title: Integrated analysis of pharmacologic, clinical and SNP microarray data using Projection Onto the Most Interesting Statistical Evidence with Adaptive Permutation Testing.
abstract: We recently developed the Projection Onto the Most Interesting Statistical Evidence (PROMISE) procedure that uses prior biological knowledge to guide an integrated analysis of gene expression data with multiple biological and clinical endpoints. Here, PROMISE is adapted to the integrated analysis of pharmacologic, clinical and genome-wide genotype data. An efficient permutation-testing algorithm is introduced so that PROMISE is computationally feasible in this higher-dimension setting. In the analysis of a paediatric leukaemia data set, PROMISE effectively identifies genomic features that exhibit a biologically meaningful pattern of association with multiple endpoint variables.
authors.affiliation: Department of Biostatistics, St. Jude Children's Research Hospital, Memphis, TN 38105, USA. stanley.pounds@stjude.org
authors.forename: Stan
authors.initials: S
authors.lastname: Pounds
authors.forename: Xueyuan
authors.initials: X
authors.lastname: Cao
authors.forename: Cheng
authors.initials: C
authors.lastname: Cheng
authors.forename: Jun J
authors.initials: JJ
authors.lastname: Yang
authors.forename: Dario
authors.initials: D
authors.lastname: Campana
authors.forename: Ching-Hon
authors.initials: CH
authors.lastname: Pui
authors.forename: William E
authors.initials: WE
authors.lastname: Evans
authors.forename: Mary V
authors.initials: MV
authors.lastname: Relling
mesh_terms: D000465:Algorithms; D019295:Computational Biology; D003627:Data Interpretation, Statistical; D057225:Data Mining; D030541:Databases, Genetic; D055106:Genome-Wide Association Study / Q000706:statistics & numerical data; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data*; D020641:Polymorphism, Single Nucleotide; D054198:Precursor Cell Lymphoblastic Leukemia-Lymphoma / Q000188:drug therapy / Q000235:genetics; D016032:Randomized Controlled Trials as Topic / Q000706:statistics & numerical data; D012984:Software