|
| Status |
Public on Dec 07, 2021 |
| Title |
hfq replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
UV crosslinked bacterial culture, anti-FLAG coIP, ligation
|
| Organism |
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 |
| Characteristics |
strain: Hfq-3xFLAG SL1344
genotype: hfq
|
| Treatment protocol |
anti-FLAG coIP of Hfq-3xFLAG, proximinity RNA ligation
|
| Growth protocol |
wt and hfq-FLAG-tagged SL1344 strain was grown in LB to OD2.0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIzol RNA extraction
sRNA NEBNext kit for Illumina
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Library strategy: RIL-seq
adaptor sequences removed together with low quality ends and low-complexity reads
First 25 nucleotides of each read were mapped to SL1344 genome (NC_016810.1)
sorting of fragments into single or chimeric fragments
RILseq, deposited at pypi (https://pypi.python.org/pypi/RILseq)
Genome_build: NC_016810.1
Supplementary_files_format_and_content: spread sheet table, counts of statistically significant chimeras
|
| |
|
| Submission date |
Dec 16, 2020 |
| Last update date |
Dec 07, 2021 |
| Contact name |
Jörg Vogel |
| E-mail(s) |
[email protected]
|
| Organization name |
Würzburg University
|
| Department |
Institute for Molecular Infection Biology
|
| Lab |
Jörg Vogel lab
|
| Street address |
Josef-Schneider-Straße 2
|
| City |
Würzburg |
| ZIP/Postal code |
97080 |
| Country |
Germany |
| |
|
| Platform ID |
GPL20056 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN17092600 |
| SRA |
SRX9690515 |
