|
| Status |
Public on Jul 15, 2016 |
| Title |
RNA-seq of naive and primed ES cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Here we propose a set of molecular criteria for evaluating the naive human pluripotent state. We show by RNA-seq that transcription of transposable elements provides a sensitive measure of the concordance between pluripotent stem cells and early human development.
|
| |
|
| Overall design |
RNA-seq of 4 naive ES samples in 4i/LA, 3 naive ES samples in 5i/LA, 2 transgene-dependant naive ES cell samples, and 5 primed ES cell samples (in hESM)
|
| |
|
| Contributor(s) |
Friedli M, Planet E, Duc J, Trono D |
| Citation(s) |
27424783 |
| |
| Submission date |
Jun 27, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Joseph R Ecker |
| E-mail(s) |
ecker@salk.edu
|
| Phone |
8584534100
|
| Organization name |
HHMI-Salk-Institute
|
| Department |
Genomic Analysis Laboratory
|
| Lab |
Ecker lab
|
| Street address |
10010 North Torrey Pines Road
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
|
| Samples (14)
|
| GSM2218663 |
X-reporter line, Primed, Red only - WIBR2 MECP2 reporter (cl. 298) Red (XX) |
| GSM2218664 |
X-reporter line, Primed, Green only - WIBR2 MECP2 reporter (cl. 299) GFP (XX) |
| GSM2218665 |
X-reporter line, Naive, Double positive - WIBR2 MECP2 reporter (cl. 298) (XX) |
| GSM2218666 |
X-reporter line, Naive, Double positive - WIBR2 MECP2 reporter (cl. 298) (XX) -2 |
| GSM2218667 |
X-reporter line, Naive, Double positive - WIBR2 MECP2 reporter (cl. 299) (XX) |
| GSM2218668 |
Male Naive ES - WIN1 (XY) |
| GSM2218669 |
Male Naive ES - WIN1 (XY) - 2 |
| GSM2218670 |
Naive - WIBR2 |
| GSM2218671 |
Naive - WIBR3 |
| GSM2218672 |
Naive (transgene-dependent) - WIBR3 OCT4-ΔPE-GFP +K2N cl. 12 |
| GSM2218673 |
Naive (transgene-dependent) - WIBR3 OCT4-ΔPE-GFP +K2N cl. 16 |
|
| This SubSeries is part of SuperSeries: |
| GSE75868 |
Molecular Criteria for Defining the Naive Human Pluripotent State |
|
| Relations |
| BioProject |
PRJNA326944 |
| SRA |
SRP077283 |
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