Biology – Quantitative Biology – Molecular Networks
Scientific paper
2012-02-02
Global modeling of transcriptional responses in interaction networks. Leo Lahti, Juha E.A. Knuuttila, and Samuel Kaski. Bioinf
Biology
Quantitative Biology
Molecular Networks
19 pages, 13 figures
Scientific paper
10.1093/bioinformatics/btq500
Motivation: Cell-biological processes are regulated through a complex network of interactions between genes and their products. The processes, their activating conditions, and the associated transcriptional responses are often unknown. Organism-wide modeling of network activation can reveal unique and shared mechanisms between physiological conditions, and potentially as yet unknown processes. We introduce a novel approach for organism-wide discovery and analysis of transcriptional responses in interaction networks. The method searches for local, connected regions in a network that exhibit coordinated transcriptional response in a subset of conditions. Known interactions between genes are used to limit the search space and to guide the analysis. Validation on a human pathway network reveals physiologically coherent responses, functional relatedness between physiological conditions, and coordinated, context-specific regulation of the genes. Availability: Implementation is freely available in R and Matlab at http://netpro.r-forge.r-project.org
Kaski Samuel
Knuuttila Juha E. A.
Lahti Leo
No associations
LandOfFree
Global modeling of transcriptional responses in interaction networks does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.
If you have personal experience with Global modeling of transcriptional responses in interaction networks, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Global modeling of transcriptional responses in interaction networks will most certainly appreciate the feedback.
Profile ID: LFWR-SCP-O-188465