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SRX5887769: GSM3814030: 162_50_2; Drosophila melanogaster; RNA-Seq
1 ILLUMINA (Illumina HiSeq X Ten) run: 16.3M spots, 4.9G bases, 1.5Gb downloads

Submitted by: NCBI (GEO)
Study: The effect of G-quadruplex on gene expression by treating S2 cell with different concentration of TMPyP4
show Abstracthide Abstract
In this study, G-quadruplex ligand TMPyP4 was utilized to treat S2 cell and DMSO was served as control. The stabilization role of TMPyP4 will promote the formation of G-quadruplex and then affect gene expression. Identifying whether the effect is positive or negative is important for our understanding of the functionality of non-coding element. Overall design: We treated S2 cell with different concentration of TMPyP4 (25µmol/L, 50µmol/L, 100µmol/L). We designed three experimental groups and one control group. The experimental group 1 was treated with 25µmol/L alone, the experimental group 2 was treated with 50µmol/L alone, and the experimental group 3 was treated with 100µmol/L alone. The drug solvent DMSO-treated group served as a control group, with 3 replicates per treatment in each group.
Sample: 162_50_2
SAMN11840273 • SRS4809983 • All experiments • All runs
Library:
Instrument: Illumina HiSeq X Ten
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: We extracted the total RNA using the Trizol method. We added 1 ml of Trizol (invitrogen) to the sample (4-7 million cells) stored at -80 ° C, and carefully piped the sample with a pipette, which was the homogenate of the tissue cells. Then, 200 μl of chloroform was added to the homogenate, and the sample was shaken for 15 seconds using a vortex shaker until the phase separation disappeared. After standing at room temperature for 2-3 minutes, the sample was centrifuged at 12,000 g for 15 minutes at 4 °C. The colorless supernatant was transferred to another new centrifuge tube, mixed well with an equal volume of isopropanol, held at -20 ° C for 10 minutes, and then centrifuged at 12,000 g for 10 minutes at 4 ° C to precipitate RNA. The supernatant was carefully removed, the precipitate was gently washed 2-3 times with 1 ml of fresh 75% ethanol, dried at room temperature for 2 to 3 minutes and dissolved in 50 μl of RNase-free water. Stranded PolyA+ RNA libraries were prepared at Majorbio (Shanghai, China) with in-house kits. A total of 12 qualified cDNA libraries were constructed and were sequenced on the Illumina HiSeq XTen System (Illumina Inc., San Diego, CA).
Experiment attributes:
GEO Accession: GSM3814030
Links:
Runs: 1 run, 16.3M spots, 4.9G bases, 1.5Gb
Run# of Spots# of BasesSizePublished
SRR911351116,347,6584.9G1.5Gb2024-05-13

ID:
7909561

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