|
| Status |
Public on Sep 02, 2018 |
| Title |
M. smemgtias MC2 155_6C sRNA inducible vector_uninduced |
| Sample type |
SRA |
| |
|
| Source name |
Induced
|
| Organism |
Mycolicibacterium smegmatis |
| Characteristics |
strain background: MC2 155
genotype/variation: 6C sRNA inducible vector (PMV261)
treatment: with ATC induction
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol
total RNA straned
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
X3hYD
|
| Data processing |
The raw reads were filtered by Seqtk and then mapped to the M. smegmatis mc2-155 strain reference sequence (GenBank NC_008596) using Bowtie2 (version: 2-2.0.5)
Counting of reads per gene was performed using HTSeq followed by TMM (trimmed mean of M-values) normalization
Differentially expressed genes were defined as those with a false discovery rate Q < 0.05 and fold-change ≥2 using the edgeR software
Genome_build: NC_008596
Supplementary_files_format_and_content: RPKM abundance
|
| |
|
| Submission date |
Sep 01, 2018 |
| Last update date |
Sep 02, 2018 |
| Contact name |
Juntao Mai |
| E-mail(s) |
[email protected]
|
| Organization name |
Univerisity of Toronto
|
| Street address |
661 univerisity ave
|
| City |
Toronto |
| ZIP/Postal code |
M4Y0A5 |
| Country |
Canada |
| |
|
| Platform ID |
GPL25523 |
| Series (1) |
| GSE119364 |
Characterize the regulon of 6C sRNA in Mycobacteria smegmatis |
|
| Relations |
| BioSample |
SAMN09945137 |
| SRA |
SRX4632665 |
