If you want to identify new candidate genes for a function/pathway/phenotype, you can start search by submitting a set of known genes for the function/pathway/phenotype. These submitted genes are used as 'seed genes' for network search. This search page collects closely connected genes to the seed genes on XooNet by 'guilt-by-association' method and list the prioritized genes by total edge weight score (sum of log likelihood score) to the seed gene set. Highly ranked genes are good candidates for new members of a function/pathway/phenotype of interest.

Seed genes
  • Input a set of genes for a function/pathway/phenotype.
  • Use ORF name (ex: PXO_RS00005).
  • Maximum number of seed genes is limited to 500. For less than 4 genes, ROC analyses and within-group connectivity will not be not provided.
  • Each gene name must be separated by any white spaces and commas.
  • Differentially expressed proteins by knockout of stoS and sreK, positive regulators for extracellular polysaccharide production and swarming (Zheng et al. 2016).
  • Queries for finding regulators for rax gene

If you want to get a functional insight for an uncharacterized gene, you can use its network neighbors. XooNet connects genes that are functionally associated. Therefore, the uncharacterized gene may have similar function of its connected network neighbors. This search page collects all known functional annotations (Gene Ontology biological process terms) among neighbors of a query gene on XooNet, and then list the functional terms by the order of enrichment.

Query Genes
  • Use ORF name (ex: PXO_RS00005).
  • We recommend you submit no more than 20 genes per query.
  • Each gene name must be separated by any white spaces, and commas.
  • Differentially expressed proteins by knockout of stoS and sreK, positive regulators for extracellular polysaccharide production and swarming (Zheng et al. 2016).
  • Queries for finding regulators for rax gene