Copertina

A Gene Ranking Framework Enhances the Design Efficiency of Genome-Scale Constraint-Based Metabolic Networks under Time Limits

Fuente: arXiv

Salvato in:

Dettagli Bibliografici
Autori principali:	Ma, Yier, Tamura, Takeyuki
Natura:	Preprint
Pubblicazione:	2025
Soggetti:	Molecular Networks
Accesso online:	Acceder al recurso
Tags:	Aggiungi Tag Nessun Tag, puoi essere il primo ad aggiungerne!!

Documenti analoghi

RatGene: Gene deletion-addition algorithms using growth to production ratio for growth-coupled production in constraint-based metabolic networks
di: Ma, Yier, et al.
Pubblicazione: (2024)

Sampling from the Solution Space and Metabolic Environments of Genome-Scale Metabolic Models
di: Zafeiropoulos, Haris, et al.
Pubblicazione: (2026)

TRENDY: Gene Regulatory Network Inference Enhanced by Transformer
di: Tian, Xueying, et al.
Pubblicazione: (2024)

Modularity Emerges from Action-Functional Constraints in Marine Metabolic Networks: A Biology-Scale Validation of the Network-Weighted Action Principle
di: Frasch, Martin G.
Pubblicazione: (2026)

DBgDel: Database-Enhanced Gene Deletion Framework for Growth-Coupled Production in Genome-Scale Metabolic Models
di: Yang, Ziwei, et al.
Pubblicazione: (2024)

A Topology-Based Machine Learning Model Decisively Outperforms Flux Balance Analysis in Predicting Metabolic Gene Essentiality
di: Boone, Justin
Pubblicazione: (2025)

COVRECON: Combining Genome-scale Metabolic Network Reconstruction and Data-driven Inverse Modeling to Reveal Changes in Metabolic Interaction Networks
di: Li, Jiahang, et al.
Pubblicazione: (2023)

WENDY: Covariance Dynamics Based Gene Regulatory Network Inference
di: Wang, Yue, et al.
Pubblicazione: (2024)

Quantifying Ranking Instability Across Evaluation Protocol Axes in Gene Regulatory Network Benchmarking
di: Kendiukhov, Ihor
Pubblicazione: (2026)

Evolving Diploid Boolean and Multi-Valued Gene Networks
di: Bull, Larry
Pubblicazione: (2023)

QWENDY: Gene Regulatory Network Inference by Quadruple Covariance Matrices
di: Wang, Yue, et al.
Pubblicazione: (2025)

Predictive-Switching Control of Stochastic Gene Regulatory Networks: A Contractive PIDE Framework
di: Fernández, Christian, et al.
Pubblicazione: (2026)

Multi-Scale Hybrid Modeling to Predict Cell Culture Process with Metabolic Phase Transitions
di: Wang, Keqi, et al.
Pubblicazione: (2024)

Modeling Dynamics, Cell Type Specificity, and Perturbations in Gene Regulatory Networks
di: Shin, Junha, et al.
Pubblicazione: (2026)

On Networks and their Applications: Stability of Gene Regulatory Networks and Gene Function Prediction using Autoencoders
di: Coban, Hamza
Pubblicazione: (2024)

Counting Subnetworks Under Gene Duplication in Genetic Regulatory Networks
di: Scruse, Ashley, et al.
Pubblicazione: (2024)

Oscillation Criteria in Large-Scale Gene Regulatory Networks with Intrinsic Fluctuations
di: Hernández-García, Manuel Eduardo, et al.
Pubblicazione: (2026)

The Emergence of Chirality from Metabolism
di: Malloy, John F., et al.
Pubblicazione: (2025)

NetAurHPD: Network Auralization Hyperlink Prediction Model to Identify Metabolic Pathways from Metabolomics Data
di: Bar-Tov, Tamir, et al.
Pubblicazione: (2024)

Machine Learning Methods for Gene Regulatory Network Inference
di: Hegde, Akshata, et al.
Pubblicazione: (2025)

GRiNS: A Python Library for Simulating Gene Regulatory Network Dynamics
di: Harlapur, Pradyumna, et al.
Pubblicazione: (2025)

GraphGDel: Constructing and Learning Graph Representations of Genome-Scale Metabolic Models for Growth-Coupled Gene Deletion Prediction
di: Yang, Ziwei, et al.
Pubblicazione: (2025)

Tensor Network based Gene Regulatory Network Inference for Single-Cell Transcriptomic Data
di: Larrarte, Olatz Sanz, et al.
Pubblicazione: (2025)

Markovian Promoter Models: A Mechanistic Alternative to Hill Functions in Gene Regulatory Networks
di: Wu, Tianyu
Pubblicazione: (2025)

Identifying the Attractors of Gene Regulatory Networks from Expression Data under Uncertainty: An Interpretable Approach
di: Rowhanimanesh, Alireza
Pubblicazione: (2024)

Curvature-Induced Saturation in Catalytic Reaction Networks: A Differential Geometrical Framework for Modeling Chemical Complexity
di: Rodriguez, Anderson M.
Pubblicazione: (2025)

Estimating Propensity Parameters using Google PageRank and Genetic Algorithms
di: Murrugarra, David, et al.
Pubblicazione: (2016)

On Hybrid Gene Regulatory Networks
di: Wurm, Adrian, et al.
Pubblicazione: (2024)

Enzyme-Substrate Complex Formation Modulates Diffusion-Driven Patterning In Metabolic Pathways
di: Farivar, Faezeh
Pubblicazione: (2025)

KINDLE: Knowledge-Guided Distillation for Prior-Free Gene Regulatory Network Inference
di: Peng, Rui, et al.
Pubblicazione: (2025)

The Environment-Dependent Regulatory Landscape of the E. coli Genome
di: Röschinger, Tom, et al.
Pubblicazione: (2025)

Gears in Chemical Reaction Networks: Optimizing Energy Transduction Efficiency
di: Bilancioni, Massimo, et al.
Pubblicazione: (2024)

Lomics: Generation of Pathways and Gene Sets using Large Language Models for Transcriptomic Analysis
di: Wong, Chun-Ka, et al.
Pubblicazione: (2024)

State- versus Reaction-Based Information Processing in Biochemical Networks
di: Moor, Anne-Lena, et al.
Pubblicazione: (2025)

Transcriptome and Redox Proteome Reveal Temporal Scales of Carbon Metabolism Regulation in Model Cyanobacteria Under Light Disturbance
di: Johnson, Connah G. M., et al.
Pubblicazione: (2024)

MiNAA-WebApp: A Web-Based Tool for the Visualization and Analysis of Microbiome Networks
di: Yang, Qiyao, et al.
Pubblicazione: (2025)

Identifying Key Genes in Cancer Networks Using Persistent Homology
di: Ramos, Rodrigo Henrique, et al.
Pubblicazione: (2024)

FluxGAT: Integrating Flux Sampling with Graph Neural Networks for Unbiased Gene Essentiality Classification
di: Sharma, Kieren, et al.
Pubblicazione: (2024)

Logistic Gene Regulatory Networks: Prevention of Expression Shutdown, and Numerical Stability Beyond Hill Function
di: Belgacem, Ismail
Pubblicazione: (2026)

Advancing Understanding of Long COVID Pathophysiology Through Quantum Walk-Based Network Analysis
di: Park, Jaesub, et al.
Pubblicazione: (2025)