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Series GSE3492 Query DataSets for GSE3492
Status Public on Oct 25, 2005
Title Whole-blood samples from women exposed to hormone replacement therapy
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The American Women’s Health Initiative study published in July 2002 caused considerable concern among hormone replacement therapy (HRT) users and prescribers in many countries. This study is an exploratory research comparing the genome wide expression profile in whole blood samples according to HRT use.
Within the Norwegian Women and Cancer study, 100 postmenopausal women (50 HRT users and 50 non-HRT users) born between 1943 and 1949 with normal to high body mass index and no other medication use were selected. After total RNA extraction, amplification and labelling, the samples were hybridized together with a common reference (Universal human reference RNA, Stratagen) to Agilent Human 1A oligoarrays (G4110b, Agilent Technologies, Palo Alto, CA) containing 20,173 unique genes. Differentially expressed genes were used to build a classifier using the nearest shrunken centroids method (PAM). Then, we tested the significant changes in single genes by different methods like t-test, Significance Analysis of Microarrays (SAM) and Bayesian ANOVA analysis (BAM).
Results did not reveal any distinct gene list which predicted accurately HRT exposure (error rate = 0.45). Classifier performance slightly improved (error rate = 0.29) including only women who were using continuous combined HRT treatment. According to the small amplitude of expression alterations observed after HRT use in whole blood, large sample sizes are needed to identify significant single genes differentially expressed. However, significant enrichments in biologic process of genes with small changes after HRT use were observed (e.g. receptor and transporter activities, immune response, frizzled signalling pathway, actin filament organization, glycogen metabolism).
Keywords: gene expression profile and exposure
 
Overall design Indirect design with Startagen reference
47 non HRT users and 42 HRT users
No technical replicates
 
Contributor(s) Dumeaux V, Johansen J, Borresen-Dale A, Lund E
Citation(s) 16648556
Submission date Oct 21, 2005
Last update date Dec 06, 2012
Contact name Vanessa Dumeaux
E-mail(s) [email protected]
Organization name "The Norwegian Women and Cancer project"
Street address University of Tromsoe
City Tromsoe
ZIP/Postal code 9037
Country Norway
 
Platforms (1)
GPL887 Agilent-012097 Human 1A Microarray (V2) G4110B (Feature Number version)
Samples (89)
GSM78879 Radium Human 22k v2.0, NOWAC01
GSM78880 Radium Human 22k v2.0, NOWAC04
GSM78881 Radium Human 22k v2.0, NOWAC11
Relations
BioProject PRJNA93315

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Supplementary file Size Download File type/resource
GSE3492_RAW.tar 3.3 Mb (http)(custom) TAR

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