title: Singular value decomposition-based regression identifies activation of endogenous signaling pathways in vivo.
abstract: The ability to detect activation of signaling pathways based solely on gene expression data represents an important goal in biological research. We tested the sensitivity of singular value decomposition-based regression by focusing on functional interactions between the Ras and transforming growth factor beta signaling pathways. Our findings demonstrate that this approach is sufficiently sensitive to detect the secondary activation of endogenous signaling pathways as it occurs through crosstalk following ectopic activation of a primary pathway.
authors.affiliation: Department of Cancer Biology, Abramson Family Cancer Research Institute, University of Pennsylvania, 421 Curie Blvd, BRB II/III 616, Philadelphia, PA 19104, USA. zhandong@mail.med.upenn.edu
authors.forename: Zhandong
authors.initials: Z
authors.lastname: Liu
authors.forename: Min
authors.initials: M
authors.lastname: Wang
authors.forename: James V
authors.initials: JV
authors.lastname: Alvarez
authors.forename: Megan E
authors.initials: ME
authors.lastname: Bonney
authors.forename: Chien-chung
authors.initials: CC
authors.lastname: Chen
authors.forename: Celina
authors.initials: C
authors.lastname: D'Cruz
authors.forename: Tien-chi
authors.initials: TC
authors.lastname: Pan
authors.forename: Mahlet G
authors.initials: MG
authors.lastname: Tadesse
authors.forename: Lewis A
authors.initials: LA
authors.lastname: Chodosh
mesh_terms: D000818:Animals; D045744:Cell Line, Tumor; D019295:Computational Biology / Q000379:methods*; D005260:Female; D020869:Gene Expression Profiling; D008321:Mammary Glands, Animal / Q000378:metabolism; D015674:Mammary Neoplasms, Animal / Q000378:metabolism*; D051379:Mice; D008822:Mice, Transgenic; D012044:Regression Analysis; D015398:Signal Transduction; D016212:Transforming Growth Factor beta / Q000378:metabolism*; D018631:ras Proteins / Q000378:metabolism*
chemical_list: D016212:Transforming Growth Factor beta; D018631:ras Proteins