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SRX10085728: GSM5077613: N4_a549_siCTRL_rep4; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 17.6M spots, 1.8G bases, 784.3Mb downloads

Submitted by: NCBI (GEO)
Study: APE1 controls DICER expression through functional regulation of miRNA33a: a novel hypothesis for NSCLC cancer progression [RNA-Seq]
show Abstracthide Abstract
The overexpression of the DNA repair protein apurinic/apyrimidinic endonuclease 1 (APE1) is an important cause of poor outcome and its expression is able to predict the progression-free and overall survival in patients receiving platinum-containing chemotherapy. Recently, we have demonstrated APE1 involvement in miRNA biogenesis related to cancer progression. Overall design: In this work, through the use of NGS and Nanostring strategies, we report the identification of miRNAs that are modulated in lung cancer cells upon APE1 silencing. We defined a miRNA signature consisting of the 13 miRNAs, which strongly correlates with APE1 expression in lung cancer: miR-1246, miR-4488, miR-24, miR-183, miR-660, miR-130b, miR-543, miR-200c, miR-376c, miR-218, miR-146a, miR-92b and miR-33a. Gene ontology annotation and pathway analysis of the miRNA signature revealed its biological significance in cancer proliferation and survival. Among the miRNAs regulated by APE1, miRNA-33a-5p targets DICER, a major miRNA biogenesis gene whose expression is found to be downregulated in several tumours. We here validated DICER as a direct functional target of miR-33a and profiled miR-33a, DICER and APE1 expression in clinical samples.
Sample: N4_a549_siCTRL_rep4
SAMN17885743 • SRS8243606 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 2500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Total RNA was obtained from A549 cell line. The size profiles of the individual libraries were analyzed with LabChip GX II using a DNA High Sensitivity kit (both PerkinElmer, USA). Libraries were quantified on a Qubit with the DNA High Sensitivity kit (Life Technologies). Library preparation was performed using SMARTer smRNA-Seq kit (Clontech/Takara, USA) protocol with minor changes to increase the chance of identifying also pri-miR in addition to miRNAs. RNA-Seq on a Illumina HiSeq 2500 instrument, in rapid run mode, using a 100-bp, dual-indexed, single-end sequencing configuration
Experiment attributes:
GEO Accession: GSM5077613
Links:
Runs: 1 run, 17.6M spots, 1.8G bases, 784.3Mb
Run# of Spots# of BasesSizePublished
SRR1369647717,593,1241.8G784.3Mb2022-08-04

ID:
13213304

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