bioRxiv Subject Collection: Systems Biology
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This feed contains articles for bioRxiv Subject Collection "Systems Biology"
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Homeostatic feedback model of energy metabolism with adaptive enzyme levels exhibits problem solving behavior
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https://www.biorxiv.org/content/10.64898/2026.05.07.721661v1?rss=1
2026-05-11doi:10.64898/2026.05.07.721661Cold Spring Harbor Laboratory2026-05-11
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Talk2QSP: Deriving Executable Scenarios from Unstructured Literature via Human-in-the-Loop Agents
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https://www.biorxiv.org/content/10.64898/2026.05.06.723244v1?rss=1
2026-05-11doi:10.64898/2026.05.06.723244Cold Spring Harbor Laboratory2026-05-11
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Learning activator-inhibitor dynamics at the cell cortex with neural likelihood ratio estimation
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https://www.biorxiv.org/content/10.64898/2026.05.06.722433v1?rss=1
2026-05-11doi:10.64898/2026.05.06.722433Cold Spring Harbor Laboratory2026-05-11
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Systemic stress states are reversed by NPBWR1 inhibition
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https://www.biorxiv.org/content/10.64898/2026.05.06.722954v1?rss=1
2026-05-09doi:10.64898/2026.05.06.722954Cold Spring Harbor Laboratory2026-05-09
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Computational analysis reveals the requirement for cell-cell interaction in liver repopulation by transplanted hepatocytes
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https://www.biorxiv.org/content/10.64898/2026.05.06.723162v1?rss=1
2026-05-09doi:10.64898/2026.05.06.723162Cold Spring Harbor Laboratory2026-05-09
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Unraveling the metabolic interactions of a Dehalobacter-containinganaerobic mixed culture for bioremediation
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https://www.biorxiv.org/content/10.64898/2026.05.05.723060v1?rss=1
2026-05-09doi:10.64898/2026.05.05.723060Cold Spring Harbor Laboratory2026-05-09
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Scalable longitudinal imaging and transcriptomics of cells in dynamic enclosures
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https://www.biorxiv.org/content/10.64898/2026.05.05.723030v1?rss=1
2026-05-08doi:10.64898/2026.05.05.723030Cold Spring Harbor Laboratory2026-05-08
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Inter- and Intra-individual Variability in Oral Food Processing and Its Impact on Aroma Release
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https://www.biorxiv.org/content/10.64898/2026.05.05.721895v1?rss=1
2026-05-08doi:10.64898/2026.05.05.721895Cold Spring Harbor Laboratory2026-05-08
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Ensemble kinetic modelling links residual enzyme activity to clinical symptoms in mitochondrial β-oxidation defects
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https://www.biorxiv.org/content/10.64898/2026.05.05.722902v1?rss=1
2026-05-08doi:10.64898/2026.05.05.722902Cold Spring Harbor Laboratory2026-05-08
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Mathematical Modeling of the Canonical Aryl Hydrocarbon Receptor Pathway
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https://www.biorxiv.org/content/10.64898/2026.05.05.722708v1?rss=1
2026-05-08doi:10.64898/2026.05.05.722708Cold Spring Harbor Laboratory2026-05-08
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A unified framework links infant vulnerability with aging-related mortality dynamics
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https://www.biorxiv.org/content/10.64898/2026.05.05.722841v1?rss=1
2026-05-08doi:10.64898/2026.05.05.722841Cold Spring Harbor Laboratory2026-05-08
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Acetate promotes nutritional adaptation in Escherichia coli
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https://www.biorxiv.org/content/10.64898/2026.05.05.722864v1?rss=1
2026-05-08doi:10.64898/2026.05.05.722864Cold Spring Harbor Laboratory2026-05-08
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COCOA.jl: A Julia package for high-performance analysis of concordance and kinetic modules in biochemical networks
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https://www.biorxiv.org/content/10.64898/2026.05.05.722856v1?rss=1
2026-05-08doi:10.64898/2026.05.05.722856Cold Spring Harbor Laboratory2026-05-08
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Robotic perturbation proteomics and AI agents enable scalable drug mechanism discovery
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https://www.biorxiv.org/content/10.64898/2026.05.04.722718v1?rss=1
2026-05-07doi:10.64898/2026.05.04.722718Cold Spring Harbor Laboratory2026-05-07
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Multi-omic analysis identifies mitochondrial dysfunction as a conserved driver of acute severity and long-term complications in RSV infection
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https://www.biorxiv.org/content/10.64898/2026.05.04.722656v1?rss=1
2026-05-07doi:10.64898/2026.05.04.722656Cold Spring Harbor Laboratory2026-05-07
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Claim-Level Transparency Analysis of LLM-Generated Diagnostic Reports: A Metabolic and Endocrine Biomarker Study
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https://www.biorxiv.org/content/10.64898/2026.05.03.721751v1?rss=1
2026-05-06doi:10.64898/2026.05.03.721751Cold Spring Harbor Laboratory2026-05-06
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Bion-M 2 Biosatellite: Multisystem Mouse Responses to 30 Days in High-Latitude Orbit as a Deep-Space Analog
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https://www.biorxiv.org/content/10.64898/2026.05.03.722490v1?rss=1
2026-05-06doi:10.64898/2026.05.03.722490Cold Spring Harbor Laboratory2026-05-06
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Box-Counting Fractal Dimensions of Cranial Suture: Effects of Measurement Conditions and Model-Based Reproduction of Fractal-Like Patterns
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https://www.biorxiv.org/content/10.64898/2026.05.02.722422v1?rss=1
2026-05-06doi:10.64898/2026.05.02.722422Cold Spring Harbor Laboratory2026-05-06
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Lineage-specific lncRNAs critically determine cross-species differences in tumors
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https://www.biorxiv.org/content/10.64898/2026.05.01.722350v1?rss=1
2026-05-06doi:10.64898/2026.05.01.722350Cold Spring Harbor Laboratory2026-05-06
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The first digital twin of Enterococcus faecium metabolism reproduces high-throughput phenotyping data
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https://www.biorxiv.org/content/10.64898/2026.05.01.720924v1?rss=1
2026-05-06doi:10.64898/2026.05.01.720924Cold Spring Harbor Laboratory2026-05-06
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REDUCED-PRECISION STOCHASTIC SIMULATION FOR MATHEMATICAL BIOLOGY
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https://www.biorxiv.org/content/10.64898/2026.05.01.722176v1?rss=1
0.05). Our results establish mixed-precision SSA with SR as a viable acceleration strategy for mathematical biology: 16-bit formats shrink per-variable data size by 2-4x relative to fp32/fp64, yielding comparable reductions in memory footprint and up to ~ 1.5x wall-clock speedup on CPU hardware that lacks native 16-bit arithmetic. As a hardware-level acceleration, mixed-precision SSA complements algorithmic methods such as tau-leaping and maps naturally onto modern GPU and TPU architectures with native 16-bit arithmetic.
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Accessible Gibbs energy at metabolic activation limits long-term cell growth
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https://www.biorxiv.org/content/10.64898/2026.04.30.722108v1?rss=1
2026-05-05doi:10.64898/2026.04.30.722108Cold Spring Harbor Laboratory2026-05-05
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Network topology dictates sequential drug efficacy through bistability-mediated state switching
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https://www.biorxiv.org/content/10.64898/2026.05.01.722163v1?rss=1
2026-05-05doi:10.64898/2026.05.01.722163Cold Spring Harbor Laboratory2026-05-05
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The Limits of Cross-Species WGCNA: Library Imbalance and Signal Dilution Constrain Effector Gene Recovery in Dual-Organism RNA-seq
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https://www.biorxiv.org/content/10.64898/2026.04.30.721941v1?rss=1
2026-05-05doi:10.64898/2026.04.30.721941Cold Spring Harbor Laboratory2026-05-05
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Systems modeling identifies phenotype-determining signaling pathways controlled by phosphatase PTPRJ in diverse receptor tyrosine kinase activation settings
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https://www.biorxiv.org/content/10.64898/2026.04.30.721884v1?rss=1
2026-05-04doi:10.64898/2026.04.30.721884Cold Spring Harbor Laboratory2026-05-04
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Supervised restricted data fusion with common, local & distinct components
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https://www.biorxiv.org/content/10.64898/2026.04.30.721639v1?rss=1
2026-05-04doi:10.64898/2026.04.30.721639Cold Spring Harbor Laboratory2026-05-04
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Systems-Level Transcriptomics Maps Multilevel Remodeling and Pathway-Selective Translational Alignment Across Murine Models of Cardiometabolic HFpEF
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https://www.biorxiv.org/content/10.64898/2026.04.30.721824v1?rss=1
2026-05-04doi:10.64898/2026.04.30.721824Cold Spring Harbor Laboratory2026-05-04
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A Scalable Sign-Aware Multi-Omics Knowledge Graph Foundation Model for Mechanistic Drug Action and Clinical Response Predictions
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https://www.biorxiv.org/content/10.64898/2026.04.29.721775v1?rss=1
2026-05-04doi:10.64898/2026.04.29.721775Cold Spring Harbor Laboratory2026-05-04
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Extraction-dependent bone proteomics reveals distinct stable and dynamic protein modules during early post-exposure degradation
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https://www.biorxiv.org/content/10.64898/2026.04.29.721604v1?rss=1
2026-05-04doi:10.64898/2026.04.29.721604Cold Spring Harbor Laboratory2026-05-04
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A Comprehensive Mathematical Model of Avidity in Cytokine Signaling
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https://www.biorxiv.org/content/10.64898/2026.04.29.721617v1?rss=1
2026-05-04doi:10.64898/2026.04.29.721617Cold Spring Harbor Laboratory2026-05-04