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Series GSE123020 Query DataSets for GSE123020
Status Public on Jun 23, 2020
Title Suppression of adenosine-to-inosine (A-to-I) RNA editome by death associated protein 3 (DAP3) promotes cancer progression
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary RNA editing introduces nucleotide changes in RNA sequences. Recent studies have reported that aberrant A-to-I RNA editing profiles are implicated in cancers. Albeit changes in expression and activity of ADAR genes are thought to have been responsible for the dysregulated RNA editome in diseases, they are not always correlated, indicating the involvement of secondary regulators. Here, we uncover DAP3 as a potent repressor of editing and a strong oncogene in cancer. DAP3 mainly interacts with the deaminase domain of ADAR2 and represses editing via disrupting association of ADAR2 with its target transcripts. PDZD7, an exemplary DAP3-repressed editing target, undergoes a protein recoding editing at stop codon [Stop →Trp (W)]. Because of editing suppression by DAP3, the unedited PDZD7WT, which is more tumorigenic than edited PDZD7Stop518W, is accumulated in tumors. In sum, cancer cells may acquire malignant properties for their survival advantage through suppressing RNA editome by DAP3.
 
Overall design We constructed strand-specific cDNA libraries of 6 total RNA samples and sequenced the libraries using Illumina Hiseq 4000 platform achieving over 200 millions of mappable reads per sample. Then we examined Adenosine-to-inosine (A-to-I) editing sites in EC109 and KYSE180 cells after depletion of genes of our interest.
 
Contributor(s) Leilei C, Jian H, An O
Citation(s) 32596459
Submission date Nov 27, 2018
Last update date Apr 14, 2021
Contact name Polly Leilei Chen
E-mail(s) polly_chen@nus.edu.sg
Phone +6565168435
Organization name Cancer Science Institute of Singapore NUS
Department Department of Anatomy
Lab PLC Lab
Street address #12-01, MD6, 14 Medical Drive
City Singapore
ZIP/Postal code 117599
Country Singapore
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (6)
GSM3490829 EC109_shScr
GSM3490830 EC109_shDAP3 #1
GSM3490831 EC109_shDAP3 #2
Relations
BioProject PRJNA507260
SRA SRP170961

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Supplementary file Size Download File type/resource
GSE123020_dap3_kd_specific_editing_sites_in_escc.xlsx 514.6 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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