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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 25, 2019 |
| Title |
En bloc and segmental deletions of human XIST reveal X chromosome inactivation-involving RNA elements |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
RNA-seqs followed by whole and segmental deletions of XIST genes in human K562 cells.
The XIST RNA is a non-coding RNA that induces X chromosome inactivation (XCI). Unlike the mouse Xist RNA, how the human XIST RNA controls XCI in female cells is less well characterized, and the XCI-involving RNA elements remain unclear. To systematically decipher the XCI-involving elements of XIST RNA, ten smaller XIST segments, including repeats A, D, and E; human-specific repeat elements; the promoter; and non-repetitive exons, as well as the entire XIST gene, were homozygously deleted using the Cas9 nuclease and paired guide RNAs at high efficiencies, followed by high-throughput RNA sequencing and fluorescence in-situ hybridization experiments on XIST RNA.
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| Overall design |
There are mock transfected cells as control and 24 clones containing whole and segmental deletion of XIST.
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| Contributor(s) |
Lee HJ, Gopalappa R, Sunwoo H, Choi S, Ramakrishna S, Lee JT, Kim H, Nam J |
| Citation(s) |
30783652 |
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| Submission date |
Feb 10, 2015 |
| Last update date |
Mar 27, 2019 |
| Contact name |
Hyeon Joo Lee |
| E-mail(s) |
hyeonlee17@gmail.com
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| Organization name |
Hanyang University
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| Department |
Department of Life Science
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| Lab |
BIG Lab.
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| Street address |
222 Wangsimni-ro, Seongdong-gu
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| City |
Seoul |
| State/province |
- Please choose - |
| ZIP/Postal code |
133-791 |
| Country |
South Korea |
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| Platforms (2) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (29)
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| Relations |
| BioProject |
PRJNA275148 |
| SRA |
SRP053791 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE65830_RAW.tar |
189.5 Mb |
(http)(custom) |
TAR (of TXT, VCF) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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