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Series GSE242276 Query DataSets for GSE242276
Status Public on Sep 05, 2023
Title RBM33 Acts as an m6A Reader Essential for ALKBH5-mediated m6A Demethylation and Head and Neck Squamous Carcinoma Tumorigenesis [m6A-seq]
Organism Homo sapiens
Experiment type Other
Expression profiling by high throughput sequencing
Summary Head and neck squamous cell carcinoma (HNSC) is one of the most common malignant cancers worldwide. However, it is always detected at an advanced stage because of a lack of biomarkers for early diagnosis. Here, we identify the RNA binding motif protein 33 (RBM33) is commonly up-regulated in HNSC and it is essential for tumorigenesis. Mechanistically, RBM33 is an m6A reader protein and forms a complex with ALKBH5. RBM33 plays crucial roles in ALKBH5-mediated mRNA m6A demethylation not only by recruitment ALKBH5 to substrate but also activation its demethylase activity through inhibition it’s SUMOylation. Moreover, global transcriptomic and epitranscriptomic analyses identify that DDIT4 is a functional downstream target gene for RBM33 in HNSC and RBM33-mediated HNSC tumorigenesis by inhibition the mTOR pathway through the inhibition of m6A-dependent DDIT4 mRNA decay. Taken together, our study uncovers a novel molecular mechanism that RBM33/ALKBH5/m6A/DDIT4/mTOR axis regulates HNSC progression through the inhibition of mTOR pathway and targeting RBM33 may be a promising strategy for HNSC treatment.
 
Overall design To identify the functional downstream target genes responsible for the observed phenotype, UM-SCC-1 cells stably expressing scramble, ALKBH5 siRNA#1, ALKBH5 siRNA#2, RBM33 siRNA#1, RBM33 siRNA#2 were used for m6A-Seq analyses.
 
Contributor(s) Yu F, Zhu AC, Liu S, He C, Qian Z
Citation(s) 37257451, 38300798
Submission date Sep 05, 2023
Last update date Feb 15, 2024
Contact name Allen Zhu
E-mail(s) allenczhu@uchicago.edu
Phone 7738343468
Organization name University of Chicago
Street address 929 E 57th St, Room E331
City Chicago
State/province Illinois
ZIP/Postal code 60637
Country USA
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (36)
GSM6134944 shControl - ALKBH5 Scramble Rep 1 (RNA-seq)
GSM6134945 shControl - ALKBH5 Scramble Rep 2 (RNA-seq)
GSM6134946 shControl - ALKBH5 Scramble Rep 3 (RNA-seq)
This SubSeries is part of SuperSeries:
GSE202878 RBM33 Acts as an m6A Reader Essential for ALKBH5-mediated m6A Demethylation and Head and Neck Squamous Carcinoma Tumorigenesis
Relations
BioProject PRJNA1013025

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE242276_diff-exp-genes-alkbh5-1.csv.gz 1.2 Mb (ftp)(http) CSV
GSE242276_diff-exp-genes-alkbh5-2.csv.gz 1.2 Mb (ftp)(http) CSV
GSE242276_diff-exp-genes-rbm33-1.csv.gz 966.5 Kb (ftp)(http) CSV
GSE242276_diff-exp-genes-rbm33-2.csv.gz 1.1 Mb (ftp)(http) CSV
GSE242276_gene_DE_input_shALKBH5_1_results.txt.gz 1.3 Mb (ftp)(http) TXT
GSE242276_gene_DE_input_shALKBH5_2_results.txt.gz 1.3 Mb (ftp)(http) TXT
GSE242276_gene_DE_input_shRBM33_1_results.txt.gz 1.3 Mb (ftp)(http) TXT
GSE242276_gene_DE_input_shRBM33_2_results.txt.gz 1.3 Mb (ftp)(http) TXT
GSE242276_gene_input_all_cpm.txt.gz 1.4 Mb (ftp)(http) TXT
GSE242276_m6A-diff-Me-Peaks_shALKBH5-1.csv.gz 60.1 Kb (ftp)(http) CSV
GSE242276_m6A-diff-Me-Peaks_shALKBH5-2.csv.gz 15.6 Kb (ftp)(http) CSV
GSE242276_m6A-diff-Me-Peaks_shRBM33-1.csv.gz 2.0 Kb (ftp)(http) CSV
GSE242276_m6A-diff-Me-Peaks_shRBM33-2.csv.gz 1.8 Kb (ftp)(http) CSV
GSE242276_results_m6Adiffpeaks_cutoff0-05_beta0-5-shALKBH5-1vsCtrl.txt.gz 445.8 Kb (ftp)(http) TXT
GSE242276_results_m6Adiffpeaks_cutoff0-05_beta0-5_shALKBH5-2vsCtrl.txt.gz 646.5 Kb (ftp)(http) TXT
GSE242276_results_m6Adiffpeaks_cutoff0-05_beta0-5_shRBM33-1vsCtrl.txt.gz 74.1 Kb (ftp)(http) TXT
GSE242276_results_m6Adiffpeaks_cutoff0-05_beta0-5_shRBM33-2vsCtrl.txt.gz 114.5 Kb (ftp)(http) TXT
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