|
| Status |
Public on Jun 21, 2019 |
| Title |
MT2 |
| Sample type |
SRA |
| |
|
| Source name |
Sputum
|
| Organism |
Acinetobacter baumannii |
| Characteristics |
genotype: delta_abaI::Km
strain: 863
|
| Treatment protocol |
Replacement knockout of N-acylhomoserine lactone synthase gene, abaI
|
| Growth protocol |
LBB, 37 °C, OD 2.75(wild type), OD 2.25(ΔabaI::Km)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Bacterial cells were harvested and RNA was stabilised with RNAprotect Bacteria Reagent. RNA was then extracted using Nucleospin RNA extraction kit
Library was constructed using ScriptSeq v2 RNA-Seq Library Prep Kit according to manufacturer's protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
CLC Genomics Workbench version 7.5 (Assembly)
HTSeq-count (Raw count generation)
DESeq2 (Differential expression analysis)
Supplementary_files_format_and_content: tab-delimited text files include raw counts, normalized counts and expression for each sample. Differential expression file includes gene accessions and statistics.
|
| |
|
| Submission date |
Sep 23, 2018 |
| Last update date |
Jun 21, 2019 |
| Contact name |
Chung Kiat Ng |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Malaya
|
| Street address |
Jalan Universiti
|
| City |
Lembah Pantai |
| ZIP/Postal code |
50603 |
| Country |
Malaysia |
| |
|
| Platform ID |
GPL19442 |
| Series (1) |
| GSE120346 |
Transcriptome profiling of wild type and ΔabaI::Km mutant |
|
| Relations |
| BioSample |
SAMN10106054 |
| SRA |
SRX4730170 |
