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
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
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
MetaFluxNet is a program package for managing
information on the metabolic reaction network and for quantitatively analyzing metabolic fluxes in an
interactive and customized way
BioSilico is a web-based database that facilitates the search and analysis of metabolic pathways
EcoProDB services integrated protein information,
localization, theoretical and experimental 2-D map
Recon2M is a biochemically consistent and transcript-level data-compatible generic human GEM
antiSMASH allows the rapid genome-wide
identification, annotation and analysis of secondary metabolite biosynthesis gene clusters
The antiSMASH database contains pre-computed
antiSMASH results for bacterial genomes available in the NCBI GenBank repository
CRISPy-web is a user-friendly tool to design single
guide RNAs (sgRNAs) for the CRISPR/Cas9 system
Computational tools to facilitate synthetic biology of
secondary metabolite production