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18,621 results for “development;”
Dataset underlying the study "Changes in longevity, parasitization rate and development time of the whitefly parasitoid Encarsia formosa under future climate conditions"
<p>This dataset is underlying the scientific publication titled "Changes in longevity, parasitization rate and development time of the whitefly parasitoid <em>Encarsia formosa</em> under future climate conditions", published in the <a href="https://www.sciencedirect.com/journal/biological-control">Biological Control </a>journal. </p> <p>The first section of the dataset provides the meterological parameters used to drive climate chambers for the experiments conducted by LIST and UNICT researchers. The second section of the dataset provides a graphical representation, including the relevant metadata, of the survival rate of adult Encarsia formosa (a whitefly biocontrol agent) under various climate conditions. The third and final section of the dataset includes an overview of the whitefly parasitization rate of Encarsia formosa according to the different parameters of the experiments undertaken by the LIST and UNICT scientists.</p> <p>The provided figures and tables in the dataset are further discussed and interpreted in detail, as well as their subsequent results, in the scientific publication.</p> <p>This research was conducted within the VIRTIGATION project, which is part of the EU Open Research Data pilot. This project has received funding from the European Union’s Horizon 2020 research and innovation program under grant agreement No. 101000570.</p>
Effect of the histone deacetylase inhibitor Trichostatin A on facial development in cichlid fishes
<p>A central question in biology is the molecular origins of phenotypic diversity. While genetic changes are key to the genotype-phenotype relationship, alterations to chromatin structure and the physical packaging of histone proteins may also be important drivers of vertebrate divergence. We investigate the impact of such an epigenetic mechanism, histone acetylation, within a textbook example of an adaptive radiation. Cichlids of Lake Malawi have adapted diverse craniofacial structures, and here we investigate how histone acetylation influences morphological variation in these fishes. Specifically, we assessed the effect of inhibiting histone deacetylation using the drug trichostatin A (TSA) on developing facial structures. We examined this during three critical developmental windows in two cichlid species with alternate adult morphologies. Exposure to TSA during neural crest cell (NCC) migration and as post-migratory NCCs proliferate into the pharyngeal arches resulted in significant changes in lateral and ventral shape in <em>Maylandia</em>, but not in <em>Tropheops</em>. This included an overall shortening of the head, widening of the lower jaw, and steeper craniofacial profile, all of which are paedomorphic morphologies. In contrast, treatment with TSA during early chondrogenesis did not result in significant morphological changes in either species. Together, these data suggest a sensitivity to epigenetic alterations that are both time- and species-dependent. We find that morphologies are due to non-autonomous or potentially indirect effects on NCC development, including in part a global developmental delay. Our research bolsters the understanding that proper histone acetylation is essential for early craniofacial development and identifies a species-specific robustness to developmental change. Overall, this study demonstrates how epigenetic regulation may play an important role in both generating and buffering morphological variation.</p>
Hypermedia-based software architecture enables test-driven development
<p><em>Objectives: </em></p> <p>Using agile software development practices, develop and evaluate a software architecture and implementation for reliable management of bioinformatic data that is stored in the cloud.</p> <p><em>Materials and Methods: </em></p> <p>CORE (Comprehensive Oncology Research Environment) Browser is a new open-source web application for cancer researchers to manage sequencing data organized in a flexible format in Amazon Simple Storage Service (S3) buckets. It has a microservices- and hypermedia-based architecture, which we integrated with Test-Driven Development (TDD), the iterative writing of computable specifications for how software should work prior to development. Optimal testing completeness is a tradeoff between code coverage and software development costs. We hypothesized this architecture would permit developing tests that can be executed repeatedly for all microservices, maximizing code coverage while minimizing effort.</p> <p><em>Results: </em></p> <p>After one-and-a-half years of development, the CORE Browser backend had 121 tests designed for repeated execution and 875 custom tests that were executed 3,031 times, providing 78% code coverage.</p> <p><em>Discussion: </em></p> <p>Hypermedia architecture's repeating pattern, links, permits CORE Browser to implement tests that can be executed repeatedly by every microservice to achieve high code coverage. Code coverage correlates with software reliability. Other benefits of this architecture include permitting access to bucket data from outside the application and separating management of bioinformatic data from analysis.</p> <p><em>Conclusion: </em></p> <p>Architectural choices are important enablers of modern software development practices, such as TDD. Updating software architecture may be a critical next step in agile transformation after an engineering team implements the structural changes on which most such transformations focus.</p> <p><em>Keywords: </em></p> <p>High-throughput nucleotide sequencing, software, data management, cloud computing.</p>
Developing small Cas9 hybrids using molecular modeling
<p>The RNA-guided CRISPR-Cas9 from <i>Streptococcus pyogenes</i> is the best characterized enzyme for gene editing. Its large size, however, precludes it from being packaged together with its single guide (sg)RNA into a single adeno-associated virus, limiting <i>in vivo</i> applications. Here, we developed smaller Cas9 hybrids, made of the PAM interacting domain (PID) of <i>S pyogenes</i> and the catalytic domains of the smaller Cas9 orthologues, as well as sgRNA cognate hybrids. Molecular modeling revealed that the presence of a sgRNA stabilizes Cas9. Making the D10A mutation to turn Cas9 into a nickase dramatically alters its binding energy to the sgRNA, showing that the approach can identify functionally relevant changes. However, we found that the four Cas9/sgRNA hybrid pairs tested in human cells failed to edit target sequences. We conclude that <i>in silico</i> approaches can identify functional changes caused by point mutations but they may not be well suited for designing Cas9/sgRNA hybrids. </p>
Data and Code for replicating the manuscript submitted to World Development
<p>Data and Code for replicating the paper "A Data-Driven Approach Improves Food Insecurity Crisis Prediction"</p>
Development of a Resiliency Training Program for Parents of Children With Autism Spectrum Disorder
ClinicalTrials.gov study NCT02995408. IPD Sharing: NO. Countries: 1. Publications: 1.
Development of a Novel Transdiagnostic Intervention for Anhedonia - R61 Phase
ClinicalTrials.gov study NCT02874534. IPD Sharing: YES. Countries: 1. Publications: 4.
Development of Algorithms for a Hypoglycemic Prevention Alarm: Closed Loop Study
ClinicalTrials.gov study NCT00884611. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Protocol for Women at Increased Risk of Developing Breast Cancer
ClinicalTrials.gov study NCT00291135. IPD Sharing: NO. Countries: 1. Publications: 3.
Developing a Text-Message Enhanced Physical Activity Intervention for Latino Men
ClinicalTrials.gov study NCT02512419. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Ultrasound Elastography to Predict Development of SOS
ClinicalTrials.gov study NCT03858530. IPD Sharing: NO. Countries: 1. Publications: 23.
Developing a Exercise Program for Patients Undergoing Hematopoietic Stem Cell Transplantation
ClinicalTrials.gov study NCT06907004. IPD Sharing: NO. Countries: 1. Publications: 6.
Study of Obeldesivir in Participants With COVID-19 Who Have a High Risk of Developing Serious or Severe Illness
ClinicalTrials.gov study NCT05603143. IPD Sharing: NO. Countries: 18. Publications: 2.
Working on Rapid Language Development in Toddlers
ClinicalTrials.gov study NCT01975922. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Development of Positive Psychotherapy for Smoking Cessation
ClinicalTrials.gov study NCT01451814. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Diabetes Homeless Medication Support Single Arm Treatment Development Trial
ClinicalTrials.gov study NCT04678284. IPD Sharing: NO. Countries: 1. Publications: 3.
Developing an Imaging-Based Tool to Identify Areas for Prostate Cancer Biopsy
ClinicalTrials.gov study NCT03585660. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Development and Validation of the Client Centered Occupational Therapy Service Model
ClinicalTrials.gov study NCT04465422. IPD Sharing: NO. Countries: 1. Publications: 4.
Narrative Discourse Treatment Development
ClinicalTrials.gov study NCT05008419. IPD Sharing: YES. Countries: 1. Publications: 0.
Medications Development for Drug Abuse Disorders
ClinicalTrials.gov study NCT01188421. IPD Sharing: Not stated. 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.