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Series GSE119021 Query DataSets for GSE119021
Status Public on Aug 26, 2018
Title A novel long non-coding RNA HOXC-AS3 mediates tumorigenesis of gastric cancer by binding to YBX1
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Recently, increasing evidence shows that long noncoding RNAs (lncRNAs) play a significant role in human tumorigenesis. However, the function of lncRNAs in human gastric cancer remains largely unknown. By using publicly available expression profiling data from gastric cancer and integrating bioinformatics analyses, we screen and identify a novel lncRNA, HOXC-AS3. HOXC-AS3 is significantly increased in gastric cancer tissues and is correlated with clinical outcomes of gastric cancer. In addition, HOXC-AS3 regulates cell proliferation and migration both in vitro and in vivo. RNA-seq analysis reveals that HOXC-AS3 knockdown preferentially affects genes that are linked to proliferation and migration. Mechanistically, we find that HOXC-AS3 is obviously activated by gain of H3K4me3 and H3K27ac, both in cells and in tissues. RNA pull down-mass spectrometry analysis identifies that YBX1 interacts with HOXC-AS3, and RNA-seq analysis finds a marked overlap in genes differentially expressed after YBX1 knockdown and those transcriptionally regulated by HOXC-AS3, suggesting that YBX1 participates in HOXC-AS3-mediated gene transcriptional regulation in the tumorigenesis of gastric cancer.Together, our data demonstrate that abnormal histone modification-activated HOXC-AS3 may play important roles in gastric cancer oncogenesis and may serve as a target for gastric cancer diagnosis and therapy.
Overall design RNA-seq analysis of HOXC-AS3 and YBX1 knockdown in one cell type
Contributor(s) Zhang E, Yin D, Han L, De W
Citation(s) 30286788
Submission date Aug 24, 2018
Last update date May 09, 2019
Contact name wei de
Phone +862586862728
Organization name Nanjing Medical University
Department Department of Biochemistry and Molecular Biology
Street address longmian da dao
City nanjing
State/province jiangsu
ZIP/Postal code 210000
Country China
Platforms (1)
GPL17303 Ion Torrent Proton (Homo sapiens)
Samples (12)
GSM3356688 BGC-823 ASO-NC repeat1
GSM3356689 BGC-823 ASO-NC repeat2
GSM3356690 BGC-823 ASO-NC repeat3
BioProject PRJNA487783
SRA SRP158772

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Supplementary file Size Download File type/resource
GSE119021_all.counts.txt.gz 543.2 Kb (ftp)(http) TXT
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