Discover, rate, and discuss biology preprints.

The paper shows hypoxic memory in cancer cells affects tumor invasion dynamics through time-dependent changes in cell state and spatial oxygen dynamics.

This study uses UK Biobank data to develop an 18-year mortality risk estimator for domain-specific intrinsic capacity, identifying immune system activation across domains.

This paper introduces an AI-assisted framework for reconstructing, extending, and calibrating quantitative systems pharmacology models using large language models and SBML-based modeling.

DNA O-MAP identifies molecular neighborhoods around specific genomic loci using programmable probes and proteomics.

The paper introduces SPECTRA, a method to reconstruct metabolic networks from multi-omics data at large-scale, improving speed and reaction inclusion across cancer cell lines, microbial reconstructions, and synthetic gut microbiota.

The paper identifies key genes and potential drugs for PCOS by integrating transcriptomics and network pharmacology across multiple cohorts.

The paper develops a multi-axis ODE framework to model bistable dynamics in difficult-to-treat rheumatic diseases, supported by cross-disease transcriptomic analysis.

This study examines gene expression dynamics in pigs during heat stress, identifying distinct transcriptional responses in short-term and long-term acclimation phases.

This study uses machine learning on metabolomic data to detect and subtype ketoacidosis in forensic cases with high accuracy.

This paper analyzes gene regulatory networks to show how cell fate transitions and spatial pattern formation arise from temporal multistability and network topology.

The paper identifies regulatory elements and transcription factors governing gene expression in the embryonic mesothelium across three organs, revealing conserved and organ-specific mechanisms.

The paper introduces DIGEST, an ultrasensitive digital immunoassay for quantifying host proteins in fecal samples, demonstrating its utility in tracking immune dynamics and predicting disease outcomes.

The paper investigates developmental system drift in plant meristem development using computational models and genomic data, finding frequent regulatory changes without corresponding gene expression shifts.

The paper develops a stochastic model of gene expression with state-dependent protein activation delays, showing that such delays reduce protein level fluctuations.

The paper identifies sex-biased regulation of cancer genes in normal tissues, linking these differences to sex-specific cancer incidence patterns.

The paper identifies a phosphorylation switch in PAGE4 as a key mechanism in MED12-mutant fibroid pathogenesis, revealing its role in rewiring the interactome and transcriptional machinery.

The paper quantifies protein abundances and stoichiometries in Chlamydomonas reinhardtii during the cell cycle using the total protein approach.

This study shows that habitat reconstruction and genome mutation can equally increase bacterial fitness through experimental evolution and active learning.

OmicGlaze provides a spatial multi-omic framework to analyze TBI, identifying gene regulatory networks and region-specific biological changes.

The paper investigates how heterogeneity in PhoP expression affects downstream gene activation and antimicrobial peptide tolerance in E. coli.