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SRX9467028: GSM4890448: control-3; Homo sapiens; ncRNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 26.1M spots, 7.9G bases, 2.2Gb downloads

Submitted by: NCBI (GEO)
Study: MicroRNA profiling in oesophageal adenocarcinoma cell lines and patient serum samples reveals a role for miR-451a in radiation resistance [control and miR-451a inhibitor treatments]
show Abstracthide Abstract
Many patients with Oesophageal Adenocarcinoma (OAC) that undergo chemoradiotherapy do not benefit from treatment due to therapy resistance. We therefore investigated the association of microRNAs, which regulate gene expression, with the response to individual treatments, focusing on radiation, to both better understand the mechanisms involved in resistance and to find potential biomarkers. Intrinsic radiation resistance and chemotherapy drug resistance were assessed in 8 OAC cell lines, and miRNA expression profiling was performed via high throughput qPCR. miRNAs were discovered that were either uniquely associated with resistance to radiation, cisplatin, or 5-FU, or were common to 2 or all 3 of the treatments. Target mRNA pathway analyses indicated several potential mechanisms of treatment resistance. miRNAs associated with the in-vitro treatment responses were then investigated for association with pathologic response to neoadjuvant chemoradiotherapy (nCRT) in pre-treatment serums of 39 patients with OAC. Hsa-miR-451a was associated uniquely with resistance to radiation treatment in the cell lines, and with the response to nCRT in patient serums. Inhibition of hsa-miR-451a in the radiation resistant OAC cell line OE19 increased radiosensitivity (Survival Fraction 73% vs. 87%, p=0.0003), and altered RNA expression. Overall design: Three independent experiments were performed for the control and miR-451a inhibitor treatments.
Sample: control-3
SAMN16714486 • SRS7679151 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina NovaSeq 6000
Strategy: ncRNA-Seq
Source: TRANSCRIPTOMIC
Selection: size fractionation
Layout: PAIRED
Construction protocol: Total RNA isolation, including DNase digestion, was performed using the miRNeasy Mini Kit (Qiagen, #217004, Chadstone, Australia) and RNase-free DNase Set (Qiagen, #79254, Chadstone, Australia) as instructed by the manufacturer. Quantification of the final RNA concentration was performed via UV spectrophotometry (NanoDrop™ 2000 Spectrophotometer, Thermo Fisher Scientific, Wilmington, USA). Libraries of small RNAs were prepared from 150 ng of RNA using the NEBNext™ kit (New England Biolabs). After reverse transcription, 15 cycles of PCR were performed to enrich for successfully ligated molecules. The libraries were size selected using 3 % agarose gels targeting a 122–182 bp range. Size-selected libraries were run on Bioanalyzer high-sensitivity DNA chips to confirm size, minimal adapter dimers, and to estimate yield.
Experiment attributes:
GEO Accession: GSM4890448
Links:
Runs: 1 run, 26.1M spots, 7.9G bases, 2.2Gb
Run# of Spots# of BasesSizePublished
SRR1301602126,056,2727.9G2.2Gb2020-11-11

ID:
12371686

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