96 papers
Systems biology moves beyond studying individual genes or proteins to understand how they work together as a complex, living network. Instead of looking at isolated parts, this field examines the intricate conversations between molecules that drive life, revealing how cellular systems respond to changes and maintain balance. It is a holistic approach that turns vast amounts of data into a coherent story of how organisms function as a whole.
At Gist.Science, we ensure these breakthroughs remain accessible to everyone by processing every new preprint in this category directly from bioRxiv. Our team generates both plain-language explanations for the curious mind and detailed technical summaries for researchers, bridging the gap between rapid scientific discovery and clear understanding.
Below are the latest preprints in systems biology, freshly curated and summarized to help you navigate the cutting edge of network science.
This study demonstrates that age-related kidney fibrosis is primarily driven by impaired extracellular matrix degradation, characterized by significantly prolonged protein half-lives, altered protease accessibility, and disrupted matrix interactions that collectively hinder basement membrane renewal and tissue remodeling.
This study reveals that acute endurance and resistance exercise induce distinct, time-dependent patterns of alternative splicing across human skeletal muscle, adipose tissue, and blood, largely independent of RNA expression changes, thereby establishing alternative splicing regulation as a major molecular mediator of the multi-organ responses to physical activity.
This paper addresses the inconsistency among Boolean network control tools by proposing a taxonomy of control problems, developing a framework to empirically compare their solutions, and introducing a coverage-consistent metric to prioritize effective genetic interventions for desired phenotypes.
This study reveals that prior stress history induces a transient tolerant state in resuscitating bacterial cells, which significantly enhances their survival against beta-lactam antibiotics and drives rapid population regrowth, thereby offering a new framework for optimizing antibiotic dosing strategies.
This paper proposes the Generalized Morphogenesis Theory (GMT), a domain-independent flow-inertia modeling framework that unifies cross-scale morphogenetic dynamics—from crop growth to molecular transcriptomics—under a single structural principle, revealing consistent multiplicative dynamics, validated inertia constants, and 12 canonical design patterns governing regime transitions in dissipative systems.
This study demonstrates that while vaping induces acute inflammation and coagulation abnormalities in female rats, high-dose vitamin D supplementation significantly mitigates these adverse effects on blood markers and organ pathology while also reducing nicotine and cotinine levels.
This study establishes a robust, multi-scale scoring system for anti-methanogenicity by elucidating the structural and thermodynamic interactions between inhibitors and the Ni(I)-containing cofactor F430, which enables the functional clustering of metabolites and the rational design of compounds that effectively reduce ruminal methane emissions without disrupting fermentation.
The paper introduces CELLSWARM, a novel framework that replaces traditional hand-coded rules with LLM-driven autonomous cell agents to accurately recapitulate tumor microenvironment dynamics while uniquely enabling cross-cancer generalization, clinical treatment response prediction, and the detection of indirect genetic perturbations.
This paper introduces the Web of Microbes Agent, an autonomous system integrating a Bayesian Personalized Ranking model, a growth model, and a Large Language Model to accurately predict and orchestrate bacterial substrate preferences for applications in microbiome engineering and cultivation.
By integrating transcriptomic and lipidomic data, this study reveals that a specific phosphatidylinositol profile driven by arachidonic acid metabolism is essential for healthy colonocyte differentiation, while its disruption and the resulting shift toward monounsaturated fatty acid species in tumors highlight a critical mechanism underlying colon cancer malignization.