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3,919 results for “cohort”
Dataset Methods for stratification and validation cohorts: a scoping review
<p>We searched PubMed, EMBASE and the Cochrane Library for reviews that described the tools and methods applied to define cohorts used for patient stratification or validation of patient clustering. We focused on cancer, stroke, and Alzheimer’s disease (AD) and limited the searches to reports in English, French, German, Italian and Spanish, published from 2005 to April 2020. Two authors screened the records, and one extracted the key information from each included review. The result of the screening process was reported through a PRISMA flowchart.</p>
Dyregulated miRNA isoforms across TCGA and TARGET cohorts
<p>The table reports the complete list of dysregulated miRNA isoform molecules across cohorts/cancer tissues, retained according to a |<em>linear fold change</em>| >1.5 and an <em>FDR adjusted p-value</em> <0.05.</p>
ICU post- discharge persistent symptoms, self-reported health and quality of life of COVID-19 survivors: A cohort study.
<p> </p> <p>Understanding the consequences and health impact of COVID-19 survivors discharged from the ICU is still unclear. The aim of this study was to investigated persistent symptoms, health satisfaction and health related quality of life (HRQoL) of patients that were hospitalized due COVID-19 infection after 30, 90 and 180 days from ICU discharge. This is a multicentric prospective cohort study of COVID-19 survivors discharged from 8 hospitals of Curitiba – Paraná (Brazil), between September 2020 and January 2022. Eligible COVID 19 survivors were contacted by phone and invited to answer telephone survey at 30, 90 and 180 days after ICU discharge. They responded a phone questionnaire to collect post-discharge clinical symptoms, and we also asked about health satisfaction and HRQoL. 62 COVID-19 survivors (51,6% males, mean age 50,3 years, median length of ICU stay of 13 days) responded to the telephone survey at 30, 90 and 180 days. The most persistent symptoms were fatigue (65,9%, 51,3%, 44,7%, respectively), mild dyspnea (42%, 31%, 29,8%, respectively) and myalgia (29%, 22,1%, 17%, respectively). Myalgia showed a significant reduction from 30 days to 180 days (p=0,034), and the number of symptoms also reduced significantly (30 to 90 days, <em>p=0.018</em>, 30 to 180 days<em>, p=0.001 </em>). At 30, 90 and 180 follow up days the most patients had reported “good” quality of life (59,7%, 62,9%, 51,6%, respectively), and “satisfied” with health (43,5%, 48,4%, 46,8%, respectively). We found that COVID-19 symptoms persist to 180 days, fatigue more commonly. Nevertheless, in this cohort study, most COVID-19 survivors reported good quality of life and were satisfied with health.</p>
LD matrices from the White British cohort in the UK Biobank in Zarr format
<p>This dataset contains the Linkage Disequilibrium (LD) matrices that were used in the analyses described in the manuscript:</p> <p><strong>Fast and Accurate Bayesian Polygenic Risk Modeling with Variational Inference</strong><br> Shadi Zabad, Simon Gravel, Yue Li<br> McGill University</p> <p>LD matrices record the SNP-by-SNP correlations in a given sample of individuals from a general population. In this case, we threshold the matrices so that we only record the correlations between SNPs that are at most 3 centi Morgan apart. These matrices record the SNP correlations in a random sample of 50,000 individuals from the White British cohort in the UK Biobank dataset. There is one matrix per autosomal chromosome (chr_1, chr_2, ..., chr_22). The matrices are stored in <a href="https://zarr.readthedocs.io/en/stable/">Zarr</a> format, a chunked on-disk array storage format that allows for multi-threaded read and write access.</p> <p>To access these matrices, consult the codebase of <a href="https://github.com/shz9/magenpy"><strong>magenpy</strong></a>, our custom python package with special data structures for processing these LD matrices.</p> <p>UPDATE (03/09/2022): We updated the matrices to add the reference allele attribute (A2) and we also now have one tar archive per chromosome.<br> </p>
Data from: The MRi-Share database: Brain imaging in a cross-sectional cohort of 1,870 university students
<p>We report on MRi-Share, a multi-modal brain MRI database acquired in a unique sample of 1,870 young healthy adults, aged 18 to 35 years, while undergoing university-level education. MRi-Share contains structural (T1 and FLAIR), diffusion (multispectral), susceptibility weighted (SWI), and resting-state functional imaging modalities. Here, we described the contents of these different neuroimaging datasets and the processing pipelines used to derive brain phenotypes, as well as how quality control was assessed. In addition, we present preliminary results on associations of some of these brain image-derived phenotypes at the whole brain level with both age and sex, in the subsample of 1,722 individuals aged less than 26 years. We demonstrate that the post-adolescence period is characterized by changes in both structural and microstructural brain phenotypes. Grey matter cortical thickness, surface area and volume were found to decrease with age, while white matter volume shows increase. Diffusivity, either radial or axial, was found to robustly decrease with age whereas fractional anisotropy only slightly increased. As for the neurite orientation dispersion and densities, both were found to increase with age. The isotropic volume fraction also showed a slight increase with age. These preliminary findings emphasize the complexity of changes in brain structure and function occurring in this critical period at the interface of late maturation and early aging.</p>
Supplementary Tables for "Immune cell-specific smoking-related expression characteristics are revealed by re-analysis of transcriptomes from the CEDAR cohort"
<p>Supplementary Tables from "Immune cell-specific smoking-related expression characteristics are revealed by re-analysis of transcriptomes from the CEDAR cohort".</p>
Association of Body Index with Fecal Microbiome in Children Cohorts with Ethnic-Geographic Factor Interaction: Accurately Using a Bayesian Zero-inflated Negative Binomial Regression Model
<p>this dataset are “ssociation of Body Index with Fecal Microbiome in Children Cohorts with Ethnic-Geographic Factor Interaction: Accurately Using a Bayesian Zero-inflated Negative Binomial Regression Model” Supplementary Material.</p>
Mothers of twins had higher old-age survival than mothers of singletons in Estonian 19th-century birth cohorts
<p><strong><span>Study question:</span></strong><span> Do the mothers of twins and singletons differ regarding post-partum and old-age mortality?</span></p> <p><span> </span><strong><span>Summary answer:</span></strong><span> M</span><span>others of twins had twice as high post-partum mortality as mothers of singletons; survival of twinners was higher than survival of the mothers of singletons after the 67<sup>th </sup>lifespan percentile.</span></p> <p><strong><span>What is known already:</span></strong><span> Twinning is typically associated with higher post-partum maternal mortality. The evidence about whether twinning incurs long-term survival costs of reproduction or is a trait pertinent to long-lived women is scarce and contradictory.</span></p> <p><strong><span>Study design, size, duration:</span></strong><span> The study is based on the data of the Estonian Family Register (operating from 1926-43) and involves 5 565 mothers of twins and 119 613 mothers of singletons born between 1850-99. The subset for comparing maternal lifespans included 1 703 – 1 884 mothers of twins and </span><span>19 747 </span><span>– 36 690 mothers of singletons.</span></p> <p><strong><span>Participants/materials, setting, methods:</span></strong><span> Post-partum maternal mortality was analysed in the whole sample (including mothers of a single child) by logistic regression. Most of the analyses were performed in samples where each mother of twins was matched against mothers of singletons based on parity, urban versus rural origin, whether their lifespan was known, date of birth and age at first birth. Quantile regression was used to analyse age-dependent variations in maternal mortality rates. Lifespans were compared in linear mixed models. All models were adjusted for relevant biodemographic covariates.</span></p> <p><strong><span>Main results and the role of chance:</span></strong><span> The twinning rate in the whole sample was 4.4%. During the year after giving birth, maternal mortality for multiple gestations was 0.75% (17/2 273) and 0.37% (</span><span>449</span><span>/</span><span>122 750)</span><span> for single gestations (OR = 2.05, 95% CI = 1.21 – 3.23). The association between twinning and post-natal maternal mortality remained significant in a model controlling for parity and age of first and last birth. The life spans of the mothers of twins and singletons did not differ in matched samples. Past the 67<sup>th</sup> lifespan percentile, the odds of survival were significantly higher for mothers of twins than mothers of singletons, as indicated by non-overlapping 95% confidence intervals.</span></p> <p><strong><span>Limitations, reasons for caution: </span></strong><span>Relatively low number of individuals (22 802) with known age at death due to discontinuation of the register after 1943.</span></p>
Fig. 1 in Morphometric Criteria For Distinguishing Species And Age-Cohorts Of Ermine (Mustela Erminea) And Long-Tailed Weasel (M. Frenata)
Fig. 1. Distribution of ermine (left) and long-tailed weasel (right) species in North America (adapted from FAGERSTONE 1987). Inset shows long-tailed weasel distribution in Mexico and Central America;
FIGURE 2 in Zygoparity in Characidae - the first case of internal fertilization in the teleost cohort Otomorpha
FIGURE 2 | Oocyte and fertilized eggs of Compsura heterura. A. Unfertilized oocyte in ovary (follicle); B. fertilized egg in ovary (ovarian lumen) and C. gonoduct (Od); D. fertilized spawned egg. Yg, yolk granules; Ca, cortical alveoli; asterisk, chorion; Fe, follicular epithelium; N, nucleus; n, nucleoli; Y, yolk; Cc, cortical cytoplasm; Ps, perivitelline space; arrow, micropyle; Vp, vegetative poles; Ap, animal poles; In, intestine; M, muscle tissue.
Fig. 2 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 2. Cloth wrapping used to cage beech trunk section in 2012 at Gulelebi Forest in Georgia where one part of the scale cohort survival study was conducted.
Fig. 6 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 6. Comparative cumulative day-degrees for Tianeti in the country of Georgia (cum DD GEO) and Windsor, Massachusetts, USA (cum DD MA), each in the years in which phenological observations on beech scale were made at the 2 locations.
Fig. 5 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 5. Phenology of life stages of beech scale in Massachusetts (USA) (Notchview Reservation, property of Trustees of Reservations, Windsor, 2013), showing univoltine cycle, with settled crawlers being the overwintering stage.
Fig. 4 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 4. Phenology of life stages of beech scale in Georgia (Gulelebi Forest, Tianeti District, 2011), showing bivoltine cycle, with adult females being the overwintering stage.
Fig. 3 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 3. (a) Example of trunk cages made from small Petri dishes (with an open bottom) that were used to isolate scale patches in Massachusetts. (b) Patches of beech scale initiated by delimiting groups (<50) of newly settled crawlers with top patch (defined by black circle marked on bark) lef uncaged, whereas lower patch was caged (caged removed here) from Oct 2011 to Oct 2012 (1 scale generation) at which time scales were a mixture of adults and crawlers of the next generation; done on American beech at Notchview Reservation (property of Trustees of Reservations), Windsor, Massachusetts, USA. Note the greater number of large white woolly dots (adults of the test generation) in the bottom circle, suggesting significant mortality due to factors, like generalist predators, that were excluded by the cages.
Fig. 1 in Comparative phenology and cohort survival of beech scale (Hemiptera: Eriococcidae) in part of its native range (Caucasus Mountains, Georgia) and in an invaded area (Massachusetts, USA)
Fig. 1. Sites in Georgia where studies were conducted. Site 1 (Gulelebi Forest) was used in 2011 for the phenology observations, and sites 2 (Gombori) and 3 (Lagodekhi) were used for the cohort survival experiment in 2012.
Brazilian Cohort for Predicting Cardiovascular Events Using Machine Learning (PRE-CARE ML project)
<p>The project PRE-CARE ML addresses the development and internal and external validation of predictive models for the assessment of risks of major adverse cardiovascular events. </p> <p>Global and local interpretability analyses of predictions were conducted towards improving model reliability and tailoring preventive interventions. </p> <p>The models were trained and validated in a retrospective cohort with the use of data from Hospital das Clínicas da Faculdade de Medicina de Ribeirao Preto, Brazil</p> <p>The International Classification of Diseases (ICD-10) classified patients with MACE (case group). (see Table I for the ICD-10 codes that defined MACE).</p> <p>Table 1: ICD-10 Codees for MACE definition</p> <table> <tbody> <tr> <td><strong>ICD-10</strong></td> <td><strong>Description</strong></td> </tr> <tr> <td>I20</td> <td>Angina pectoris</td> </tr> <tr> <td>I21</td> <td>Acute myocardial infarction</td> </tr> <tr> <td>I24</td> <td>Other acute ischaemic heart diseases</td> </tr> <tr> <td>I46</td> <td>Cardiac arrest</td> </tr> <tr> <td>I63</td> <td>Cerebral infarction</td> </tr> <tr> <td>I64</td> <td>Stroke, not specified as hemorrhage or infarction</td> </tr> <tr> <td>I71</td> <td>Aortic aneurysm and dissection</td> </tr> <tr> <td>I74</td> <td>Arterial embolism and thrombosis</td> </tr> </tbody> </table> <p>Only a patient’s first MACE was considered, and all previous hospitalizations within a 5-year window were considered MACE. The control group (non-MACE) involved hospitalizations with no MACE and no death within a 5-year window (between 2017 and 2022). A sample of 6,000 MACE (labeled as 1) cases and 12,000 non-MACE (labeled as 0) ones was constructed with data from HCFMRP for training and internal validation purposes. Another balanced MIMIC IV sample of 8,000 MACE cases and 8,000 nonMACE cases was used for external validation.</p>
Dataset Validation of seven type 2 diabetes mellitus risk scores in a population-based cohort. The CoLaus Study
<p>This dataset is related to "Validation of seven type 2 diabetes mellitus risk scores in a population-based cohort. The CoLaus Study".</p> <p>Vanessa Kraege*, Janko Fabecic*, Pedro Marques Vidal, Gérard Waeber and Marie Méan</p> <p>*Contributed equally; co-first authors</p>
Supporting data and code for: Demographic and genetic impacts of powdery mildew in a young oak cohort
<p>This is a new release following the submission of the related PCI recommended manuscript to the <em>Annals of Forest Science</em> journal. It contains the necessary scripts to produce most of the analyses and figures of the manuscript. Apart from minor modifications following the recommendation in '<em>PCI Forest and Wood Sciences</em>', the main change is the addition of an extra dataset "Data_S2.txt" to the additional datasets. This dataset was previously included as a table in the 'supplementary material' file.</p>
Simulated Real Measure Data In a Birth Cohort
<pre><span>These data mimic what we can find when observing fetal growth using ultrasounds. </span></pre> <pre><span>They are not observed at the same moments in time for each mother-fetus binomial or in the same number of times. </span></pre> <pre><span>They are data simulated through a transformation of the Wiener process to the non-homogeneous lognormal diffusion process called Gompertz-lognormal.</span></pre>
ScienceDex guides
Understand access before you commit
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.