Gregory W Carter
Affiliation: Institute for Systems Biology
- Inferring network interactions within a cellGreg W Carter
Institute for Systems Biology, 1441 N 34th Street, Seattle, WA 98103, USA
Brief Bioinform 6:380-9. 2005..Considering yeast as a model system, recent analytical methods are reviewed here and specific aims are proposed to improve network interaction inference and facilitate predictive biological modelling...
- Disentangling information flow in the Ras-cAMP signaling networkGregory W Carter
Institute for Systems Biology, Seattle, Washington 98103, USA
Genome Res 16:520-6. 2006..The resulting series of linked subnetworks maps multiple putative pathways of information flow through a dense signaling network, and provides a set of testable hypotheses for complex gene-expression effects across the genome...
- Prediction of phenotype and gene expression for combinations of mutationsGregory W Carter
Institute for Systems Biology, Seattle, WA 98103, USA
Mol Syst Biol 3:96. 2007..For corresponding combinations of mutations, the network model predicted quantitative gene expression profiles and precise phenotypic effects. Multiple predictions were tested and verified...
- Maximal extraction of biological information from genetic interaction dataGregory W Carter
Institute for Systems Biology, Seattle, Washington, United States of America
PLoS Comput Biol 5:e1000347. 2009....
- A systems-biology approach to modular genetic complexityGregory W Carter
Institute for Systems Biology, 1441 North 34th Street, Seattle, Washington 98103, USA
Chaos 20:026102. 2010..We further discuss the consequences for genetic interaction networks and propose a framework for the analysis of genetic modularity...
- Derivation of genetic interaction networks from quantitative phenotype dataBecky L Drees
Institute for Systems Biology, 1441 N, 34th Street, Seattle, WA 98103, USA
Genome Biol 6:R38. 2005..Mutations formed cliques of significant mutual information in their large-scale patterns of genetic interaction. These local and global interaction patterns reflect the effects of gene perturbations on biological processes and pathways...
- Systematic measurement of transcription factor-DNA interactions by targeted mass spectrometry identifies candidate gene regulatory proteinsHamid Mirzaei
Institute for Systems Biology, Seattle, WA 98109, USA
Proc Natl Acad Sci U S A 110:3645-50. 2013..These results demonstrate the utility of SRM-based targeted proteomics to guide the identification of gene-specific transcriptional regulators...
- Biological Information as Set-Based ComplexityDavid J Galas
Institute for Systems Biology, Seattle, WA, USA Battelle Memorial Institute, Columbus, OH, USA
IEEE Trans Inf Theory 56:667-677. 2010..The maximization of this new measure, which can be formulated in terms of the universal information distance, appears to have several useful and interesting properties, some of which we illustrate with examples...
- Cytoscape: a community-based framework for network modelingSarah Killcoyne
Institute for Systems Biology, Seattle, WA, USA
Methods Mol Biol 563:219-39. 2009..It also describes the development of a plugin used to investigate a particular research question in systems biology and walks through an example analysis using Cytoscape...