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| Status |
Public on Sep 29, 2014 |
| Title |
Human embryonic stem cell, rhesus embryonic stem cell and mouse transchromosomic (hsa11) embryonic stem cell (with and without ectopic ZNF91 expression) RNA-seq |
| Organisms |
Macaca mulatta; Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We compared the expression in embryonic stem cells of KRAB ZNF proteins and retrotransposon elements in the human genome under several conditions. Native human stem cells. Mouse stem cells containing a transchromosomic copy of human chromosome 11, with and without the introduction of plasmids containing KRAB Zinc Finger sequences. We show that certain KZNFs are responsible for the repression of certain retrotransposons in embryonic stem cells, preventing their spread across the genome.
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| Overall design |
RNA-seq of hESCs, rhESCs and mouse TC11 ESCs with ZNF91 plasmids (2 replicates), with empty vector plasmids (2 replicates), or no plasmids.
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| Contributor(s) |
Jacobs FM, Greenberg D, Nguyen N, Haeussler M, Ewing AD, Katzman S, Paten B, Salama SR, Haussler D |
| Citation(s) |
25274305 |
| Submission date |
Aug 06, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Sofie Salama |
| E-mail(s) |
ssalama@soe.ucsc.edu
|
| Phone |
8314592814
|
| Organization name |
Univerity of California, Santa Cruz
|
| Department |
Center for Biomolecular Science and Engineering
|
| Lab |
Haussler
|
| Street address |
MS: CBSE, 1156 High St
|
| City |
Santa Cruz |
| State/province |
CA |
| ZIP/Postal code |
95060 |
| Country |
USA |
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| Platforms (3) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL14954 |
Illumina HiSeq 2000 (Macaca mulatta) |
|
| Samples (10)
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| This SubSeries is part of SuperSeries: |
| GSE60211 |
An evolutionary arms race between KRAB zinc finger genes 91/93 and SVA/L1 retrotransposons |
|
| Relations |
| BioProject |
PRJNA257678 |
| SRA |
SRP045318 |
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