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Series GSE46104 Query DataSets for GSE46104
Status Public on Aug 28, 2013
Title Global transcriptome profiling of Oct4/Klf4/Sox2 (3Factor, 3F) + IL6 iPS clones derived from mouse embryonic fibroblasts.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We used heterokaryon cell fusion based reprogramming and identified the cytokine IL6 as a potential regulator of reprogramming to pluripotency. We generated iPS clones using the four reprogramming factors (4F) Oct4, Klf4, Sox2, and c-Myc. In addition, iPS clones were generated using only three factors (3F: Oct4, Klf4, amd Sox2) with the addition of the cytokine IL6 to reprogramming culture conditions. Global RNA-Seq of the 3F + IL6 derived iPS clones was done for comparison with 4F-derived iPS clones, mouse embryonic stem cells and mouse embryonic fibroblasts.
Overall design This study includes 8 samples: 2 independently derived 3F + IL6 iPS clones, 2 independently derived 4F iPS clones, 2 biological replicates of mouse D3-GFP ES cells, and 2 biological replicates of mouse embryonic fibroblasts (MEFs). The latter 6 samples are provided as references for the 3F + IL6 iPS clones. Poly-A RNA was isolated and prepared for sequencing using the Illumina TruSeq RNA kit (v2) to generate 50bp reads. Reads were aligned to mm10.
Contributor(s) Brady JJ, Blau HM
Citation(s) 23995732, 30013107
Submission date Apr 16, 2013
Last update date May 15, 2019
Contact name Jennifer Brady
Organization name Stanford University
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (8)
GSM1123726 Mouse ES 1
GSM1123727 Mouse ES 2
GSM1123728 Mouse 3F + IL6 iPS clone 1
BioProject PRJNA197269
SRA SRP021101

Download family Format
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE46104_RAW.tar 1.1 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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