GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE14012 Query DataSets for GSE14012
Status Public on Jan 28, 2009
Title Role of the reprogramming factors in inducing pluripotency
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by array
Summary Induced pluripotent stem (iPS) cells can be obtained from fibroblasts by expression of Oct4, Sox2, Klf4, and c-Myc. To determine how these factors induce this change in cell identity, we carried out genomewide promoter analysis of their binding in iPS and partially reprogrammed cells. Most targets in iPS cells are shared with ES cells and the factors cooperate to activate the ES-like expression program. In partially reprogrammed cells, genes bound by c-Myc have achieved a more ES-like binding and expression pattern. In contrast, genes that are co-bound by Oct4, Sox2, and Klf4 in ES cells and that encode pluripotency regulators show severe lack of both binding and transcriptional activation. Among the factors, c-Myc has a pivotal effect on the initiation of the ES transcription program, including the repression of fibroblast-specific genes. Our analysis begins to unravel how the four factors function together and suggests a temporal and separable order of their effects during reprogramming.
Overall design For genome wide expression analysis:
A. ES/iPS/partial iPS cells were analyzed in duplicates from 2 different cell lines (e.g four samples per cell type)
B. tet inducible factors (tetO/tetS/tetC/tetK) were analyzed individually, a control was an uninduced tet line.
C. OCK expression was performed in duplicate with 2 different clones.

For genome wide location analysis (ChIP-chip):
Oct4/Sox2/c-Myc/Klf4 were performed with biological duplicates (2 clonally isolated iPS/partial iPS lines and ES cells were performed with v6.5 and E14 cell lines)
Contributor(s) Sridharan R, Tchieu J, Mason MJ, Horvath S, Zhou Q, Plath K
Citation(s) 19167336
Submission date Dec 17, 2008
Last update date Feb 11, 2019
Contact name Kathrin Plath
Organization name UCLA
Department Biological Chemistry
Lab BSRB 390B
Street address 615 Charles E. Young Drive South
City Los Angeles
State/province CA
ZIP/Postal code 90095-1737
Country USA
Platforms (3)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL7777 Agilent Mouse Promoter ChIP-on-Chip Set 244K Combined Arrays (Slide 1 & 2) mm7 build
GPL7793 Agilent Mouse Promoter ChIP-on-Chip Set 244K Combined Arrays (Slide 1 & 2) mm8 build
Samples (39)
GSM344754 10 colonies from 1A2 partial iPS clone (1A2-col)
GSM344755 Sorted GFP+ cells from 1A2 partial iPS clone
GSM344756 uninduced MEFs for tet experiments
BioProject PRJNA112477

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE14012_RAW.tar 1.8 Gb (http)(custom) TAR (of CEL, TSV)
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap