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"CausalXtract: a flexible pipeline to extract causal effects from live-cell time-lapse imaging data" datasets
<p>Datasets from the article:</p> <p><strong>CausalXtract: a flexible pipeline to extract causal effects from live-cell time-lapse imaging data </strong></p> <p>by Franck Simon, Maria Colomba Comes, Tiziana Tocci, Louise Dupuis, Vincent Cabeli, Nikita Lagrange, Arianna Mencattini, Maria Carla Parrini, Eugenio Martinelli, Hervé Isambert.</p> <p> </p> <p>The <strong>original videos</strong> are uploaded as: "20161230.zip", "20170105.rar", "Video_2017_0517.zip".</p> <p><strong>Details </strong>for each <strong>experiment </strong>can be found in: "Experiments' details.zip".</p> <p>The <strong>ROIs </strong>(ROI: Region of Interest) are uploaded as .tif files in: "EXTRACTED ROIs.zip".</p> <p>The <strong>MATLAB data</strong> is uploaded in "MATLAB_DATA.rar" and includes: the cancer cells' trajectories (subfolder: "TUMOR TRAJECTORIES"), the immune cells' trajectories (subfolder: "IMMUNE TRAJECTORIES"), the ROIs videos as .mat files for the detection of cells (subfolder: "ROI MAT"), the ROIs further cropped for the extraction of shape descriptors (folder: "ROI_TU MAT"). The ROIs videos .mat files included in the last two subfolders are stopped after their apoptosis has been detected.</p>
Root litter decomposition is suppressed in species mixtures and in the presence of living roots
<p>Plant species diversity and identity can significantly modify litter decomposition, but the underlying mechanisms remain elusive, particularly for root litter. Here, we aimed to disentangle the mechanisms by which plant species diversity alters root litter decomposition We hypothesised that 1) interactions between species in mixed communities result in litter that decomposes faster than litter produced in monocultures; 2) litter decomposition is accelerated in the presence of living plants, especially when the litter and living plant identities are matched (known as home field advantage).</p> <p>Monocultures and a mixture of four common grassland species were established to obtain individual litter and a 'natural' root litter mixture. An 'artificial' mixed litter was created using litter from monocultures, mixed in the same proportions as the species composition in the natural litter mixtures based on qPCR measurements. These six root litter types were incubated in four monocultures, a four-species mixture, and an unplanted soil.</p> <p>Root decomposition was strongly affected by root litter identity and the presence, but not diversity, of living roots. Mixed-species litter decomposed slower than expected based on the decomposition of single-species litters. In addition, the presence of living roots suppressed decomposition independent of the match between litter and living plant identities. Decomposition was not significantly different between the 'natural' and 'artificial' root litter mixtures, indicating that root-root interactions in species mixtures did not affect root chemical quality.</p> <p>Synthesis: Suppressed decomposition in the presence of living roots indicates that interactions between microbial communities associated with living roots and root litter control root litter decomposition. As we found no support for the importance of home field advantage or interspecific root interactions in modifying decomposition, suppressed decomposition of mixed-species litter seems to be primarily driven by chemical rather than biotic interactions.</p>
Phylogenetic classification of living and fossil ray-finned fishes (Actinopterygii)
<p>Classification of the tremendous diversity of ray-finned fishes (Actinopterygii) began with the designation of taxonomic groups based on morphological similarity. Starting in the late 1960s morphological phylogenetics became the basis for the classification of Actinopterygii but failed to resolve many relationships, particularly among lineages within the hyperdiverse Percomorpha. The introduction of molecular phylogenetics led to a dramatic reconfiguration of actinopterygian phylogeny. Refined phylogenetic resolution afforded by molecular studies revealed an uneven diversity among actinopterygian lineages, resulting in a proliferation of redundant group names in Linnean-ranked classifications. Here we provide an unranked phylogenetic classification for actinopterygian fishes based on a summary phylogeny of 830 lineages of ray-finned fishes that includes all currently recognized actinopterygian taxonomic families and 287 fossil taxa. We provide phylogenetic definitions for 90 clade names and review seven previously defined names. For each of the 97 clade names we review the etymology of the clade name, clade species diversity and constituent lineages, clade diagnostic morphological apomorphies, a review of synonyms, and discuss the clade's nomenclatural and systematic history. The new classification is free of redundant group names and includes only one new name among the 97 clade names we review and describe, yielding a comprehensive classification that is based explicitly on the phylogeny of ray-finned fishes that has emerged in the 21st century and rests on the foundation of the previous 200 years of actinopterygian systematic research.</p>
An Exploration of the Impact of Emicizumab on the Lives of People With Haemophilia and Inhibitors and Their Families
ClinicalTrials.gov study NCT04723693. IPD Sharing: NO. Countries: 1. Publications: 1.
Chronic-disease Self-management Program in Patients Living With Long-COVID in Puerto Rico
ClinicalTrials.gov study NCT06208696. IPD Sharing: NO. Countries: 1. Publications: 2.
Resident-to-Resident Elder Mistreatment Intervention for Dementia Care in Assisted Living
ClinicalTrials.gov study NCT03383289. IPD Sharing: NO. Countries: 1. Publications: 2.
Prescribe to Save Lives
ClinicalTrials.gov study NCT03175640. IPD Sharing: YES. Countries: 1. Publications: 1.
Assess and Adapt to the Impact of COVID-19 on CVD Self-Management and Prevention Care in Adults Living With HIV
ClinicalTrials.gov study NCT04661813. IPD Sharing: YES. Countries: 1. Publications: 1.
Safety and Effectiveness of Live Zoster Vaccine in Anti-Tumor Necrosis Factor (TNF) Users (VERVE Trial)
ClinicalTrials.gov study NCT02538341. IPD Sharing: YES. Countries: 1. Publications: 1.
Feasibility and Acceptability of a Substance Use Screening and Brief Intervention for Youth Living With HIV in Kenya
ClinicalTrials.gov study NCT04998045. IPD Sharing: YES. Countries: 1. Publications: 13.
Effects of a Package of Evidence-based Interventions and Implementation Strategies Based on WHO PEN for People Living With HIV and Cardio-metabolic Conditions in Lusaka, Zambia
ClinicalTrials.gov study NCT05950919. IPD Sharing: YES. Countries: 1. Publications: 1.
Pivotal Study to Evaluate Safety and Immunogenicity of a Live-Attenuated Chikungunya Virus Vaccine Candidate in Adults
ClinicalTrials.gov study NCT04546724. IPD Sharing: NO. Countries: 1. Publications: 2.
Children's Healthy Living Community Randomized Trial
ClinicalTrials.gov study NCT01881373. IPD Sharing: YES. Countries: 1. Publications: 28.
Project Engage: A Wrist Biosensor-based mHealth Suite to Support Alcohol Intervention in Young People Living With HIV
ClinicalTrials.gov study NCT05431855. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Deprescribing Potentially Inappropriate Medications in the Emergency Department for Persons Living With Dementia
ClinicalTrials.gov study NCT06273917. IPD Sharing: NO. Countries: 1. Publications: 20.
A Multicenter Study to Evaluate Safety and Immunogenicity of a Live-attenuated Chikungunya Vaccine in Adolescents
ClinicalTrials.gov study NCT04650399. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
A Patient-facing Tool to Reduce Opioid-Psychotropic Polypharmacy in People Living With Dementia (PLWD)
ClinicalTrials.gov study NCT05628181. IPD Sharing: NO. Countries: 1. Publications: 1.
Proficiency Based Robotics Training Curriculum: Skill Acquisition & Transferability of Skills to Live Porcine Models
ClinicalTrials.gov study NCT02895347. IPD Sharing: YES. Countries: 1. Publications: 9.
Youth Power Action Feasibility Study of Online Support Group Intervention Among Adolescents Living With HIV in Nigeria
ClinicalTrials.gov study NCT03076996. IPD Sharing: NO. Countries: 1. Publications: 1.
Influenza Vaccination Digital Interventions for People Living With Diabetes
ClinicalTrials.gov study NCT03870997. IPD Sharing: NO. Countries: 1. Publications: 1.
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.