Supplementary material for "Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks"
This page contains data, softwares and supplementary results for the article "Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks", published online on 31 January 2006, in Molecular Systems Biology.
Full text is available at http://www.nature.com/msb/journal/v2/n1/full/msb4100047.html
Authors of the paper are Noam Slonim, Olivier Elemento and Saeed Tavazoie. NS and OE have equally contributed to this work.
Data
- Phylogenetic profiles for all 202 bacterial genomes
- Phenotype profiles ("inf" signifies that it is unknown whether the phenotype is present or absent)
- species ID / species name correspondence table
note: the first line of each phylogenetic_profiles.txt file and of phenotypes_profiles.txt contains
the species IDs. Species IDs are not necessarily in the same order in
the phylogenetic and phenotype profile files. The species name
associated with each species ID is given in the above correspondance
table.
Softwares used in the study
- Iclust (information-based clustering)
- EstI (estimation of mutual information values)
Supplementary results
Motility
- Figure in paper
- All motility clusters
- All Motility GGs
Gram-negative
- Figure in paper
- All Gram-negative clusters
- All Gram-negative GGs
Spore formation
- Figure in paper
- All clusters
- All Spore formation GGs
Oxygen requirement : Aerobic / Facultative / Anaerobic
- Figure in paper
- All aerobic clusters
- All aerobic GGs
- All facultative clusters
- All facultative GGs
- All anaerobic clusters
- All anaerobic GGs
Intracellular pathogenicity
- Figure in paper
- All clusters
- All Intracellular pathogenicity GGs