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| Status |
Public on Jun 07, 2023 |
| Title |
U937 cells with PMA, DMSO QuantSeq |
| Sample type |
SRA |
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| Source name |
U937
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| Organism |
Homo sapiens |
| Characteristics |
cell line: U937
treatment: DMSO
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was subjected to RNA sequencing by using the QuantSeq FWD kit. Library preparation and sequencing were carried out by Admera Health (South Plainfield, NJ, USA).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
QuantSeq FWD data were processed according to manufacturer’s recommendation. Briefly, raw reads were first trimmed by using the BBtools (Bushnell et al., 2017) and then mapped to the human genome (hg19) using STAR-2.7.7a (Dobin et al., 2013). The number of reads mapped to each gene was counted by using featureCounts (Liao et al., 2014).
Assembly: hg19
Supplementary files format and content: tab-delimited text file including reads count for each pAs/gene
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| Submission date |
Nov 22, 2022 |
| Last update date |
Jun 12, 2023 |
| Contact name |
Bin Tian |
| E-mail(s) |
btian@wistar.org
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| Organization name |
The Wistar Institute
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| Street address |
3601 Spruce Street
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| City |
Philadelphia |
| State/province |
Pennsylvania |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platform ID |
GPL11154 |
| Series (2) |
| GSE218555 |
Elevated pre-mRNA 3' end processing activity in cancer cells renders vulnerability to inhibition of cleavage and polyadenylation [QuantSeq] |
| GSE218557 |
Elevated pre-mRNA 3' end processing activity in cancer cells renders vulnerability to inhibition of cleavage and polyadenylation |
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| Relations |
| BioSample |
SAMN31839948 |
| SRA |
SRX18351995 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6752474_U937_PMA_DMSO.featurecounts.Rmatrix.txt.gz |
269.0 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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