10 papers · ranked by Valyu relevance
Adam Porter, Martin Solan, Jasmin A. Godbold, Vassilis Kitidis + 4 more
Global biodiversity loss is restructuring ecological communities and compromising ecosystem functioning. Yet, we still lack an empirical understanding of how specific trait combinations regulate ecosystem processes or how their functional expression is organised within the immediate environment. Here, we investigated…
Leandro Lofeu, Ehsan Pashay Ahi
High-throughput sequencing has transformed biomonitoring by enabling scalable molecular inventories, but most programs still emphasize taxa lists. In this Perspective, Biomonitoring 3.0 is proposed as a framework that builds on molecular inventories to monitor ecological dynamics, interactions, and biological responses…
Jin-Peng Gao, Feiyang Zhao, Guofeng Zhang, Qingchao Chen + 12 more
Legumes convert atmospheric nitrogen into ammonium through symbiotic bacteria housed in root nodules, yet the molecular interactions between rhizobial and host proteins inside nodules remain poorly understood. Here we employed AlphaFold3 to construct a cross-kingdom interactome between Medicago truncatula and its…
Yiming Xue, Xiaojian Liu, Weimin Zhu, Shengfan Wang + 2 more
While protein-RNA interactions are fundamental to post-transcriptional processes, achieving a holistic understanding of their regulatory logic remains challenging. Current computational models often treat binding affinity, interface mapping, and RNA design as isolated tasks, thereby failing to provide a unified…
Braden Charles DeMattei, Stephanie E. Hampton
Understanding species interactions is integral to understanding ecosystem function and predicting how disturbances may affect the services provided to society. Analysis of trophic interactions, however, requires a significant investment of time and resources. Using a simple predator-prey pairing of a semi-sessile…
Atilio Barreda II, Carrie Diaz Eaton, Sam Hansen, Joseph E. Hibdon Jr. + 10 more
Mathematics researchers are becoming more involved with research questions at the interface of data science and social justice. This type of research needs to be grounded in the needs of the community in order to have significant impact. In this paper, we examine two examples of community-research partnerships in data…
Eliezer Masliah
How transient neural representations become integrated and stable enough to function as internal neural models remains incompletely understood. Grounded in efficient coding, Bayesian and predictive frameworks, recurrent and attractor dynamics, neural state-space models, and systems neuroscience, the Principle of…
Yuesong Wu, Haohao Su, Yuehua Cui
Cell-cell communication (CCC) is essential for maintaining tissue organization and driving biological progression, yet its inference from transcriptomic data has long been limited by the absence of spatial context. Advances in spatial transcriptomics (ST) now enable mechanistically grounded analyses of CCC by…
Zichao Jin, Jiaoru Wang, Wenjiang Huang, Jingcheng Zhang + 2 more
Accurate, reliable, large-scale disease predictions are essential to ensure rice production. Existing disease prediction models often face a trade-off between interpretability and predictive capability, necessitating the integration of mechanistic knowledge and data-driven learning within a modelling framework.…
John Tower
Biological information is generally thought to be subject to selection for faithful maintenance. However, accurate preservation is often combined with regulated mechanisms that generate state change. Selectively advantageous instability (SAI) is modeled here as instability that is favored because useful alternatives…