Database Overview

Query types

Query by gene name

Query inputs and outputs

Input	Output	ASAP	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name (e.g. lacY) sequence	description function,localization,process (GO definitions )	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name (genbank namespace) more generally gene name (namespace1)	gene name (ecogene namespace) more generally gene name (namespace2) Some namespaces: genbank pdb ecogene	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name	pathway	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes

Query by pathway

Query inputs and outputs

Input	Output	ASAP	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
pathway	gene name	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes

Query by DNA location

Query inputs and outputs

Input	Output	ASAP	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
DNA location	Gene name	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene function (GO term) same for process and other GO branches	gene name	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name	experimental data *gene expression *protein interaction	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
sequence	related sequence (BLAST)	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name (species 1)	gene name( species 2)	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
gene name	*mutations sequence difference phenotype	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes

Query by strain

Query inputs and outputs

Input	Output	ASAP	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
strain ID	*gene name mutation source	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes
metabolic process	*regulatory circuits transcription factors/sites	ASAP (replace these)	GenoBase	EcoCyc	EcoGene	RegulonDB	Other	Notes