|
| Status |
Public on Feb 08, 2017 |
| Title |
mfd_XR-seq_exp1 |
| Sample type |
SRA |
| |
|
| Source name |
mfd_XR-seq
|
| Organism |
Escherichia coli |
| Characteristics |
strain: MfdK33
genotype/variation: mfd -
|
| Treatment protocol |
Irradiation at an OD600 of 0.8 with 120 J/m2 UVC at room temperature. Chilled after 5 minutes.
|
| Growth protocol |
Nonselective LB medium at 37o.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
HIRT lysis procedure.
Hu et al. 2015 Genes Dev 29(9):948-960 procedure.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
adaptor trimming
filtering reads based on length
random sampling
alignment
read filtering based on nucleotide composition
strand separation
gene coverage count
Genome_build: NC_000913.2
|
| |
|
| Submission date |
Dec 22, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ogun Adebali |
| Organization name |
Sabanci University
|
| Department |
Faculty of Natural Sciences and Engineering
|
| Lab |
Adebali Lab
|
| Street address |
Orta Mah. Universite Cad No 27
|
| City |
Istanbul |
| ZIP/Postal code |
34956 |
| Country |
Turkey |
| |
|
| Platform ID |
GPL18133 |
| Series (1) |
| GSE92734 |
Genome-wide Transcription-coupled Repair in E.coli is Mediated by the Mfd Protein |
|
| Relations |
| BioSample |
SAMN06174405 |
| SRA |
SRX2439932 |
