Article

Methods for Continuous-Valued Training Data Generation from Genome-Scale Metabolic Models: Partial-Inhibition FBA with Mixed Essentiality Sampling, Applied to ESKAPE Drug Target Curation

2026-04-13

Abstract excerpt

<title>Abstract</title> <p> <bold>Background</bold> . Computational antimicrobial target discovery faces three methodological limitations: (i) knockout-only FBA yields binary phenotypes unsuitable for regression training, (ii) no experimentally labeled toxicity datasets exist at the gene-target level, and (iii) pipelines rarely report negative validation results. <bold>Methods</bold> . We describe a pipeline...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 646343cf-4d85-50b4-81c6-2a291c4efc88
DOI: 10.21203/rs.3.rs-9374605/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Methods for Continuous-Valued Training Data Generation from Genome-Scale Metabolic Models: Partial-Inhibition FBA with Mixed Essentiality Sampling, Applied to ESKAPE Drug Target CurationDOI 10.21203/rs.3.rs-9374605/v1Read

Why Standard LP-Based Flux Balance Analysis Cannot Detect Synergy for Essential Gene Pairs in ESKAPE Pathogens: A Systematic Evaluation and Proof-of-Concept Feature-Based ML AlternativeSemantic proximity Read

UniPert-G2CP bridges genetic and chemical screens from molecular representation to phenotype modeling.Semantic proximity Read

BIOTIA-DX RESISTANCE Achieved the Best Antimicrobial Resistance Phenotype Prediction Accuracy at CAMDA 2026Semantic proximity Read

Rational strain design with minimal phenotype perturbation.Semantic proximity Read

Guiding the Refinement of Biochemical Knowledgebases with Ensembles of Metabolic Networks and Machine LearningSemantic proximity Read

From Hype to Health Check: Critical Evaluation of Drug Response Prediction Models with DrEvalSemantic proximity Read

AI platform for CRISPR functional mapping and function-based drug designSemantic proximity Read

datadrivenhypothesis.org: A resource for metabolic gene discovery through integrated pathway co-essentiality mappingSemantic proximity Read

Cancer Cell Line Heterogeneity Imposes a Primary Bottleneck for Virtual Perturbation Screening at ScaleSemantic proximity Read

New Workflow Predicts Drug Targets Against SARS-CoV-2 via Metabolic Changes in Infected CellsSemantic proximity Read

Tripleknock: predicting lethal effect of three-gene knockout in bacteria by deep learningSemantic proximity Read

Integration of graph neural networks and genome-scale metabolic models for predicting gene essentiality.Semantic proximity Read