|
| Status |
Public on May 20, 2022 |
| Title |
MG1655-WT-TR1 |
| Sample type |
SRA |
| |
|
| Source name |
Escherichia coli K-12 substr. MG1655 cells
|
| Organism |
Escherichia coli str. K-12 substr. MG1655 |
| Characteristics |
genotype/variation: wildtype
|
| Treatment protocol |
N/A
|
| Growth protocol |
LB broth log phase
|
| Extracted molecule |
total RNA |
| Extraction protocol |
hot phenol
Dual adaptor ligation sRNA protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Basecalling was performed with RTAVersion 2.4.11
Demultiplexing with bcl2fastq v2.20.0.422
Trimming performed with cutadapt version 2.1
rRNA filtering with SortMeRNA 2.1
Mapping with segemehl 3.4
Coverage file creation with Reademption
Genome_build: ASM584v2
Supplementary_files_format_and_content: wig files were generated in Reademption single nucleotide mapping style and converted to bigwig
|
| |
|
| Submission date |
May 20, 2019 |
| Last update date |
May 20, 2022 |
| Contact name |
Florian Eggenhofer |
| Organization name |
University of Freiburg
|
| Department |
Institute for Informatics
|
| Lab |
Chair for Bioinformatics
|
| Street address |
Georges Köhler Allee 106
|
| City |
Freiburg |
| ZIP/Postal code |
79110 |
| Country |
Germany |
| |
|
| Platform ID |
GPL21117 |
| Series (1) |
| GSE131514 |
RiboReport - Benchmarking ribosome profiling based identification of open reading frames in bacteria. |
|
| Relations |
| BioSample |
SAMN11787751 |
| SRA |
SRX5869574 |
