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| Status |
Public on Jan 06, 2023 |
| Title |
RNA-seq analysis of gene expression in Helicobacter pylori expressing either WT Fur or a Fur variant (Fur-R88H). |
| Organism |
Helicobacter pylori |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: Next-generation sequencing (NGS) was used to analyze gene expression in H. pylori strains expressing either WT Fur or a Fur variant (i.e. Fur-R88H). The goals of this study are to examine the role that WT Fur and Fur-R88H play in affecting salt-responsive gene expression in the 2 different strains. The H. pylori strains were grown in the presence of routine salt (0.5% added NaCl) or high salt (1.0% added NaCl).
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| Overall design |
Analysis of transcriptional changes in H. pylori grown for 15 h in medium containing either 0.5% or 1.0% added NaCl.
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| Contributor(s) |
Loh J, Cover T |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Sep 26, 2022 |
| Last update date |
Jan 08, 2023 |
| Contact name |
John Loh |
| Organization name |
Vanderbilt University
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| Department |
Infectious Diseases
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| Street address |
A2320 MCN VUMC
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| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37232 |
| Country |
USA |
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| Platforms (1) |
| GPL28668 |
Illumina NovaSeq 6000 (Helicobacter pylori) |
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| Samples (15)
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| GSM6601587 |
WT Fur 0.5% NaCl, replicate 4 |
| GSM6601588 |
WT Fur 1.0% NaCl, replicate 1 |
| GSM6601589 |
WT Fur 1.0% NaCl, replicate 2 |
| GSM6601590 |
WT Fur 1.0% NaCl, replicate 3 |
| GSM6601591 |
Fur-R88H 0.5% NaCl, replicate 1 |
| GSM6601592 |
Fur-R88H 0.5% NaCl, replicate 2 |
| GSM6601593 |
Fur-R88H 0.5% NaCl, replicate 3 |
| GSM6601594 |
Fur-R88H 0.5% NaCl, replicate 4 |
| GSM6601595 |
Fur-R88H 1.0% NaCl, replicate 1 |
| GSM6601596 |
Fur-R88H 1.0% NaCl, replicate 2 |
| GSM6601597 |
Fur-R88H 1.0% NaCl, replicate 3 |
| GSM6601598 |
Fur-R88H 1.0% NaCl, replicate 4 |
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| Relations |
| BioProject |
PRJNA884389 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE214216_RAW.tar |
790.0 Kb |
(http)(custom) |
TAR (of XLSX) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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