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Series GSE65830 Query DataSets for GSE65830
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
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.
Overall design There are mock transfected cells as control and 24 clones containing whole and segmental deletion of XIST.
Contributor(s) Lee HJ, Gopalappa R, Sunwoo H, Choi S, Ramakrishna S, Lee JT, Kim H, Nam J
Citation(s) 30783652
Submission date Feb 10, 2015
Last update date Mar 27, 2019
Contact name Hyeon Joo Lee
Organization name Hanyang University
Department Department of Life Science
Lab BIG Lab.
Street address 222 Wangsimni-ro, Seongdong-gu
City Seoul
State/province - Please choose -
ZIP/Postal code 133-791
Country South Korea
Platforms (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (29)
GSM3381506 Mock transfected cells 1
GSM3381507 Mock transfected cells 2
GSM3381508 Mock transfected cells 3
BioProject PRJNA275148
SRA SRP053791

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Supplementary file Size Download File type/resource
GSE65830_RAW.tar 189.5 Mb (http)(custom) TAR (of TXT, VCF)
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Raw data are available in SRA
Processed data provided as supplementary file

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