|
| Status |
Public on Nov 01, 2018 |
| Title |
ModA4 OFF 1 |
| Sample type |
SRA |
| |
|
| Source name |
non-typeable Haemophilus influenzae strain C486
|
| Organism |
Haemophilus influenzae |
| Characteristics |
strain: C486
genotype/variation: ModA4 OFF
genotype/variation: methyltransferase absent
|
| Growth protocol |
mid-log cultures in supplemented BHI (sBHI; containing haemin and NAD)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using Trizol according to manufacturer's protocol
RNA libraries were prepared for sequencing using standard Illumina TruSeq protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina bcl2fastq 2.20.0.422 pipeline
bowtie aligner (2.3.2) was used to map reads to the C486 genomic DNA sequence; accession number CP007471
edgeR version 3.18.1 was used to perform differential expression analysis.
Supplementary_files_format_and_content: .txt files - abundance measurements and expression differences modA4 ON vs modA4 OFF
|
| |
|
| Submission date |
Oct 26, 2018 |
| Last update date |
Nov 01, 2018 |
| Contact name |
John Michael Atack |
| E-mail(s) |
j.atack@griffith.edu.au
|
| Organization name |
Griffith University
|
| Department |
Institute for Glycomics
|
| Street address |
Gold Coast Campus
|
| City |
Gold Coast |
| State/province |
QLD |
| ZIP/Postal code |
4215 |
| Country |
Australia |
| |
|
| Platform ID |
GPL25730 |
| Series (2) |
| GSE121832 |
Haemophilus influenzae strain C486 RNA SEQ NTHi modA4 |
| GSE121835 |
RNA Seq to study gene expression changes mediated by phase-variable DNA methyltransferases in non-typeable Haemophilus influenzae |
|
| Relations |
| BioSample |
SAMN10319731 |
| SRA |
SRX4939840 |
