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273 results for “Systems Biology”
SI-B for "Application of biological early warning systems in wastewater treatment plants: Introducing a promising approach to monitor changing wastewater composition"
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The material properties of a bacterial-derived biomolecular condensate tune biological function in natural and synthetic systems. Source data
<p>Supplementary information for manuscript titled "The material properties of a bacterial-derived biomolecular condensate tune biological function in natural and synthetic systems"</p>
Data from: How biological attention mechanisms improve task performance in a large-scale visual system model
How does attentional modulation of neural activity enhance performance? Here we use a deep convolutional neural network as a large-scale model of the visual system to address this question. We model the feature similarity gain model of attention, in which attentional modulation is applied according to neural stimulus tuning. Using a variety of visual tasks, we show that neural modulations of the kind and magnitude observed experimentally lead to performance changes of the kind and magnitude observed experimentally. We find that, at earlier layers, attention applied according to tuning does not successfully propagate through the network, and has a weaker impact on performance than attention applied according to values computed for optimally modulating higher areas. This raises the question of whether biological attention might be applied at least in part to optimize function rather than strictly according to tuning. We suggest a simple experiment to distinguish these alternatives.
Matrix aggregation of species of Phyla Annelida (Polychaeta), Mollusca, Arthropoda (Decapoda, Stomatopoda, Amphipoda, and Chelicerata), and Echinodermata registered of the Caribbean Sea and Gulf of Mexico region by Ocean Biodiversity Information Systems of the research "Evaluation of the use of Autonomous Reef Monitoring Structures (ARMS) for capturing the biological diversity of two coral reefs in the Yucatán Península, México"
<p>This database consists of an aggregation matrix of species from Ocean Biodiversity Information Systems using as geographic filters the Caribbean Sea region (ID 34287) and the Gulf of Mexico region (ID 34287) nomenclature and hierarchical classification of each Phyla from World Register of Marine Species used for the calculation of average taxonomic distinction of species belonging to the Phyla Annelida (Polychaeta), Mollusca, Arthropoda (Decapoda, Stomatopoda, Amphipoda, and Chelicerata), and Echinodermata associated to Autonomous Reefs Monitoring Structures from the research “Evaluation of the use of Autonomous Reef Monitoring Structures (ARMS) to estimate cryptic diversity in two coral reefs of the Yucatan Península, México”</p> <p><strong>*Corresponding autor: </strong>edlinguerra@gmail.com</p> <p>BIS Ocean Biodiversity Information System. Available online: <a href="http://www.iobis.org/">www.iobis.org</a>.</p> <p>Horton, T.; Gofas, S.; Kroh, A.; Poore, G.C.B.; Read, G.; Rosenberg, G.; Stöhr, S.; Bailly, N.; Boury-Esnault, N.; Brandão, S.N.; et al. Improving nomenclatural consistency: A decade of experience in the World Register of Marine Species. <em>Eur. J. Taxon.</em> <strong>2017</strong>, <em>2017</em>, doi:10.5852/ejt.2017.389.</p> <p><span lang="EN-US">was produced in collaboration with the Biodiversidad Marina de Yucatán project. </span><a href="https://www.bdmy.org.mx/carteles-publicaciones/" target="_blank" rel="noopener">https://www.bdmy.org.mx/,</a> Universidad Nacional Autonoma de México and Escuela Nacional de Estudios Superiores</p>
Functional diversity of experimental annual plant assemblages drives plant responses to biological soil crusts in gypsum systems
<p>1. Biological soil crusts (BSC) are complex biotic aggregates comprised of lichens, cyanobacteria, algae, and other microorganism that are known to differently affect plant development along life cycle by selecting plant functional traits based on species-specific effects. In addition, functional differences between interacting species should modulate their response ability to other environmental factors. Thus, it should be expected that the effects of the BSC on plants will be significantly determined by the own functional diversity in the community.</p> <p>2. To understand the multiple effects of BSC and the extent to which the functional diversity of interacting plant species can modulate their effects on the development of coexisting species, we applied an experimental approach by manipulating the initial functional diversity of the entire annual plant community and BSC conditions in a common garden trial. We crossed three sorts of assemblages built on the basis of plant stature (combinations of only large, or only small, or diverse sized plant species in pots) with three lichen-dominated BSC disturbance scenarios (intact, or tiny mechanically disaggregated, or absent portions of BSC).</p> <p>3. Biological soil crusts strongly affected the establishment and development of gypsophilous annual plants in a complex, multifaceted manner, which shifted throughout the plant life cycle. We demonstrated that lichen-dominated BSC could act as a major physical barrier to the establishment of annual plants at a heterogeneous fine spatial scale. Such a restrictive effect was particularly marked in presence of intact BSC. However, after annual plants overcame the restrictions imposed by BSC, the same biotic layer facilitated plant growth and fitness, regardless of its physical integrity, resulting in larger plants producing more fruits.</p> <p>4. Importantly, our results suggest that the functional diversity structure of the community may also drive growth and fitness of coexisting species by activating alternative coexistence mechanisms such as niche partitioning or competition symmetry. This study highlights the importance of plant neighbourhood features for the performance of interacting species, and confirms a novel, experimental way to explore the effects of community diversity on plants for the interpretation of assembly mechanisms.</p>
Supporting data for "Studying stochastic systems biology of the cell with single-cell genomics data"
<p>The dataset tar.gz files contain the raw unspliced and spliced count matrices generated by <em>kallisto</em>|<em>bustools</em> 0.26.0 from six datasets.</p> <p>The GVP_2023...zip file is a mirror of the related GitHub repository.</p>
A mechanoresponsive nucleic acid scaffold to control biological systems by biocompatible ultrasound
<p>Data sets used for main figures of the manuscript entitled 'A mechanoresponsive nucleic acid scaffold to control biological systems by biocompatible ultrasound'.</p>
Biological and Clinical Measurements Following Systemic Leakage When a Citrate or Heparin Lock is Used
ClinicalTrials.gov study NCT02860299. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Systems Biology Approach to Cognitive Impairment After SepsiS
ClinicalTrials.gov study NCT03015584. IPD Sharing: NO. Countries: 1. Publications: 1.
A Longitudinal Systems Biological Analysis of Naturally Acquired Malaria Immunity in Mali
ClinicalTrials.gov study NCT01322581. IPD Sharing: Not stated. Countries: 1. Publications: 7.
A Systems Biology Approach to Malaria Immunity
ClinicalTrials.gov study NCT03014258. IPD Sharing: Not stated. Countries: 1. Publications: 1.
H5N1 Vaccination With and Without AS03: Systems Biology Analysis
ClinicalTrials.gov study NCT01573312. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Proof of Biological Activity of SAR100842 in Systemic Sclerosis
ClinicalTrials.gov study NCT01651143. IPD Sharing: Not stated. Countries: 5. Publications: 1.
Creation of a Prospective Cohort of Healthy and Sick Subjects and of a Collection of Associated Biological Resources, for the Study of the Immune System and of Its Genetic and Environmental Determinan
ClinicalTrials.gov study NCT03925272. IPD Sharing: NO. Countries: 1. Publications: 16.
A Systems Biology Approach for Identification of Host and Microbial Mechanisms and Druggable Targets for the Treatment of PSC-IBD
ClinicalTrials.gov study NCT05376228. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
Systems Biology to Identify Biomarkers of Neonatal Vaccine Immunogenicity
ClinicalTrials.gov study NCT03246230. IPD Sharing: NO. Countries: 2. Publications: 4.
Biological Markers for the Diagnosis of Central Nervous System Infective Diseases
ClinicalTrials.gov study NCT02278016. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Hypothesizing the Genesis of Infectious Diseases and Epidemics Through an Integrated Systems Biology Approach
ClinicalTrials.gov study NCT05557539. IPD Sharing: NO. Countries: 1. Publications: 0.
Biological corridors are crucial habitat features that boost biodiversity in agroecological system of Argentina
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Functional diversity of experimental annual plant assemblages drives plant responses to biological soil crusts in gypsum systems
Open the record for dataset details and reuse information.
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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.