|
| Status |
Public on Jun 09, 2016 |
| Title |
Wild-type Iron-Deplete (Replicate 2) |
| Sample type |
SRA |
| |
|
| Source name |
Planktonic cells
|
| Organism |
Neisseria gonorrhoeae |
| Characteristics |
strain: F62
genotype/variation: wild type
treatment: low (100 uM desferal)
|
| Treatment protocol |
N. gonorrhoeae* F62 wild-type, fur mutant and fur complement were grown in chemically defined media (CDM) with or without iron for 1 hour prior to RNA harvest.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted via TRIzol, treated with DNAse and ribosome depleted (Agilents MicrobeExpress kit)
Libraries were prepared with BioChain s High Yield Directional mRNA Sample Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
fastq files were examined with the Rockhopper program. This program performs alignment, gene counts, normalization and outputs expression levels for each gene in each samples. Adjusted q values are also assigned to each pair-wise comparison between all samples. Fastq files were aligned to the genome of Neisseria gonorrheoae FA1090
Genome_build: Neisseria gonorrheoae FA1090
Supplementary_files_format_and_content: Text files with normalized expression values for each gene
|
| |
|
| Submission date |
Jun 08, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Caroline Attardo Genco |
| E-mail(s) |
[email protected]
|
| Organization name |
Tufts University
|
| Street address |
136 Harrison Ave
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02111 |
| Country |
USA |
| |
|
| Platform ID |
GPL20721 |
| Series (1) |
| GSE83138 |
Characterization of the Neisseria gonorrhoeae Iron and Fur Regulatory Network |
|
| Relations |
| BioSample |
SAMN05216875 |
| SRA |
SRX1832022 |
