Lummy Maria Oliveira Monteiro

VaLPAS pairs a bi-directional autoencoder with correlation for omics guilt-by-association with calibrated confidence; in L. starkeyi its autoencoder linked 176 unidentified metabolites to known-function proteins at ≥50% confidence.

PathwaySeeker uses AI to reason about organism-specific metabolic networks using proteomic and metabolomic data, distinguishing confirmed reactions from hypotheses.

This paper identifies DyP peroxidases from mealworms that oxidize low-density polyethylene, initiating biological deconstruction and providing molecular targets for scalable PE upcycling.

PredicTF predicts bacterial transcription factors in microbial communities using genomic and metagenomic data from environmental isolates and anammox bioreactors.

The paper constructs synthetic promoters in E. coli to study how cis-regulatory element arrangements affect transcription factor binding and gene expression outcomes.

The paper identifies an amino acid critical for inducer recognition in bacterial regulators and creates engineered TFs responsive to aspirin.

The paper studies synthetic bacterial promoters to show emergent properties from combinations of CRP and IHF binding sites.