Cover Image

A scalable gene network model of regulatory dynamics in single cells

Fuente: arXiv

Saved in:

Bibliographic Details
Main Authors:	Bertin, Paul, Viviano, Joseph D., Tejada-Lapuerta, Alejandro, Wang, Weixu, Bauer, Stefan, Theis, Fabian J., Bengio, Yoshua
Format:	Preprint
Published:	2025
Subjects:	Molecular Networks Machine Learning
Online Access:	Acceder al recurso
Tags:	Add Tag No Tags, Be the first to tag this record!

Similar Items

Approaches for benchmarking single-cell gene regulatory network inference methods
by: Uzun, Yasin
Published: (2023)

Inference of dynamical gene regulatory networks from single-cell data with physics informed neural networks
by: Mircea, Maria, et al.
Published: (2024)

Restoring information in aged gene regulatory networks by single knock-ins
by: LeFebre, Ryan, et al.
Published: (2026)

A computational scheme connecting gene regulatory network dynamics with heterogeneous stem cell regeneration
by: Li, Yakun, et al.
Published: (2024)

Quantitative ergodicity for gene regulatory networks with transcriptional bursting
by: Gaillard, Mathilde, et al.
Published: (2026)

Efficient stochastic simulation of gene regulatory networks using hybrid models of transcriptional bursting
by: Gaillard, Mathilde, et al.
Published: (2025)

Predicting the genetic component of gene expression using gene regulatory networks
by: Mohammad, Gutama Ibrahim, et al.
Published: (2024)

Efficient approximations of transcriptional bursting effects on the dynamics of a gene regulatory network
by: Kursawe, Jochen, et al.
Published: (2024)

Hierarchical cell identities emerge from animal gene regulatory mechanisms
by: Grishechkin, Anton, et al.
Published: (2024)

Canalization as a stabilizing principle of gene regulatory networks: a discrete dynamical systems perspective
by: Kadelka, Claus
Published: (2025)

Practical indistinguishability in a gene regulatory network inference problem, a case study
by: FitzGerald, Cody E., et al.
Published: (2025)

A compositional account of motifs, mechanisms, and dynamics in biochemical regulatory networks
by: Aduddell, Rebekah, et al.
Published: (2023)

Sex chromosome stability and turnover across vertebrates: a developmental gene regulatory network perspective
by: Ma, Wen-Juan, et al.
Published: (2026)

A meta-analysis of Boolean network models reveals design principles of gene regulatory networks
by: Kadelka, Claus, et al.
Published: (2020)

Epigenetic feedback reshapes dynamical landscapes in gene regulatory networks
by: Hauck, Sascha H., et al.
Published: (2025)

Modelling the effects of biological intervention in a dynamical gene network
by: Champagnat, Nicolas, et al.
Published: (2025)

Efficient Shapley values computation for Boolean network models of gene regulation
by: Pham, Giang, et al.
Published: (2026)

Multicellular control of gene networks
by: Allison, Kyle R.
Published: (2025)

Imperfect molecular detection renormalizes apparent kinetic rates in stochastic gene regulatory networks
by: Zabaikina, Iryna, et al.
Published: (2025)

Molecular causality in the advent of foundation models
by: Lobentanzer, Sebastian, et al.
Published: (2024)

Genetic studies through the lens of gene networks
by: Subirana-Granés, Marc, et al.
Published: (2024)

Trading bits in the readout from a genetic network
by: Bauer, Marianne, et al.
Published: (2020)

Control of genes by self-organizing multicellular interaction networks
by: Allison, Kyle R.
Published: (2026)

The CausalBench challenge: A machine learning contest for gene network inference from single-cell perturbation data
by: Chevalley, Mathieu, et al.
Published: (2023)

Complexity reduction by symmetry: uncovering the minimal regulatory network for logical computation in bacteria
by: Álvarez-García, Luis A., et al.
Published: (2023)

Scalable vertex guided filtrations identify structurally relevant genes in cancer networks
by: Viana, Edmara, et al.
Published: (2026)

Gene regulatory network inference algorithm based on spectral signed directed graph convolution
by: Xi, Rijie, et al.
Published: (2025)

Informational blueprints reveal condition-dependent gene regulatory architectures
by: Gökmen, Doruk Efe, et al.
Published: (2026)

Translating and evaluating single-cell Boolean network interventions in the multiscale setting
by: Metzcar, John, et al.
Published: (2025)

Inferring gene regulation dynamics from static snapshots of gene expression variability
by: Joly-Smith, Euan, et al.
Published: (2021)

Balancing reaction-diffusion network for cell polarization pattern with stability and asymmetry
by: Chen, Yixuan, et al.
Published: (2024)

Modular control of Boolean network models
by: Murrugarra, David, et al.
Published: (2024)

The gene function prediction challenge: large language models and knowledge graphs to the rescue
by: Sunil, Rohan Shawn, et al.
Published: (2024)

Flexibility in noisy cell-to-cell information dynamics
by: Qunbar, Ismail, et al.
Published: (2024)

GCnet: Using Granger causality to explore the dynamic causality relations among genes as-sociated with intellectual disability in human brain
by: Brandt, Lukas Madsen, et al.
Published: (2025)

Evaluation of network-guided random forest for disease gene discovery
by: Hu, Jianchang, et al.
Published: (2023)

ScAtt: an Attention based architecture to analyze Alzheimer's disease at cell type level from single-cell RNA-sequencing data
by: Liu, Xiaoxia, et al.
Published: (2024)

A novel model class for bowtie biological networks with universal classification properties
by: Johnson, Charles A., et al.
Published: (2025)

Strong regulatory graphs
by: Gustafsson, Patric, et al.
Published: (2023)

A spontaneously patterning reaction diffusion network, containing an integrated activator inhibitor and substrate depletion mechanism, specifies trichoblast cell fate in Arabidopsis roots
by: Mills, Hayley, et al.
Published: (2024)