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Analysis of the protein networks was performed by using Ingenuity Pathways Analysis (Ingenuity Systems, Redwood City, CA), software able to identify molecular networks based on known functional or physical interactions among the proteins encoded by the differentially expressed genes.
Candidate genes (and the SNPs in the corresponding gene regions) were grouped based on known functional similarity.
IPA is a software tool that extracts and categorizes multiplexed information such as gene expression microarray data into groups based on known functional involvement of individual components (i.e., individual genes) as documented in scientific literature.
These networks are based on known functional interactions between the gene products as described in the literature.
The Illumina 650Y BeadChip methodology provides genotypes of predominantly biallelic SNPs that are approximately evenly spaced across the genome rather than selected based on known functional significance.
The groups were hypothesized to have varying serum concentrations of active cyclophosphamide metabolites based on known functional significance of the genetic variants.
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IPA predicts functional networks based on known protein protein and functional interactions.
IPA predicts functional networks based on known protein-protein and functional interactions.
IPA software predicts functional networks based on known protein-protein and functional interactions.
STRING identifies and visualizes functional networks based on known and predicted protein-protein interactions [ 24].
The final stage of postprocessing involved the tagging of different structures in the heart based on known differences in electrical, mechanical, and/or functional properties, which are important for subsequent simulations of heart function.
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