Primary Developer: John Docter
Please reach out to [email protected] with any questions
EcoGenoRisk is designed to assess the risk a synthetic organism can introduce into the environment.
EcoGenoRisk is composed of HazID, EnvCen, and RiskQ.
Utilizes DIAMOND sequence aligner to run a functional comparison of a synbio organism against all known organisms.
1 through 5: Outputs the most susceptible organism to competition.
_6_Competitor_Find.py: Outputs the InchiKeys that are the shared reactants for different enzymes, i.e. what reactants the topmatch organism and synbio organism will be competing for.
_7_SPLENDA.py: Takes in the JSON file of BRENDA's inhibitor list per enzyme and converts it to a csv for use in _7_PoisInhibitor _7_PoisInhibitor.py: Takes in a list of all Inhibitors and their EC numbers and outputs a list of species and EC's that are inhibitied by a product of the synbio org and what inhibits them
Biome specific functional analysis
Runs on DIAMOND and JGI to identify most susceptible biome to invasion across multiple biome inputs
Allows for deep dive into bin lineage and enzymatic effect of synbio invasion on any given environment
EnCen GUI Package is available to test the tool and run small analyses without heavy coding knowledge
NeighborReplace: Confirms likely occupancy of a synbio organism within a given habitat through a taxonomic similairty search of resident organisms
OutfitterCheck: Predicts likely establishment or extinction by genomic predictions of all required functions matching physical-chemical constraints