title: Systemic Analysis of Regulated Functional Networks.
abstract: In biological and medical sciences, high throughput analytical methods are now commonly used to investigate samples of different conditions, e.g., patients versus controls. Systemic functional analyses emerged as a reference method to go beyond a list of regulated compounds, and identify activated or inactivated biological functions. This approach holds the promise for a better understanding of biological systems, of the mechanisms involved in disease progression, and thus improved diagnosis, prognosis, and treatment. In this chapter, we present a simple workflow to conduct pathway analyses on biological data using the freely available Reactome platform (http://www.reactome.org).
authors.affiliation: Graduate Program in Optimization, Universidad Autónoma Metropolitana Azcapotzalco, Mexico City, Mexico.
authors.forename: Luis Francisco
authors.initials: LF
authors.lastname: Hernández Sánchez
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.
authors.forename: Elise
authors.initials: E
authors.lastname: Aasebø
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.
authors.forename: Frode
authors.initials: F
authors.lastname: Selheim
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway.|Norwegian Multiple Sclerosis Competence Centre, Department of Neurology, Haukeland University Hospital, Bergen, Norway.
authors.forename: Frode S
authors.initials: FS
authors.lastname: Berven
authors.affiliation: KG Jebsen Center for Diabetes Research, Department of Clinical Science, University of Bergen, Bergen, Norway.|Department of Pediatrics, Haukeland University Hospital, Bergen, Norway.
authors.forename: Helge
authors.initials: H
authors.lastname: Ræder
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.|KG Jebsen Center for Diabetes Research, Department of Clinical Science, University of Bergen, Bergen, Norway.
authors.forename: Harald
authors.initials: H
authors.lastname: Barsnes
authors.affiliation: Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway. marc.vaudel@uib.no.
authors.forename: Marc
authors.initials: M
authors.lastname: Vaudel
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D060066:Protein Interaction Maps; D015398:Signal Transduction; D049490:Systems Biology / Q000379:methods*
keywords: Data interpretation; Functional proteomics; Pathway analysis