MOTIVATION: To identify genes suitable for medical diagnostics microarray data is assessed in the context of clinical databases, which store complex information about the patient phenotype. The wealth of data and lacking standards make it difficult to analyse this kind of data. RESULTS: We present a workflow for exploratory analysis of microarray data together with clinical data consisting of four steps: definition of clinically meaningful research questions in a masterfile, generation of analysis files, selection and characterization of differentially expressed genes, and estimation of classification accuracy. We applied this workflow to large data sets from the field of cardiology and oncology (n~500 patients). Systematic data management of microarray data and clinical data helps to make results more transparent and comparable.
MOTIVATION: To identify genes suitable for medical diagnostics microarray data is assessed in the context of clinical databases, which store complex information about the patient phenotype. The wealth of data and lacking standards make it difficult to analyse this kind of data. RESULTS: We present a workflow for exploratory analysis of microarray data together with clinical data consisting of four steps: definition of clinically meaningful research questions in a masterfile, generation of analysis files, selection and characterization of differentially expressed genes, and estimation of classification accuracy. We applied this workflow to large data sets from the field of cardiology and oncology (n~500 patients). Systematic data management of microarray data and clinical data helps to make results more transparent and comparable.
Authors: M Dugas; C Schoch; S Schnittger; T Haferlach; S Danhauser-Riedl; W Hiddemann; D Messerer; K Uberla Journal: Leukemia Date: 2001-12 Impact factor: 11.528
Authors: M Dugas; E Hoffmann; S Janko; S Hahnewald; T Matis; J Miller; Ch v Bary; A Farnbacher; V Vogler; K Uberla Journal: Comput Methods Programs Biomed Date: 2002-04 Impact factor: 5.428
Authors: C H Yeang; S Ramaswamy; P Tamayo; S Mukherjee; R M Rifkin; M Angelo; M Reich; E Lander; J Mesirov; T Golub Journal: Bioinformatics Date: 2001 Impact factor: 6.937
Authors: Claudia Schoch; Alexander Kohlmann; Susanne Schnittger; Benedikt Brors; Martin Dugas; Susanne Mergenthaler; Wolfgang Kern; Wolfgang Hiddemann; Roland Eils; Torsten Haferlach Journal: Proc Natl Acad Sci U S A Date: 2002-07-08 Impact factor: 11.205
Authors: Marc J van de Vijver; Yudong D He; Laura J van't Veer; Hongyue Dai; Augustinus A M Hart; Dorien W Voskuil; George J Schreiber; Johannes L Peterse; Chris Roberts; Matthew J Marton; Mark Parrish; Douwe Atsma; Anke Witteveen; Annuska Glas; Leonie Delahaye; Tony van der Velde; Harry Bartelink; Sjoerd Rodenhuis; Emiel T Rutgers; Stephen H Friend; René Bernards Journal: N Engl J Med Date: 2002-12-19 Impact factor: 91.245
Authors: Alexander Kohlmann; Claudia Schoch; Susanne Schnittger; Martin Dugas; Wolfgang Hiddemann; Wolfgang Kern; Torsten Haferlach Journal: Genes Chromosomes Cancer Date: 2003-08 Impact factor: 5.006