|
Status |
Public on Apr 01, 2016 |
Title |
EV5 |
Sample type |
SRA |
|
|
Source name |
MG1655 recN OD0,2 with MMC 20 min
|
Organism |
Escherichia coli str. K-12 substr. MG1655 |
Characteristics |
od: 0.2 strain: MG1655 recN
|
Growth protocol |
E. coli K12 MG1655 where grown in minimal medium A supplemented with casaminoacids 0,2% and glucose 0,25% until OD 0.2, treated or not with MMC (10µg/ml) for 20 or 40 min. Total RNA where immediatly extracted.
|
Extracted molecule |
total RNA |
Extraction protocol |
Genejet RNA purification kit (Thermo) Libraries were prepared according to Illumina's instructions accompanying the TruSeq SBS Kit Transcriptome . Libraries were sequenced on the Genome Analyzer following the manufacturer's protocols.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina Genome Analyzer |
|
|
Data processing |
Basecalls performed using CASAVA-1.8.2 (demultiplexing), Fastqc 0.10.1 (read quality), RNA-seq reads were aligned to the NC_000913 genome assembly using Rockhopper Supplementary_files_format_and_content: mRNA profiling and RKPM were performed with Rockhopper
|
|
|
Submission date |
Nov 10, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Olivier Espeli |
E-mail(s) |
olivier.espeli@college-de-france.fr
|
Phone |
33144271249
|
Organization name |
College de France
|
Department |
CIRB
|
Street address |
11 place Marcelin Berthelot
|
City |
Paris |
ZIP/Postal code |
75005 |
Country |
France |
|
|
Platform ID |
GPL17137 |
Series (1) |
GSE74882 |
Genome-wide analysis of E.coli response to mitomycin (MMC) treatment in wild type and recN mutant |
|
Relations |
BioSample |
SAMN04254624 |
SRA |
SRX1426253 |