E-GEOD-40669 - In vitro Expansion of Hematopoietic Stem Induces Gene Expression Changes

Status
Released on 3 December 2013, last updated on 9 December 2013
Organism
Homo sapiens
Samples (9)
Array (1)
Protocols (6)
Description
Hematopoietic stem and progenitor cells (HPCs) can be maintained in vitro, but the vast majority of their progeny loses “stemness” during culture. We have analyzed DNA methylation (DNAm) profiles of freshly isolated CD34+ cells and upon expansion on either tissue culture plastic (TCP) or mesenchymal stromal cells (MSCs). Cultured HPCs acquired significant DNA-hypermethylation, particularly in up-stream promoter regions and shore-regions of CpG islands (CGIs). To analyze if these DNAm changes are relevant for differential gene expression we analyzed gene expression profiles of additional samples. As expected highly expressed genes (10% with highest signal intensity in gene expression arrays) were hardly methylated at promoter regions, CGIs and shore-regions. 9 samples were hybridized GeneChip Human Gene 1.0 ST Arrays (Affymetrix)
Experiment type
transcription profiling by array 
Contacts
Wolfgang Wagner <wwagner@ukaachen.de>, Bernd Denecke, Carola I Weidner, Martin Zenke, Monika Wölfler, Qiong Lin, Thomas Walenda
Citation
Hematopoietic Stem and Progenitor Cells Acquire Distinct DNA-Hypermethylation During in vitro Culture. Weidner CI, Walenda T, Lin Q, W�lfler MM, Denecke B, Costa IG, Zenke M, Wagner W. , Europe PMC 24284763
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-40669.idf.txt
Sample and data relationshipE-GEOD-40669.sdrf.txt
Raw data (1)E-GEOD-40669.raw.1.zip
Processed data (1)E-GEOD-40669.processed.1.zip
Array designA-AFFY-141.adf.txt
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