in order to evaluate the founder effect and estimate the age of the c.1331+1G&gt;A variant. Results: Seven unrelated families with nine individuals clinically diagnosed with Triple-A were evaluated for sequence variations in the AAAS gene. The median age at diagnosis was 3 years with a range between 2 and 11 years. Molecular analysis revealed that all patients were homozygous for the c.1331+1G&gt;A variant. This variant was not found in 200 healthy controls, indicating that carriers are very rare in the general Moroccan population. Subsequently, STR markers analysis revealed a founder effect and that the most recent common ancestor of Triple-A patients in Morocco would have lived 125 years ago. Conclusion: This is the largest series of Triple-A in Morocco. The same AAAS c.1331+1G&gt;A variant was found in all patients, suggesting a founder effect in Morocco which was subsequently confirmed by microsatellite markers analysis. Therefore, this variant should be systematically investigated to diagnose Triple-A in Morocco.
DOI: 10.6084/m9.figshare.27187917.v2
title: L2M3 Database

description: Database for paper: Harnessing Large Language Model to collect and analyze Metal-organic framework property dataset
DOI: 10.6084/m9.figshare.3443312.v2
title: Functional conservation of the lncRNA NEAT1 in the ancestrally diverged marsupial lineage: Evidence for NEAT1 expression and associated paraspeckle assembly during late gestation in the opossum <i>Monodelphis domestica</i>

description: Long non-coding RNAs (lncRNAs) are widely expressed and play various roles in cell homeostasis. However, because of their low conservation at the sequence level, recapitulating lncRNA evolutionary history is often challenging. While performing an ultrastructural analysis of viral particles present in uterine glands of gestating opossum females, we serendipitously noticed the presence of numerous structures similar to paraspeckles, nuclear bodies which in human and mouse cells are assembled around an architectural NEAT1/MENϵ/β lncRNA. Here, using an opossum kidney (OK) cell line, we confirmed by immuno-electron microscopy the presence of paraspeckles in marsupials. We then identified the orthologous opossum <i>NEAT1</i> gene which, although poorly conserved at the sequence level, displays NEAT1 characteristic features such as short and long isoforms expressed from a unique promoter and for the latter an RNase P cleavage site at its 3′-end. Combining tissue-specific qRT-PCR, <i>in situ</i> hybridization at the optical and electron microscopic levels, we show that (i) NEAT1 is paraspeckle-associated in opossum (ii) NEAT1 expression is strongly induced in late gestation in uterine/placental extracts (iii) NEAT1 induction occurs in the uterine gland nuclei in which paraspeckles were detected. Finally, treatment of OK cells with proteasome inhibitors induces paraspeckle assembly, as previously observed in human cells. Altogether, these results demonstrate that paraspeckles are tissue-specific, stress-responding nuclear bodies in marsupials, illustrating their structural and functional continuity over 200 My of evolution throughout the mammalian lineage. In contrast, the rapid evolution of the NEAT1 transcripts highlights the relaxed constraint that, despite functional conservation, is exerted on this lncRNA.
DOI: 10.6084/m9.figshare.16550349.v1
title: ZOO_5.tif

description: SBF-SEM dataset of corresponding chytrid life stage
DOI: 10.6084/m9.figshare.28253726.v3
title: Supplementary Table 1-4.docx

description: <b>DNMT1 and DNMT3A Promote Hepatocellular Carcinoma Progression and Serve as Potential Therapeutic Targets</b><b>Table S1-4</b><b>Figure S1-9</b>
DOI: 10.6084/m9.figshare.3521072.v1
title: Appendix D. Erratum in Nagano and Kira (1978) used in this study.

description: Erratum in Nagano and Kira (1978) used in this study.
DOI: 10.6084/m9.figshare.19789996.v1
title: Abnormal event-related delta, theta, and alpha coherence response using visual oddball paradigm in Parkinson’s disease associated with cognitive impairment

description: Parkinson’s disease (PD) is a common neurodegenerative disease characterized by number of motor and non-motor dysfunctions. EEG pattern is a predictive of cognitive function in PD. In the present study, we investigated intra-hemispheric event related coherence with different cognitive dysfunctions in PD during visual oddball paradigm.
DOI: 10.6084/m9.figshare.1313691.v3
title: Raw data at different imaging conditions

description: Raw data of single-molecule super-resolution imaging of Alexa Flour 647-immunolabeled microtubules at different imaging conditions.
DOI: 10.6084/m9.figshare.28784942.v1
title: The Role of AI in Health Research: A Policy Review of Higher Education Foundations

description: The integration of Artificial Intelligence in health research has transformed data analysis, predictive modeling, and personalized treatment strategies. However, its rapid adoption presents regulatory, ethical, and institutional challenges, particularly in higher education foundations that oversee health research. This paper examines policies governing AI-driven health research, focusing on regulatory frameworks, ethical guidelines, and institutional policies that shape AI applications in academia. At the global and national levels, regulations such as the EU AI Act and World Health Organization guidelines set standards for AI safety, transparency, and data protection in health research. Despite these frameworks, challenges persist, including data privacy concerns, algorithmic bias, and inconsistent ethical oversight. Ethical frameworks like the Ethical Regulatory Framework for AI emphasize accountability, fairness, and continuous monitoring to ensure responsible AI deployment. Higher education institutions play a crucial role in developing AI governance frameworks that balance innovation with compliance. However, inconsistencies in institutional policies create gaps in regulatory enforcement and ethical standards. Addressing these issues requires harmonized policies, interdisciplinary collaboration, and proactive stakeholder engagement. This paper highlights the role of AI in optimizing research methodologies, funding allocation, and regulatory compliance while discussing emerging challenges and future directions for AI-driven health research governance.
DOI: 10.6084/m9.figshare.3397603.v5
title: Custom toolbars and mini applications with Action Bar

description: The Action Bar ImageJ plugin facilitates creation of additional custom toolbars, using simple macro-like toolbar description file. Readers will learn how to setup a basic action bar, and how to use the latest features of this plugin. Button actions are basically macro programs, so action bars can interact with all standard ImageJ components. Primary use of these custom toolbars is to keep at hand often used commands, plugins and macros, but toolbars sets can be turned into mini applications with minimal effort. With these highly task-oriented applications, end users can focus on just using a simple system with absolutely no prior knowledge of ImageJ. This paper is aimed at ImageJ users with some previous experience with the macro language. This is the support material for a workshop I first gave at the 2008 ImageJ conference in Luxembourg.
DOI: 10.6084/m9.figshare.7053506.v1
title: Supplementary Material for: Onset to Reperfusion Time Was Not Important in Mechanical Thrombectomy for Elderly Patients: A Retrospective Multicenter Study in Tama Area, Tokyo

description: <b><i>Background:</i></b> Mechanical thrombectomy (MT) has become the standard of care for acute ischemic stroke with large vessel occlusion; however, evidence remains insufficient for MT for elderly patients, especially with respect to factors affecting their outcomes. <b><i>Methods:</i></b> This study was a retrospective analysis of a multicenter registry of MT, called Tama Registry of Acute Endovascular Thrombectomy. Patients were divided by their age into 2 groups: Nonelderly (NE; &lt; 80) and elderly (E; ≥80). Factors related to a good outcome (modified Rankin scale score ≤2) were examined in each group. Onset to reperfusion time (OTR) was stratified into 4 categories: category 1, 0 – ≤180 min; category 2, &gt; 180 – ≤360 min; category 3, &gt; 360 min or onset time not identified; and category 4, effective recanalization not achievable. <b><i>Results:</i></b> 143 NE patients and 78 E patients were included in this study. The E group had less chance of achieving a good outcome (NE group 51%, E group 35%; <i>p</i> = 0.024). In the NE group, lower OTR category was an independent prognostic factor for good outcome (<i>p</i> = 0.037, OR = 1.09). However, in the E group, OTR category was not a significant predictor on multivariate analysis. Instead, effective recanalization (<i>p</i> = 0.0081, OR 1.40) and lower National Institute of Health Stroke Scale score at presentation (<i>p</i> = 0.0032, OR 1.02) were the independent predictors. <b><i>Conclusions:</i></b> In MT for elderly patients, effective recanalization improved the patients’ outcome but OTR affected less. Further studies are warranted to establish the appropriate patient selection and treatment strategies.
DOI: 10.6084/m9.figshare.7737653
title: Landsat based peak NDVI image Year 2005 Tile 8

description: Landsat based peak NDVI image Year 2005 Tile 8
DOI: 10.17632/mvwvxk756z
title: Data to Accompany: European Epidemiological Patterns of Cannabis- and Substance- Related Chromosomal Congenital Anomalies: Space-time and Causal Inferential Study

description: Data to accompany paper of the above title
DOI: 10.6084/m9.figshare.21953465.v1
title: Supplementary Material for: Occurrence, characteristics and outcome of hypoxic liver injury among patients aged ≥ 90 years admitted to the intensive care unit – a retrospective cohort study

description: Introduction: Hypoxic liver injury (HLI) is a frequent and life-threatening complication occurring in up to 10 % of critically ill patients. Heart failure and age were previously identified as risk factors for occurrence of HLI. However, there is a lack of data on incidence of HLI and its clinical implications on outcome in very old (≥ 90 years) patients. The aim of this study was to investigate occurrence, clinical characteristics and outcome of HLI in critically ill patients ≥ 90 years. Methods: Retrospective analysis of all consecutive critically ill patients ≥ 90 years admitted to the intensive care unit (ICU) of a tertiary care university hospital in Hamburg, Germany. Clinical course and laboratory were analysed from all patients. HLI was defined according to established criteria as elevation of aminotransferase levels (&gt; 20-fold upper limit of normal). Predictors of HLI, occurrence, clinical course and outcome were assessed and compared to patients without HLI. Results: In total, 1065 critically ill patients ≥ 90 years were included. During the ICU stay, 3% (n = 35) developed HLI. Main causes of HLI were cardiogenic shock (51%, n = 18), septic shock (23%, n = 8) and cardiac arrest (20%, n = 7). Presenting characteristics including age, gender and BMI were comparable between patients with and without HLI. The admission cause was primary medical (HLI: 49% vs. No-HLI: 34%, p = 0.07), surgical – planned (9% vs. 38%, p &lt; 0.001) and surgical – emergency (43% vs. 28%, p = 0.06). The Charlson Comorbidity Index (CCI) and the updated CCI was median 2 (1 – 3) and 2 (1 – 2) points in patients with and 1 (0 – 2) and 1 (0 – 2) in patients without HLI (p &lt; 0.01 and p = 0.08). Patients with HLI presented with higher SAPS II (55 vs. 36 points p &lt; 0.001) score on admission and required mechanical ventilation (66% vs. 34%, p &lt; 0.001), vasopressor therapy (91% vs. 40%, p &lt; 0.001), renal replacement therapy (20% vs. 2%, p &lt; 0.001) and parenteral nutrition (29% vs. 7%, p &lt; 0.001). The ICU-mortality and hospital mortality in patients with HLI was 66% (n = 23) and 83% (n = 29) compared with 17% (n = 170) and 28% (n = 292) in patients without HLI, respectively (both p &lt; 0.001). Regression analysis identified SAPS II [OR 1.05, 95% CI (1.02 – 1.07); p &lt; 0.001] and vasopressor therapy [OR 9.21, 95% CI (2.58 – 32.86); p &lt; 0.01] as factors significantly associated with new-onset of HLI. Occurrence of HLI was independently associated with mortality [HR 2.23, 95% CI (1.50 – 3.30); p &lt; 0.001]. Discussion/Conclusion: HLI is an uncommon but not rare condition in critically ill patients aged ≥ 90 years. Occurrence of HLI is associated with high mortality and mainly caused by cardiogenic or septic shock. HLI may serve as early prognostic marker in critically ill patients aged ≥ 90 years.
DOI: 10.6084/m9.figshare.21388224.v1
title: Supplementary Material for: Anti-vascular endothelial growth factor treatment compared with steroid treatment for retinal vein occlusion: a meta-analysis

description: Background: This meta-analysis aims to compare the efficacy and safety of intravitreal anti-vascular endothelial growth factor (anti-VEGF) agents and intravitreal steroids for the treatment of macular edema (ME) secondary to retinal vein occlusion (RVO). Methods: A systematic literature search was conducted on Ovid MEDLINE, EMBASE, and the Cochrane Controlled Register of Trials for studies published between January 2005 and November 2021. Randomized controlled trials (RCTs) reporting on patients with ME secondary to RVO who were treated with intravitreal steroids or anti-VEGF agents were included. A random effects meta-analysis was performed. Results: 867 eyes from 11 RCTs were included. At last study observation, intravitreal anti-VEGF agents were associated with a significantly better BCVA (WMD=-0.14 logMAR, 95% CI=[-0.19,-0.09], p&lt;0.00001) and lower retinal thickness (WMD=-38.01 µm, 95% CI=[-56.17,-19.85], p&lt;0.0001) relative to intravitreal steroids. Similar findings were found at 3-12 month timepoints. Intravitreal anti-VEGF agents were associated with a significantly lower incidence of IOP-related adverse events (RR=0.28, 95% CI=[0.15,0.51], p&lt;0.0001), cataract development/progression (RR=0.22, 95% CI=[0.09,0.49], p=0.0003) and conjunctival hemorrhage (RR=0.52, 95% CI=[0.32,0.86], p=0.01). Conclusion: Our meta-analysis found superiority of intravitreal anti-VEGF agents relative to intravitreal steroids for the treatment of ME secondary to RVO with regards to visual acuity, anatomic outcomes, and safety endpoints.
DOI: 10.6084/m9.figshare.28000340.v1
title: Oil field environmental factor data.xlsx

description: Data of environmental factors in oil - polluted site investigations, including pH, EC, TOC (dissolved organic carbon), iron content, total petroleum hydrocarbon content, etc. Forty - four samples are from Shengli Oilfield, and forty - three samples are from Dagang Oilfield.
DOI: 10.6084/m9.figshare.28194080.v1
title: TRANSCRIPTS. ChatGPT and Employability Perceptions in Higher Education: A Qualitative Study on Soft Skills

description: Generative Artificial Intelligence (AI) tools like ChatGPT are transforming the development of essential soft skills, particularly complex problem solving, critical thinking, and creativity, in higher education. This study examines the impact of using and not using ChatGPT on university students' perceptions of employability and their readiness for a technology-driven labor market. Adopting a qualitative approach, the research involved 32 students from the Faculty of Commerce and Tourism at Complutense University of Madrid. Data were collected through an 800-word contingency plan task and eight focus groups, divided equally between ChatGPT users and non-users. Thematic analysis was conducted using Grounded Theory and Atlas.ti software to identify emergent patterns and categories. Findings indicate that ChatGPT use enhances time efficiency, adaptability, and AI-assisted creativity, while non-use fosters originality, ethical reasoning, and teamwork. These insights underscore the complementary roles of technology and human-centered skills, offering evidence to support balanced educational strategies. The study advocates for integrating AI tools into university curricula to address the dynamic needs of the workforce while preserving essential interpersonal skills.<br>
DOI: 10.25573/data.13491792.v1
title: Individual Replicate Dataset

description: CHIIMP output data form the individual PCR replicate dataset.
DOI: 10.6084/m9.figshare.6682808.v1
title: Supplementary Material for: Patterns of Erythropoiesis-Stimulating Agent Use in European Hemodialysis Patients: The Dialysis Outcomes and Practice Patterns Study

description: <b><i>Background:</i></b> Clinicians providing dialysis care have numerous erythropoiesis-stimulating agents (ESAs) available for treating anemia. We sought to provide a contemporary description of ESA types used in hemodialysis (HD) settings in nine European countries. <b><i>Methods:</i></b> Our study uses Dialysis Outcomes and Practice Patterns Study phase 5 (2012–2015) data from nine European countries (Belgium, France, ­Germany, Italy, Russia, Spain, Sweden, Turkey, and the United Kingdom). A total of 164 facilities and 3,281 patients contributed cross-sectional data. ESA types captured included short-acting epoetins (e.g., epoetin alfa, beta, etc., including biosimilars), darbepoetin alfa, and continuous erythropoietin receptor agonist (CERA; methoxy polyethylene glycol-epoetin beta). <b><i>Results:</i></b> We observed broad variability across countries in prescription of ESA types: prescription of epoetin alfa or epoetin beta ranged from 22% (France) to 78% (Russia), darbepoetin alfa prescription ranged from 13% (Russia) to 53% (UK), and CERA prescription ranged from &lt;3% (Sweden) to 26% (France). Prescription of different ESA types varied substantially within some European countries from 2012–2015 but not across all countries in aggregate. Number of ESA types prescribed by a facility varied from 1, 2, 3, or 4 different ESA types in 32, 40, 21, and 8% of facilities, respectively. No differences were seen in the unadjusted distributions of achieved hemoglobin values by ESA type. <b><i>Conclusion:</i></b> A variety of short- and long-acting ESAs are commonly used in European HD facilities to maintain hemoglobin at remarkably similar levels with each ESA type. The availability of numerous ESA options for managing anemia has allowed European providers to optimize anemia management according to the particular circumstances of each patient.
DOI: 10.6084/m9.figshare.8866271.v1
title: Lacertidae - physiology and occurrence datasets

description: Tables with raw data (as tab-delimited text):<br>- Curated database with locality records of lizards of the family Lacertidae- Original experimental measurement data of preferred temperature (Tpref) of lacertid lizards- Original experimental measurement data of evaporative water loss of lacertid lizards<br>
DOI: 10.6084/m9.figshare.21802314.v2
title: Folder of dataset.zip

description: Dataset