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E-GEOD-13850 - Transcription profiling of human B-lymphocytes from postmenopausal female smokers with high or low bone mineral density

Status
Submitted on 5 December 2008, released on 20 October 2009, last updated on 4 May 2014
Organism
Homo sapiens
Samples (40)
Array (1)
Protocols (9)
Description
B cells produce important cytokines regulate bone metabolism. We comparison gene expression patterns of circulating B cells in blood from 20 postmenopausal female smokers with low or high bone mineral density (BMD): 10 low BMD vs. 10 high BMD. In total 17 differentially expressed genes were identified with smoking-related osteoporosis. Experiment Overall Design: B cells were isolated from 70 ml of whole blood from each of 20 postmenopausal female smokers, 10 with high BMD and 10 with low BMD, using B cell positive isolation method (Dynabeads CD19,Pan B) from Invitrogen Life Technologies Dynal Biotech Inc,CA. Total RNA was extracted from B cells using Qiagen RNeasy Mini Kit.A total of 4ug totalRNA was used to produced targets for each subject according to standard Affymetrix procedures. Hybridization was made for each subject. Robust Multiarray Algorithm was used to normalize the expression data and smoking-related genes were analyzed using two-way ANOVA under mutiple-testing adjustment combined with our previous GEO data (GSE7429).
Experiment types
transcription profiling by array, unknown experiment type
Contact
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-13850.idf.txt
Sample and data relationshipE-GEOD-13850.sdrf.txt
Raw data (1)E-GEOD-13850.raw.1.zip
Processed data (1)E-GEOD-13850.processed.1.zip
Array designA-AFFY-33.adf.txt
R ExpressionSetE-GEOD-13850.eSet.r
Links