A genomic strategy to elucidate modules of oncogenic pathway signaling networks. Export

@article{citeulike:4532703, abstract = {Recent studies have emphasized the importance of pathway-specific interpretations for understanding the functional relevance of gene alterations in human cancers. Although signaling activities are often conceptualized as linear events, in reality, they reflect the activity of complex functional networks assembled from modules that each respond to input signals. To acquire a deeper understanding of this network structure, we developed an approach to deconstruct pathways into modules represented by gene expression signatures. Our studies confirm that they represent units of underlying biological activity linked to known biochemical pathway structures. Importantly, we show that these signaling modules provide tools to dissect the complexity of oncogenic states that define disease outcomes as well as response to pathway-specific therapeutics. We propose that this model of pathway structure constitutes a framework to study the processes by which information propogates through cellular networks and to elucidate the relationships of fundamental modules to cellular and clinical phenotypes.}, author = {Chang, Jeffrey T. and Carvalho, Carlos and Mori, Seiichi and Bild, Andrea H. and Gatza, Michael L. and Wang, Quanli and Lucas, Joseph E. and Potti, Anil and Febbo, Phillip G. and West, Mike and Nevins, Joseph R.}, citeulike-article-id = {4532703}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.molcel.2009.02.030}, citeulike-linkout-1 = {http://linkinghub.elsevier.com/retrieve/pii/S1097276509001464}, citeulike-linkout-2 = {http://www.f1000.com/article/id/1161172}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/19362539}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=19362539}, day = {10}, doi = {10.1016/j.molcel.2009.02.030}, issn = {1097-4164}, journal = {Molecular cell}, keywords = {gene\_lists, modules, network, pathway\_analysis}, month = {April}, number = {1}, pages = {104--114}, posted-at = {2009-11-02 15:54:31}, priority = {5}, title = {A genomic strategy to elucidate modules of oncogenic pathway signaling networks.}, url = {http://dx.doi.org/10.1016/j.molcel.2009.02.030}, volume = {34}, year = {2009} }

TY - JOUR ID - citeulike:4532703 L3 - citeulike-article-id:4532703 N2 - Recent studies have emphasized the importance of pathway-specific interpretations for understanding the functional relevance of gene alterations in human cancers. Although signaling activities are often conceptualized as linear events, in reality, they reflect the activity of complex functional networks assembled from modules that each respond to input signals. To acquire a deeper understanding of this network structure, we developed an approach to deconstruct pathways into modules represented by gene expression signatures. Our studies confirm that they represent units of underlying biological activity linked to known biochemical pathway structures. Importantly, we show that these signaling modules provide tools to dissect the complexity of oncogenic states that define disease outcomes as well as response to pathway-specific therapeutics. We propose that this model of pathway structure constitutes a framework to study the processes by which information propogates through cellular networks and to elucidate the relationships of fundamental modules to cellular and clinical phenotypes. IS - 1 JF - Molecular cell SN - 1097-4164 EP - 114 TI - A genomic strategy to elucidate modules of oncogenic pathway signaling networks. VL - 34 SP - 104 KW - gene_lists KW - modules KW - network KW - pathway_analysis AU - Chang, Jeffrey AU - Carvalho, Carlos AU - Mori, Seiichi AU - Bild, Andrea AU - Gatza, Michael AU - Wang, Quanli AU - Lucas, Joseph AU - Potti, Anil AU - Febbo, Phillip AU - West, Mike AU - Nevins, Joseph PY - 2009/04/10/ UR - http://dx.doi.org/10.1016/j.molcel.2009.02.030 ER -