Packages

GeTPRA is a framework that systematically predicts Gene-Transcript-Protein-Reaction Associations in human metabolism and updates a human genome-scale metabolic model

Recon manager is a collection of scripts to generate Recon 2M and simulate Recon models

DeepEC: A deep learning-powered computational framework

A framework that systematically predicts drug-drug interactions (DDIs) and drug-food interactions (DFIs)

iBridge: A gene overexpression targeting method that considers both endogenous and heterologous genes

13C-MFA: A MATLAB-based simulator for flux analysis using carbon 13

DeepTFactor: a deep learning-based tool for the prediction of transcription factors

DeepRFC: a deep learning approach to evaluate biochemical reaction feasibility

Retro-precursor-selection is a framework that predicts precursors of target products using retrobiosynthesis

DeepECtransformer: a deep learning model which utilizes transformer layers as a neural network architecture to predict EC numbers

A deep learning model that predicts the impact of cultivation conditions on gene regulation in E. coli

The method of predicting metabolites and metabolic pathways associated with specific gene mutations