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556 results for “Meta Data”
Identification of RCC subtype-specific microRNAs – meta-analysis of high-throughput RCC tumor microRNA expression data [miRNA-Seq]
GEO Series GSE151423. Homo sapiens. 32 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Microarray gene-expression data to validate a 17-gene biomarker obtained from excessive meta-analysis to test its PDAC specificity in the presence of pancreatitis tissues.
GEO Series GSE101462. Homo sapiens. 20 samples. Type: Expression profiling by array.
Iron and Organic Carbon Colloids in Boreal Rivers and their Fate at high Salinity: Meta data
<p>Meta data to the article Iron and Organic Carbon Colloids in Boreal Rivers and their Fate at high Salinity in the Journal of Geophysical Research - Biogeosciences. Both raw data and processed data used for the figures are attched. </p>
Data from: Assessment of grain quality in terms of functional group response to elevated [CO2], water and nitrogen using a meta-analysis: Grain protein, zinc and iron under future climate
The increasing [CO2] in the atmosphere increases crop productivity. However, grain quality of cereals and pulses are substantially decreased and consequently compromise human health. Meta-analysis techniques were employed to investigate the effect of elevated [CO2] (e[CO2]) on protein, zinc (Zn) and iron (Fe) concentrations of major food crops (542 experimental observations from 135 studies) including wheat, rice, soybean, field peas and corn considering different levels of water and nitrogen (N). Each crop, except soybean, had decreased protein, Zn and Fe concentrations when grown at e[CO2] concentration ( ≥550 μmol mol-1) compared ambient [CO2] (a[CO2]) concentration (≤ 380 μmol mol-1). Grain protein, Zn and Fe concentrations were reduced under e[CO2], however, the responses of protein, Zn and Fe concentrations to e[CO2 ] were modified by water stress and N. There was an increase in Fe concentration in soybean under medium N and wet conditions but non-significant. The reductions in protein concentrations for wheat and rice were ~ 5-10%, and the reductions in Zn and Fe concentrations were ~ 3-12%. For soybean, there was a small and non-significant increase of 0.37% in its protein concentration under medium N and dry water, while Zn and Fe concentrations were reduced by ~ 2-5%. The protein concentration of field peas decreased by 1.7%, and the reductions in Zn and Fe concentrations were ~ 4-10%. The reductions in protein, Zn and Fe concentrations of corn were ~ 5-10%. Bias in the dataset was assessed using a regression test and rank correlation. The analysis indicated that there are medium levels of bias within published meta-analysis studies of crops responses to Free Air [CO2]Enrichment (FACE). However, the integration of the influence of reporting bias did not affect the significance or the direction of the [CO2] effects.
Data from: Headache after ischemic stroke: a systematic review and meta-analysis
Objective: Headache associated with ischemic stroke is poorly understood. To gain further insight, we systematically reviewed studies examining the prevalence and characteristics of new onset post-stroke headache. Methods: Medline and PubMed databases were queried. 1812 articles were identified. Of these, 50 were included in this systematic review. Twenty were included in a meta-analysis and meta-regression. Results: Headache occurred in 6-44% of the ischemic stroke population. Most headaches had tension-type features, were moderate to severe and became chronic in nature. Meta-analysis using an inverse-variance heterogeneity model revealed a pooled prevalence of 0.14 (95%CI 0.07 – 0.23) with heterogeneity among studies. Meta-regression revealed a significant association between prevalence and study location, the source population's national human development index (HDI), and study quality. We found higher prevalence in European (0.22, 95%CI 0.14 – 0.30) and North American (0.15, 95% CI 0.05 – 0.26) studies compared with Middle eastern and Asian studies (0.08, 95% CI 0.01 – 0.18). However, within each region, populations from countries with higher HDI (p=0.03) and studies with higher quality (p=0.001) had lower prevalence. Calculated crude odds ratios showed that posterior circulation stroke (pooled OR 1.92, 95%CI 1.4-2.64; n=7 studies) and female sex (pooled OR 1.25, 95%CI 1.07-1.46; n=11 studies) had greater odds of headache associated with ischemic stroke. Conclusions: Taken together, these data suggest that headache is common at the onset of or shortly following ischemic stroke and may contribute to post-stroke morbidity. Better understanding of headache associated with ischemic stroke is needed to establish treatment guidelines and inform patient management.
Data from: Safety and efficacy of dual antiplatelet pretreatment in ischemic stroke patients treated with intravenous thrombolysis: a systematic review and meta-analysis
Objective: Conflicting data exist regarding the safety and efficacy of IV thrombolysis (IVT) in acute ischemic stroke (AIS) patients receiving dual antiplatelet pretreatment (DAPP). The aim of the present systematic review and meta-analysis is to assess the safety and outcome of DAPP history among AIS patients treated with IVT. Methods: We performed a comprehensive literature review to identify studies that investigated the safety and efficacy of DAPP among AIS patients treated with IVT. Results: We identified 9 studies comprising 66,675 patients. In unadjusted analyses, DAPP was associated with higher likelihood of pooled symptomatic intracranial hemorrhage (sICH, OR = 2.26, 95% CI 1.39–3.67) and 3-month mortality (OR = 1.47, 95% CI 1.27–1.73). DAPP was also related to higher odds of sICH according to SITS-MOST (OR = 2.71, 95% CI 2.05–3.59), ECASS II (OR=2.23, 95% CI 1.46–3.40) and NINDS (OR=1.59, 95% CI 1.38–1.83) definitions. There was no association between DAPP and 3-month favorable functional outcome (FFO, mRS 0-1), and 3-month functional independence (FI, mRS 0-2). In adjusted analyses, history of DAPP was not associated with pooled sICH (OR=2.03, 95% CI 0.75–5.25), 3-month mortality (OR=1.11, 95% CI 0.87–1.40), 3-month FFO (OR=0.92, 95% CI 0.77–1.09), and 3-month FI (OR=1.01, 95% CI 0.89–1.15). Conclusions: After adjustment for potential confounders DAPP appears not to be associated with higher risk of adverse outcomes in AIS patients treated with IVT.
Subjective Test Dataset and Meta-data-based Models for 360° Streaming Video Quality
<p>During the last years, the number of 360° videos available for streaming has rapidly increased, leading to the<br> need for 360° streaming video quality assessment. In this paper, we report and publish results of three subjective 360° video<br> quality tests, with conditions used to reflect real-world bitrates and resolutions including 4K, 6K and 8K, resulting in 64 stimuli<br> each for the first two tests and 63 for the third. As playout device we used the HTC Vive for the first and HTC Vive Pro<br> for the remaining two tests. Video-quality ratings were collected using the 5-point Absolute Category Rating scale. The 360°<br> dataset provided with the paper contains the links of the used source videos, the raw subjective scores, video-related meta-data,<br> head rotation data and Simulator Sickness Questionnaire results per stimulus and per subject to enable reproducibility of the<br> provided results. Moreover, we use our dataset to compare the performance of state-of-the-art full-reference quality metrics such<br> as VMAF, PSNR, SSIM, ADM2, WS-PSNR and WS-SSIM. Out of all metrics, VMAF was found to show the highest correlation<br> with the subjective scores. Further, we evaluated a center-cropped version of VMAF ("VMAF-cc") that showed to provide a similar<br> performance as the full VMAF. In addition to the dataset and the objective metric evaluation, we propose two new video-quality<br> prediction models, a bitstream meta-data-based model and a hybrid no-reference model using bitrate, resolution and pixel<br> information of the video as input. The new lightweight models provide similar performance as the full-reference models while<br> enabling fast calculations.</p>
Meta-control in pigeons individual data
<p>In situations where the two sides of the brain process contradicting information that leads to incompatible response options, the brain requires efficient conflict-solving mechanisms. Such conflicts can arise particularly in lateralized brains, in which the hemispheres differ in coding strategies or in focus of attention and hence, consider different information for decision-making. Meta-control, in which one hemisphere constantly dominates response selection independent from its processing competence, can be a mechanism, which minimizes interhemispheric interferences and ensures fast behavioral reactions. We therefore confronted pigeons with a task in which two stimulus classes were brought into conflict. In this situation, pigeons display individual meta-control despite equal categorization performances of both brain hemispheres. Thus, hemispheric dominance arises specifically in interhemispheric conflict situations. As a signature of the underlying neuronal mechanisms, analysis of response latencies indicate that conflict decisions rely on intrahemispheric processes. Interhemispheric components play a role for more complex decisions when the left and right hemispheres adopt differential analysis strategies for decision-making. Such a flexible use of different neural mechanisms could enable a dynamic recruitment of hemispherical-specific neuronal circuits depending on computational or environmental demands and could thus be a crucial building block for the evolutionary success of a lateralized brain.</p>
Data from: The effect of funding sources on donepezil randomised controlled trial outcome: a meta-analysis
Objective: To investigate whether there is a difference in the treatment effect of donepezil on cognition in Alzheimer disease between industry-funded and independent randomised controlled trials. Design: Fixed effects meta-analysis of standardised effects of donepezil on cognition as measured by the Mini Mental State Examination and the Alzheimer's Disease Assessment Scale-cognitive subscale. Data sources: Studies included in the meta-analyses reported in the National Institute for Health and Care Excellence (NICE) technical appraisal 217 updated with new studies through a PubMed search. Eligibility criteria: Inclusion criteria were double-blind, placebo-controlled trials of any length comparing patients diagnosed with probable Alzheimer disease (according to the NINCDS-ADRDA/DSM-III/IV criteria) taking any dosage of donepezil. Studies of combination therapies (eg, donepezil and memantine) were excluded, as were studies that enrolled patients with a diagnosis of Alzheimer disease associated with other disorders (eg, Parkinson's disease and Down's syndrome). Results: Our search strategy identified 14 relevant trials (4 independent) with suitable data. Trials sponsored by pharmaceutical companies reported a larger effect of donepezil on standardised cognitive tests than trials published by independent research groups (standardised mean difference (SMD)=0.46, 95% CI 0.37 to 0.55 vs SMD=0.33, 95% CI 0.18 to 0.48, respectively). This difference remained when only data representing change up to 12 weeks from baseline were analysed (industry SMD=0.44, 95% CI 0.34 to 0.53 vs independent SMD=0.35, 95% CI 0.18 to 0.52). Analysis revealed that the effect of funding as a moderator variable of study heterogeneity was not statistically significant at either time point. Conclusions: The effect size of donepezil on cognition is larger in industry-funded than independent trials and this is not explained by the longer duration of industry-funded trials. The lack of a statistically significant moderator effect may indicate that the differences are due to chance, but may also result from lack of power.
Data from: Genome-wide meta-analysis of sciatica in Finnish population
Sciatica or the sciatic syndrome is a common and often disabling low back disorder in the working-age population. It has a relatively high heritability but poorly understood molecular mechanisms. The Finnish population is a genetic isolate where small founder population and bottleneck events have led to enrichment of certain rare and low frequency variants. We performed here the first genome-wide association (GWAS) and meta-analysis of sciatica. The meta-analysis was conducted across two GWAS covering 291 Finnish sciatica cases and 3671 controls genotyped and imputed at 7.7 million autosomal variants. The most promising loci (p<1x10-6) were replicated in 776 Finnish sciatica patients and 18,489 controls. We identified five intragenic variants, with relatively low frequencies, at two novel loci associated with sciatica at genome-wide significance. These included chr9:14344410:I (rs71321981) at 9p22.3 (NFIB gene; p=1.30x10-8, MAF=0.08) and four variants at 15q21.2: rs145901849, rs80035109, rs190200374 and rs117458827 (MYO5A; p=1.34x10-8, MAF=0.06; p=2.32x10-8, MAF=0.07; p=3.85x10-8, MAF=0.06; p=4.78x10-8, MAF=0.07, respectively). The most significant association in the meta-analysis, a single base insertion rs71321981 within the regulatory region of the transcription factor NFIB, replicated in an independent Finnish population sample (p=0.04). Despite identifying 15q21.2 as a promising locus, we were not able to replicate it. It was differentiated; the lead variants within 15q21.2 were more frequent in Finland (6-7%) than in other European populations (1-2%). Imputation accuracies of the three significantly associated variants (chr9:14344410:I, rs190200374, and rs80035109) were validated by genotyping. In summary, our results suggest a novel locus, 9p22.3 (NFIB), which may be involved in susceptibility to sciatica. In addition, another locus, 15q21.2, emerged as a promising one, but failed to replicate.
Data from: How quantitative is metabarcoding: a meta-analytical approach
Metabarcoding has been used in a range of ecological applications such as taxonomic assignment, dietary analysis, and the analysis of environmental DNA. However, after a decade of use in these applications there is little consensus on the extent to which proportions of reads generated corresponds to the original proportions of species in a community. To quantify our current understanding we conducted a structured review and meta-analysis. The analysis suggests that a weak quantitative relationship may exist between the biomass and sequences produced (slope =0.52 ±0.34, p<0.01)), albeit it with a large degree of uncertainty. None of the tested moderators: sequencing platform type, the number of species used in a trial, or the source of DNA were able to explain the variance. Our current understanding of the factors affecting the quantitative performance of metabarcoding is still limited: additional research is required before metabarcoding can be confidently utilised for quantitative applications. Until then, we advocate the inclusion of mock communities when metabarcoding as this facilitates direct assessment of the quantitative ability of any given study.
Screening of 452 hit enrichment compounds for anti-SARS-CoV-2 activity meta data
<p>This short report describes the most relevant results of screening selected compounds from the Janssen Pharmaceutica compound collection in a VeroE6 cell-based anti-SARS-CoV-2 assay.</p>
Data from: Does non-invasive brain stimulation modify hand dexterity? Protocol for a systematic review and meta-analysis
[No abstract entered]
Data and results for Cochrane systematic review and network meta-analysis on ascites
<p>Please download the file, unzip the file, and read the instructions before use.</p>
Data from: WMH and long-term outcomes in ischemic stroke: a systematic review and meta-analysis
OBJECTIVE: To investigate the relationship between baseline white matter hyperintensities (WMH) in patients with ischemic stroke and long-term risk of dementia, functional impairment, recurrent stroke, and mortality. METHODS: Following the MOOSE and PRISMA guidelines (PROSPERO protocol: CRD42018092857), we systematically searched Medline and Scopus for cohort studies of ischemic stroke patients examining whether MRI- or CT-assessed WMH at baseline are associated with dementia, functional impairment, recurrent stroke, and mortality at 3 months or later post-stroke. We extracted data and evaluated study quality with the Newcastle-Ottawa scale. We pooled relative risks (RR) for the presence and severity of WMH using random-effects models. RESULTS: We included 104 studies with 71,298 ischemic stroke patients. Moderate/severe WMH at baseline were associated with increased risk of dementia (RR: 2.17, 95%CI: 1.72-2.73), cognitive impairment (RR: 2.29, 95%CI: 1.48-3.54), functional impairment (RR: 2.21, 95%CI: 1.83-2.67), any recurrent stroke (RR: 1.65, 95%CI: 1.36-2.01), recurrent ischemic stroke (RR: 1.90, 95%CI: 1.26-2.88), all-cause mortality (RR: 1.72, 95%CI: 1.47-2.01), and cardiovascular mortality (RR: 2.02, 95%CI: 1.44-2.83). The associations followed dose-response patterns for WMH severity and were consistent for both MRI- and CT-defined WMH. The results remained stable in sensitivity analyses adjusting for age, stroke severity, and cardiovascular risk factors, in analyses of studies scoring high in quality, and in analyses adjusted for publication bias. CONCLUSIONS: Presence and severity of WMH are associated with substantially increased risk of dementia, functional impairment, stroke recurrence, and mortality after ischemic stroke. WMH may aid clinical prognostication and the planning of future clinical trials.
Meta analysis data and fitness-related trait values
<ol> <li class="Default"><span><span>Crop-wild gene flow may alter the fitness performance of the recipient i.e. crop-wild hybrids, then potentially impact wild populations, especially for the gene flow carrying selective advantage crop alleles. Given the continuous crop-wild gene flow since crop domestication and the occasionally stressful environments, the extant wild populations of most crops are still "wild". This paradox hints some mechanisms may mitigate the effects of crop-wild gene flow but never been examined. </span></span></li> <li class="Default"><span><span>We used wild rice (<i>O. rufipogon</i>) and transgenic (<i>Bt/CpTI) </i>rice as a crop-wild gene flow model and established cultivated, wild and hybrid rice populations (<i>O. rufipogon </i>× <i><span>O. sativa</span></i>) under four levels of <span>insect </span>(<i>Chilo suppressalis</i>) pressure. Then, we measured the fitness performance of the plants.</span></span></li> <li class="Default"><span><span>The fitness performance of all plants varied with the insect pressure level; wild plants <span>displayed over- or equal-compensatory </span>responses<span> to insect damage</span>,<span> whereas hybrids exhibited under-compensatory </span>responses, showing wild plants have higher insect-tolerance. The high tolerance results in better performance of wild rice under stressful conditions, while transgenes expressed a beneficial<span> effect on </span>plant<span> performance only under certain levels of insect pressure</span>. <span>Hybrid advantage is remarkable. Transgenes and hybrid advantage may increase hybrid fitness, but such effect is reduced by tolerance under stressful environments.</span></span></span></li> <li class="Default"><span><span><i><span>Synthesis. </span></i><span>These results </span>suggest<span> that high tolerance to environmental stress is a mechanism mitigating </span>the impacts of crop gene flow on<span> wild </span>plants by weakening hybrid fitness performance.</span></span></li> </ol>
16S rRNA sequences of gut microbiome and meta data
<p><b>Objective:</b>To understand the role of gut microbiome in influencing the pathogenesis of neuromyelitis optica spectrum disorders (NMOSD)among patients of south Indian origin.</p> <p><b>Methods:</b>In this case control study, stool and blood samples were collected from 39 NMOSD patients, including 17 with aquaporin 4 IgG antibodies (AQP4+) and 36 matched controls. 16S rRNA sequencing was used to investigate the gut microbiome. Peripheral CD4+ T cells were sorted in 12 healthy controls & 12 AQP4+NMOSD patients, RNA extracted, and immune gene expression analyzed using Nanostring nCounter human immunology kit code set.</p> <p><b>Results: </b>Microbiota community structure (beta-diversity) differed between AQP4+ NMOSD and healthy controls (p <0.001, pairwise PERMANOVA test). Linear discriminatory analysis effect size (LEfSe) identified several members of the microbiota that were altered in NMOSD patients, including an increase in <i>Clostridium bolteae </i>(effect size 4.23, pvalue 0.00007). <i>C.bolteae </i>was significantly more prevalent (p=0.02) amongAQP4-IgG + NMOSD (n= 8/17 subjects)compared to seronegative patients (n= 3/22) and was absent among healthy stool samples.<i>C bolteae </i>has a highly conserved glycerol uptake facilitator and related aquaporin protein(p59-71) that shares sequence homology with AQP4 peptide(p92-104), positioned within an immunodominant (AQP4specific)T cell epitope (p91-110).Presence of <i>C. bolteae</i> correlated with expression of inflammatory genes associated with both innate and adaptive immunity and particularly involved in plasma cell differentiation ,B cell chemotaxis and Th17 activation.</p> <p><b>Conclusion: </b>Our study described elevated levels of <i>C. bolteae </i>associated with AQP4+ NMOSD among Indian patients. It is possible that this organism may be causally related to the immunopathogenesis of this disease in susceptible individuals.</p> <p><b>Objective:</b>To understand the role of gut microbiome in influencing the pathogenesis of neuromyelitis optica spectrum disorders (NMOSD)among patients of south Indian origin.</p> <p><b>Methods:</b>In this case control study, stool and blood samples were collected from 39 NMOSD patients, including 17 with aquaporin 4 IgG antibodies (AQP4+) and 36 matched controls. 16S rRNA sequencing was used to investigate the gut microbiome. Peripheral CD4+ T cells were sorted in 12 healthy controls & 12 AQP4+NMOSD patients, RNA extracted, and immune gene expression analyzed using Nanostring nCounter human immunology kit code set.</p> <p><b>Results: </b>Microbiota community structure (beta-diversity) differed between AQP4+ NMOSD and healthy controls (p <0.001, pairwise PERMANOVA test). Linear discriminatory analysis effect size (LEfSe) identified several members of the microbiota that were altered in NMOSD patients, including an increase in <i>Clostridium bolteae </i>(effect size 4.23, pvalue 0.00007). <i>C.bolteae </i>was significantly more prevalent (p=0.02) amongAQP4-IgG + NMOSD (n= 8/17 subjects)compared to seronegative patients (n= 3/22) and was absent among healthy stool samples.<i>C bolteae </i>has a highly conserved glycerol uptake facilitator and related aquaporin protein(p59-71) that shares sequence homology with AQP4 peptide(p92-104), positioned within an immunodominant (AQP4specific)T cell epitope (p91-110).Presence of <i>C. bolteae</i> correlated with expression of inflammatory genes associated with both innate and adaptive immunity and particularly involved in plasma cell differentiation ,B cell chemotaxis and Th17 activation.</p> <p><b>Conclusion: </b>Our study described elevated levels of <i>C. bolteae </i>associated with AQP4+ NMOSD among Indian patients. It is possible that this organism may be causally related to the immunopathogenesis of this disease in susceptible individuals.</p>
Nut Consumption and Prevention of Non-communicable Diseases: A Global Individual Participant Data Meta-analysis
ClinicalTrials.gov study NCT07205978. IPD Sharing: NO. Countries: 2. Publications: 0.
PROVIDENCE - Prospective Non-interventional Study (NIS) to Examine Patient-reported Outcomes and Real-world Clinical Data in Patients With HER2-positive, HER2-low or HER2-ultralow Unresectable or Meta
ClinicalTrials.gov study NCT05573893. IPD Sharing: YES. Countries: 1. Publications: 0.
Meta-analysis of Single-cell RNA-seq Data Reveals the Formation of Tertiary Lymphoid Organ and Mechanism Heterogeneity in Vascular Disease
GEO Series GSE234651. Mus musculus. 2 samples. Type: Expression profiling by high throughput sequencing.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.