Preprints

Filtering by Subject: Systems Biology

Calling for a National Model Benchmarking Facility

Benjamin Lyle Ruddell, Martyn Clark, Jessica M Driscoll, et al.

Published: 2023-04-14
Subjects: Biology, Computer Sciences, Earth Sciences, Ecology and Evolutionary Biology, Environmental Sciences, Life Sciences, Oceanography and Atmospheric Sciences and Meteorology, Other Life Sciences, Physical and Environmental Geography, Physical Sciences and Mathematics, Planetary Sciences, Systems Biology

The modern world uses predictive computer models for many important purposes, including weather predictions, epidemic management, flood forecasting and warnings, and economic policymaking. We need to know how much we can trust the projections of these models, not only to achieve more accurate projections for systems, but also to undertake scientific learning about systems by incrementally testing [...]

Plant Breeding Biomolecular Classification in Quantum Bayesianism (QBism) Physics-Informed Neural Network Architecture

Karriem A.J. Perry, Barbara S Keary

Published: 2022-08-31
Subjects: Artificial Intelligence and Robotics, Climate, Other Statistics and Probability, Plant Sciences, Probability, Quantum Physics, Research Methods in Life Sciences, Soil Science, Statistical, Nonlinear, and Soft Matter Physics, Sustainability, Systems Biology

In this brief communication, biomolecular plant breeding multi-classification inference is discussed when leveraging the advantages of Physics-informed Neural Network (PiNN) architecture. Albeit, the expected utility of Partial Differential Equation (PDE) inspired neural networks resides in its performance under limited data availability; a variety of neural network configurations result from PDE [...]

Knowing the whole world from the top of a mountain: from orderly systematization to complex explanatory systems

Maarten G Kleinhans

Published: 2021-06-29
Subjects: Earth Sciences, Physical and Environmental Geography, Systems Biology

Fast and fascinating changes in views on nature and systems occurred around 1800, for example in the works of Alexander von Humboldt. While Humboldt rarely used the word system, he searched for the pattern-forming forces of nature by gruesome experiments on animals, including himself, and then drew a map of a mountain that became the basis of biogeography. What did ‘system’ mean then and now, how [...]

Effects of Cone Penetrometer Testing on Shallow Hydrogeology at a Contaminated Site

Terry C. Hazen, Andrew D. Putt, Erin R. Kelly, et al.

Published: 2021-06-07
Subjects: Environmental Engineering, Geotechnical Engineering, Systems Biology, Terrestrial and Aquatic Ecology

Penetration testing is a popular and instantaneous technique for subsurface mapping, contaminant tracking, and the determination of soil characteristics. While the small footprint and reproducibly of cone penetrometer testing makes it an ideal method for in-situ subsurface investigations at contaminated sites, the effects to local shallow groundwater wells and measurable influence on monitoring [...]

Quantifying the Fate of Wastewater Nitrogen Discharged to a Canadian River

Jason Venkiteswaran, Sherry Schiff, Brian Ingalls

Published: 2018-06-22
Subjects: Biogeochemistry, Earth Sciences, Environmental Indicators and Impact Assessment, Environmental Monitoring, Environmental Sciences, Life Sciences, Physical Sciences and Mathematics, Systems Biology, Water Resource Management

Addition of nutrients, such as nitrogen, can degrade water quality in lakes, rivers, and estuaries. To predict the fate of nutrient inputs, an understanding of the biogeochemical cycling of nutrients is needed. We develop and employ a novel, parsimonious, process-based model of nitrogen concentrations and stable isotopes that quantifies the competing processes of volatilization, uptake, [...]

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