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The identification of mutated driver genes and driver pathways from these data is a significant challenge.
The maximum weight submatrix problem defined to find mutated driver pathways is based on two specific properties, i.e., high coverage and high exclusivity.
Tumors harboring these genetic changes frequently exhibit striking sensitivities to inhibition of these oncogenic driver pathways, a principle referred to as oncogene addiction.
In this paper, we introduced a Multi-objective Optimization model based on a Genetic Algorithm (MOGA) to solve the maximum weight submatrix problem, which can be employed to identify driver genes and driver pathways promoting cancer proliferation.
There are two hypotheses when identifying collaborative driver pathways.
MUDPAC identifies collaborative driver pathways in cancer using a two-step approach: mutational pathway enrichment analysis followed by greedy search for the collaborative driver pathways.
Ascending and descending information is relayed through the thalamus via strong, "driver" pathways.
This demonstrates that the 2 driver pathways innervate the same dendritic compartment (the proximal dendrite).
MUDPAC identifies representative driver pathways for all 4 subtypes of breast cancer using TCGA data sets.
We also compared the sample coverage of driver pathways for both methods.
As a result, very few pathways may be identified as the set of driver pathways.
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