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P53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [RNA-seq]

ABSTRACT: p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [RNA-seq]

PROVIDER: PRJNA517459 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8495830_1.fastq.gz	Fastqsanger.gz
	SRR8495830_2.fastq.gz	Fastqsanger.gz
	SRR8495831_1.fastq.gz	Fastqsanger.gz
	SRR8495831_2.fastq.gz	Fastqsanger.gz
	SRR8495832_1.fastq.gz	Fastqsanger.gz

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p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells

Project description:p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells

| PRJNA517455 | ENA

p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [Ribo-seq]

Project description:p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [Ribo-seq]

| PRJNA517458 | ENA

p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [RNA-seq]

Project description:To identify p53-regulated lncRNAs responsive to DNA damage in human hepatocellular carcinoma (HCC) cells, we conducted paired-end and strand-specific RNA-seq using HepG2 wild-type and p53-knockout (HepG2-KO-p53) cells, which were devoid of p53 protein, using the CRISPR-Cas9 system treated with or without the DNA-damaging agent adriamycin (ADR)

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p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-07-18 | GSE125758 | GEO

p53-inducible long non-coding RNAs encode functional peptides in hepatocellular carcinoma cells [Ribo-seq]

Project description:To globally analyse the lncRNAs with potential coding ability upon DNA damage, we performed Ribo-seq using ADR-treated HepG2 cells. The HepG2 cells were treated with 500 ng/mL ADR for 24 h, and cycloheximide (CHX) was added to inhibit the translational elongation of ribosomes.Furthermore,we identified the candidate ORFs with the selected RPF reads using the RiboCode software.

2020-07-18 | GSE125757 | GEO

Expression data for tet-on inducible mouse p53 stable line in H1299 cells

Project description:In order to identify novel genes regulated by p53, stable line containing tet-on inducible p53 construct was generated and used for gene expression analysis. Tet-on p53 inducible stable line was induced by doxycyclin for 24 hours before total RNA was extracted for array analysis.

2015-01-31 | E-GEOD-57841 | biostudies-arrayexpress

Expression data for tet-on inducible mouse p53 stable line in H1299 cells

Project description:In order to identify novel genes regulated by p53, stable line containing tet-on inducible p53 construct was generated and used for gene expression analysis.

2015-01-31 | GSE57841 | GEO

Natural circular RNA encodes regulatory small peptides in Mammalian cells

Project description:To test the hypothesis that circRNAs might encode functional peptides in mammalian cells, we studied the long intergenic non-protein coding RNA, p53 induced transcript (LINC-PINT), which was previously reported as a tumor suppressor and connected p53 activation with polycomb repressive complex 2 (PRC2). We selected this long noncoding RNA (lncRNA) for further analysis because LINC-PINT has a long exon 2 which in accordance with the bioinformatical analyzed circular RNA standard.The following immunoblotting showed 87aa peptide level also decreased, indicating that this peptide is encoded by circPINTexon2. We name this circRNA encoded peptide PINT87aa. To investigate the possible regulatory role of PINT87aa, we did the expression micro array in PINT87aa stably transfect U251 or U87 glioblastoma cells and their control cells. The array analysis reveals that PINT87aa may involve in the cell cycle regulation, anti-apoptosis effects and multiple oncogenic signaling pathway activation.

2015-11-04 | E-GEOD-74610 | biostudies-arrayexpress

Natural circular RNA encodes regulatory small peptides in Mammalian cells

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Neat1 is a p53-inducible lincRNA essential for transformation suppression

Project description:p53 is a transcriptional activator that induces myriad target genes. However, those p53-inducible genes most critical for tumor suppression remain elusive. Here, we identify Neat1, a ncRNA constituent of paraspeckles, as a p53 target gene induced by mouse and human p53 in different cell types and by diverse stress signals. Using fibroblasts derived from Neat1-/- mice, we examine the functional role of Neat1 in the p53 pathway. We find that Neat1 is dispensable for cell-cycle arrest and apoptosis in response to genotoxic stress, but plays a crucial role in suppressing transformation in response to oncogenic signals. To determine the effects of Neat1 deficiency on cells, we used E1A;HRasV12-expressing wild-type and Neat1-/- mouse embryonic fibroblasts (MEFs) for RNA-sequencing analysis. This analysis revealed that Neat1 deficiency impacts the regulatory networks involved in nervous system development and axon guidance programs, as well as genes of the SWI/SNF complex and components of the pancreas development network. These findings suggest that the ability of Neat1 to globally regulate gene expression, with effects on diverse transcriptional programs, provides a potential mechanism for how Neat1 acts to suppress transformation and tumor initiation.

2017-07-27 | GSE100098 | GEO

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