Genome-scale metabolic model of Methylococcus capsulatus.
Prokaryote Gene Regulatory Network (ProGRN) Inference Pipeline
Methods and data to reproduce the investigation on the adaptive trait found in the genes of the methane oxidation metabolic module of type Ia methanotrophs
Methanoperedens nitroreducens genome-scale metabolic model.
iJV803: a genome-scale metabolic model for Methylomicrobium album BG8
🗨️ Metatranscriptomic analysis of quorum sensing gene expression in methane-fed microbial communities from Lake Washington.
🔗 RB-TnSeq gene fitness profiling of microbial interactions in methanotroph–methylotroph co-culture.
ML soft sensor predicting real-time biomass (OD) in a methanotroph bioreactor from off-gas signals. Gas mass-balance features (OUR, CER, MUR, RQ), XGBoost/Ridge/PLS benchmarked with leave-one-batch-out CV, SHAP interpretability, and live prediction on a running reactor.
🧬 RNA-seq differential expression analysis of a methanotroph across a methane-oxygen counter gradient (Beals & Puri 2024).
🌲 16S rRNA amplicon sequencing analyses of methane-oxidizing community dynamics in forest soils (Beals et al. 2024).
🔍 Integrated metagenomic and metatranscriptomic analyses supporting methylocystabactin discovery (Robes et al. 2025).
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