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| Status |
Public on May 13, 2024 |
| Title |
The effect of metal cations on the capture of Pol II-derived nascent transcripts in NET-seq experiments |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
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| Summary |
The goal of this study was to test the effect of metal cations (CaCl2 and MnCl2) during Pol II NET-seq. These metals are readily used in the majority of studies that use NET-seq to analyze Pol II occupancy, but their effect on nascent transcript capture has not been analyzed. Our results suggest that the inclusion of these metals in Pol II NET-seq experiments does not cause a significant change in Pol II occupancy in the untreated control vs. metal-treated (CaCl2 or MnCl2) samples.
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| Overall design |
Pol II NET-seq was performed in triplicate for each of three treatment conditions: untreated, CaCl2-treated, and MnCl2-treated.
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| Contributor(s) |
Huffines AK, Schneider DA |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
May 09, 2024 |
| Last update date |
May 13, 2024 |
| Contact name |
Abigail Huffines |
| E-mail(s) |
mcconaha@uab.edu
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| Organization name |
University of Alabama at Birmingham
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| Street address |
720 20th St S
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| City |
Birmingham |
| ZIP/Postal code |
35233 |
| Country |
USA |
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| Platforms (1) |
| GPL27812 |
Illumina NovaSeq 6000 (Saccharomyces cerevisiae) |
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| Samples (9)
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| GSM8259517 |
Pol II NET-seq, CaCl2-treated, replicate 1 |
| GSM8259518 |
Pol II NET-seq, CaCl2-treated, replicate 2 |
| GSM8259519 |
Pol II NET-seq, CaCl2-treated, replicate 3 |
| GSM8259520 |
Pol II NET-seq, MnCl2-treated, replicate 1 |
| GSM8259521 |
Pol II NET-seq, MnCl2-treated, replicate 2 |
| GSM8259522 |
Pol II NET-seq, MnCl2-treated, replicate 3 |
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| Relations |
| BioProject |
PRJNA1109721 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE267082_RAW.tar |
12.1 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
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