AMBIENT
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AMBIENT (Active Modules for Bipartite Networks) is a Python module that uses simulated annealing to find areas of a metabolic network (modules) that have some consistent characteristic. AMBIENT does not require predefined pathways and gives highly specific predictions of affected areas of metabolism.
For example, scores for reactions based on transcriptional data of their annotated encoding genes can be used in the network and modules of coordinated expression changes can be found. This provides an alternative to pathway/gene set enrichment analyses which is simultaneously more flexible and more specific.
Any metabolic model in SBML format can be used and scoring of reactions can be based on any scoring system required. Using gene-based scoring (eg. unanalysed microarray data) requires that gene-protein-reaction relationships are present in the metabolic model.
Free download from Shareware Connection - AMBIENT (Active Modules for Bipartite Networks) is a Python module that uses simulated annealing to find areas of a metabolic network (modules) that have some consistent characteristic.
Version: 0.6.3 | Size: 343 KB | Platform: WinOther
Released Date: | Rating: 0 | Title: AMBIENT
Author Url: http://sourceforge.net/projects/ambient-bio
Program Info Url: http://sourceforge.net/projects/ambient-bio
Download Url: http://sourceforge.net/projects/ambient-bio/files/latest/download?source=directory
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